Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1740
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 654062
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 2 of 4
Found at i:236293 original size:21 final size:21
Alignment explanation
Indices: 236242--236296 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
236232 CTACCACTGT
236242 TTGTATCGATACATGGGACAA
1 TTGTATCGATACATGGGACAA
* *
236263 -TGTATTGATACATGATGA-AA
1 TTGTATCGATACATG-GGACAA
236283 TTGTATCGATACAT
1 TTGTATCGATACAT
236297 TGCTTGTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (21 bp):
TTGTATCGATACATGGGACAA
Found at i:243431 original size:13 final size:13
Alignment explanation
Indices: 243413--243439 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
243403 ACATTATGCT
243413 TTGTATCGATACA
1 TTGTATCGATACA
243426 TTGTATCGATACA
1 TTGTATCGATACA
243439 T
1 T
243440 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:243473 original size:20 final size:19
Alignment explanation
Indices: 243423--243479 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
243413 TTGTATCGAT
243423 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
243442 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
*
243461 ACAATTGTTTCGATACATG
1 AC-ATTGTATCGATACATG
243480 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:243553 original size:33 final size:34
Alignment explanation
Indices: 243508--243577 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
243498 CTACCACTGT
* *
243508 TTGTATCGATACATG-GGACAA-TGTATCGATATA
1 TTGTATCAATACATGAGGA-AATTGTATCGATACA
*
243541 TTGTATCAATACATGATGAAATTGTATCGATACA
1 TTGTATCAATACATGAGGAAATTGTATCGATACA
243575 TTG
1 TTG
243578 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 16 0.50
34 16 0.50
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (34 bp):
TTGTATCAATACATGAGGAAATTGTATCGATACA
Found at i:245414 original size:2 final size:2
Alignment explanation
Indices: 245407--245433 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
245397 AAAATATGAA
245407 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
245434 CTAGAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:245880 original size:18 final size:19
Alignment explanation
Indices: 245843--245883 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
245833 TATAATTAAA
*
245843 TTTAAATAAAATATATTAT
1 TTTAAATAAAATATACTAT
*
245862 TTTAATTAAAA-ATACTAT
1 TTTAAATAAAATATACTAT
245880 TTTA
1 TTTA
245884 GACCAAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAATAAAATATACTAT
Found at i:246243 original size:18 final size:17
Alignment explanation
Indices: 246212--246275 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
246202 TATTTAAGAT
*
246212 ATTTTATATTTATATAA
1 ATTTTATATATATATAA
246229 ATTTTGATATATATAT-A
1 ATTTT-ATATATATATAA
* *
246246 A-TTTAT-TTTATATAG
1 ATTTTATATATATATAA
*
246261 ATTTTA-AAATATATA
1 ATTTTATATATATATA
246276 TTCATCTCGT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 13 0.34
17 7 0.18
18 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTTATATATATATAA
Found at i:246265 original size:32 final size:33
Alignment explanation
Indices: 246214--246276 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
246204 TTTAAGATAT
* *
246214 TTTATATTTATATAAATTTTGATATATATATAA
1 TTTATATTTATATAAATTTTAAAATATATATAA
*
246247 TTTAT-TTTATATAGATTTTAAAATATATAT
1 TTTATATTTATATAAATTTTAAAATATATAT
246277 TCATCTCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (33 bp):
TTTATATTTATATAAATTTTAAAATATATATAA
Found at i:246266 original size:16 final size:16
Alignment explanation
Indices: 246195--246266 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 16
246185 TTATTGTGTC
* *
246195 ATAATTTTAT-TTAAG
1 ATAATTTTATATTTAT
246210 AT-ATTTTATATTTAT
1 ATAATTTTATATTTAT
*
246225 ATAAATTTTGATATATAT
1 AT-AATTTT-ATATTTAT
246243 ATAA-TTTAT-TTTAT
1 ATAATTTTATATTTAT
246257 ATAGATTTTA
1 ATA-ATTTTA
246267 AAATATATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
14 14 0.30
15 10 0.21
16 7 0.15
17 7 0.15
18 9 0.19
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (16 bp):
ATAATTTTATATTTAT
Found at i:251742 original size:18 final size:18
Alignment explanation
Indices: 251685--251744 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
251675 TTTCGGTTAT
* * *
251685 AAAATGACAAAAACAAAT
1 AAAAAGACAAAAAAAAAC
* *
251703 AAAAA-ATAAAAAAGCAAC
1 AAAAAGACAAAAAA-AAAC
*
251721 AAAAAGACAAAAAAAAAG
1 AAAAAGACAAAAAAAAAC
251739 AAAAAG
1 AAAAAG
251745 CTGGTTACCA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 6 0.19
18 19 0.59
19 7 0.22
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.05
Consensus pattern (18 bp):
AAAAAGACAAAAAAAAAC
Found at i:253027 original size:13 final size:13
Alignment explanation
Indices: 253009--253033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
252999 AGATTGCACA
253009 GTATCGATACATT
1 GTATCGATACATT
253022 GTATCGATACAT
1 GTATCGATACAT
253034 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:253050 original size:20 final size:21
Alignment explanation
Indices: 253021--253073 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
253011 ATCGATACAT
*
253021 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAACAGAA
* *
253041 TGTATAGATACTTGAACAGAA
1 TGTATCGATACATGAACAGAA
253062 TGTATCGATACA
1 TGTATCGATACA
253074 GGTCATTGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAACAGAA
Found at i:253178 original size:33 final size:32
Alignment explanation
Indices: 253115--253178 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
253105 CTTAACTGTT
*
253115 TGTATCGATACACACAATATATATCGATACAA
1 TGTATCGATACACACAAAATATATCGATACAA
* *
253147 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATATATCGATACA
253179 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATATATCGATACAA
Found at i:255899 original size:21 final size:21
Alignment explanation
Indices: 255866--255906 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
255856 CTAAGTAAAA
255866 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
255887 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
255907 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:255971 original size:20 final size:19
Alignment explanation
Indices: 255946--256016 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
255936 ACCCTGAAAA
255946 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
255966 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
255985 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
256006 GTATCGATACA
1 GTATCGATACA
256017 GGTCATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:256061 original size:19 final size:19
Alignment explanation
Indices: 256034--256070 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
256024 GGCAGTAGCC
*
256034 AAATTTGTATCGATACATA
1 AAATATGTATCGATACATA
*
256053 AAATATGTATTGATACAT
1 AAATATGTATCGATACAT
256071 TGGAAGTAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (19 bp):
AAATATGTATCGATACATA
Found at i:256112 original size:10 final size:10
Alignment explanation
Indices: 256093--256153 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
256083 AATCTCATTT
256093 TCACTGTTCA
1 TCACTGTTCA
*
256103 TCACTATTCA
1 TCACTGTTCA
256113 TCACTGTTCA
1 TCACTGTTCA
* *
256123 TGTA-TCGATACA
1 T-CACT-G-TTCA
256135 TCACTGTTCA
1 TCACTGTTCA
256145 -CACTGTTCA
1 TCACTGTTCA
256154 CGTATCACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
9 9 0.22
10 23 0.56
11 4 0.10
12 5 0.12
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.38
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:256239 original size:13 final size:13
Alignment explanation
Indices: 256221--256246 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
256211 ACATATTTGT
256221 GTGTATCGATACA
1 GTGTATCGATACA
256234 GTGTATCGATACA
1 GTGTATCGATACA
256247 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:256788 original size:34 final size:35
Alignment explanation
Indices: 256725--256791 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
256715 CTAAGTGATT
256725 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
256761 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
256792 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:256930 original size:28 final size:28
Alignment explanation
Indices: 256890--256953 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
256880 ACGTAGGTGC
256890 CGTGTTTGGACCGAACCTCTATAAATCT
1 CGTGTTTGGACCGAACCTCTATAAATCT
256918 CGTGTTTGGACCGAACCTCTATAAATCT
1 CGTGTTTGGACCGAACCTCTATAAATCT
256946 CGTGTTTG
1 CGTGTTTG
256954 ATCTTTCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.34
Consensus pattern (28 bp):
CGTGTTTGGACCGAACCTCTATAAATCT
Found at i:260746 original size:13 final size:13
Alignment explanation
Indices: 260728--260766 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
260718 ACAGGATTCT
260728 CTGTATCGATACA
1 CTGTATCGATACA
260741 CTGTATCGATACA
1 CTGTATCGATACA
*
260754 GTGTATCGATACA
1 CTGTATCGATACA
260767 AAGGGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:263243 original size:13 final size:13
Alignment explanation
Indices: 263225--263249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
263215 AGATTGCACA
263225 GTATCGATACATT
1 GTATCGATACATT
263238 GTATCGATACAT
1 GTATCGATACAT
263250 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:263281 original size:21 final size:20
Alignment explanation
Indices: 263237--263289 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
263227 ATCGATACAT
**
263237 TGTATCGATACATGACCAAA
1 TGTATCGATACATGAAAAAA
*
263257 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAA-AA
*
263278 TGTACCGATACA
1 TGTATCGATACA
263290 GGTCATTGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:263367 original size:13 final size:13
Alignment explanation
Indices: 263349--263374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
263339 TACACACAAT
263349 ATGTATCGATACA
1 ATGTATCGATACA
263362 ATGTATCGATACA
1 ATGTATCGATACA
263375 TCCCAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:266558 original size:414 final size:415
Alignment explanation
Indices: 265773--266610 Score: 945
Period size: 414 Copynumber: 2.0 Consensus size: 415
265763 CTTGTAACAG
* * * * *
265773 TCTCCATTCTTTTCAAGAATAGGAGCCAAGAATACATTCTCTTTATTAGGATACATGACATTGAT
1 TCTCCATTTTTTTCAAGATTAGGAACCAAAAACACATTCTCTTTATTAGGATACATGACATTGAT
* * * * ** * *
265838 GCTTTGGTGTTGTAA-CAAAAGTTTTCCTTTCCATTGTTTTTGATAGAATCAAAGTTTGTCTCTT
66 GCTTTGGTGTCGCAAGAAAAACTTTT-CTTTCCATCATTTTTGATAGAGTCAAAGTTTGTCTATT
* * * ** * * *
265902 AAATATGACAAACATTAATAGTTAATAGTTATACTAATTGCCATTCTTTTCAGTATTTGGCACCA
130 CAATAAGAC--A-A--AAT-G--AATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACTA
* * * * *
265967 TAAACATAGTCTTCTTATAAGGATACATGATATTAACGCTTTGGTTTCGCAAGAAAGGCTTCTTT
187 TAAACTTAGTCTTCTTATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTT
* * * * *
266032 CCTC-CTAATTTTTATAAAGTCTAATTTCTTACCACAAATGAGACAAACTTGGATTCTA-TCAAT
252 CC-CACCAATTTTTATAAAGTCTAAGTT-TTGCCTCAAATGAGACAAACATGGATTCTAGT-AAT
* * * * * * *
266095 GATCCTCGTTCGCTTTGTGATTAAGCACTATAAACACATTTTCCTCATTAGGATAAATGATATTA
314 GATCTTCATTCGTTTTGTAATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTG
*
266160 ATGGTATTCTTTTGCATGAAAATCTTTTCTTT-GCC-C
379 ATGAT-TTCTTTTGCATGAAAATCTTTTCTTTGGCCAC
* * * **
266196 TCTCCATTTTTTTCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATATACAACATTGAT
1 TCTCCATTTTTTTCAAGATTAGGAACCAAAAACACATTCTCTTTATTAGGATACATGACATTGAT
* * * *
266261 ACTTTGGCGACGCAAGAAAAACTTTTCTTTCCATCATTTTT-ATAGAGTCAAAGTTTGTCTTTTC
66 GCTTTGGTGTCGCAAGAAAAACTTTTCTTTCCATCATTTTTGATAGAGTCAAAGTTTGTCTATTC
266325 AATAAGACAAAATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACTATAAACTTAG
131 AATAAGACAAAATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACTATAAACTTAG
* *
266390 TCTTCTTATAAGGATACACGATATTGATGCTTTGG-TTCTACAAGAAATGCTTTTTTCCCACCAA
196 TCTTCTTATAAGGATACACGATATTGATGCTTTGGTTTC-GCAAGAAAGGCTTTTTTCCCACCAA
* * * *
266454 TTTTTATAAACTCTAAGTTTATGCCTCAAAAGAGACAACCATGCATTCTAGTAATGATCTTCATT
260 TTTTTATAAAGTCTAAGTTT-TGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATT
* *
266519 CGTTTTGTAATTAGGCACTATAAACACATTCTACTCATTAGGATAAATGATATTGATGATTTTTT
324 CGTTTTGTAATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGA-TTTCT
*
266584 TTTGCATAGAAATAT-TTTTATTTGGCC
388 TTTGCAT-GAAA-ATCTTTTCTTTGGCC
266611 TATTTTCCTT
Statistics
Matches: 350, Mismatches: 56, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
413 5 0.01
414 208 0.59
415 13 0.04
416 6 0.02
417 3 0.01
419 1 0.00
420 1 0.00
422 27 0.08
423 78 0.22
424 8 0.02
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (415 bp):
TCTCCATTTTTTTCAAGATTAGGAACCAAAAACACATTCTCTTTATTAGGATACATGACATTGAT
GCTTTGGTGTCGCAAGAAAAACTTTTCTTTCCATCATTTTTGATAGAGTCAAAGTTTGTCTATTC
AATAAGACAAAATGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACTATAAACTTAG
TCTTCTTATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTTTTCCCACCAAT
TTTTATAAAGTCTAAGTTTTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCG
TTTTGTAATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTCTTTT
GCATGAAAATCTTTTCTTTGGCCAC
Found at i:271879 original size:476 final size:474
Alignment explanation
Indices: 266677--273105 Score: 6364
Period size: 476 Copynumber: 13.6 Consensus size: 474
266667 ATCATTTAAG
* * *
266677 AACACATTCTCTTCATTATGATACATGACATTGATGCTTTGGTGTCTCAAGAAAAGCTTTTCTTT
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTTT
* * * *
266742 CCATCA-TTTTTGATA-AAGTCAAAGTTTGTCTATTCAATAAGACAAAGATGAATAGTCATACTA
66 -CA-CAGTTTTTGATAGAA-TCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTA
* * ** *
266805 ATCCCCATTCTTTTCAGGATTAGGCACTATAAACTTAGTCTTCACATAAGGATACACGTTATTGA
128 ATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTGA
* * * *
266870 TGCCTTCGTTTCGCAAGTAAGGCTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCT-TGCCTC
193 TGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTT-TGTGCCTC
* * * *
266934 AAATGAGGCAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTAATTAGACACTATAAATAC
257 AAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * * *
266999 ATTCTCCTCATTGGGATAAATGATATTGATAATTCTCTTTTACATGAAAATC-TTTCTTTTG-CC
322 ATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAAG-AAATCTTTTC-TTTGCCC
* * * * *
267062 TATTTTCCTTAAAATAAAAGTTCATCCCTTAAATAAGACAAGAATTGATTCTCATAATAGTCTCC
385 TATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCC
267127 ATTCTTTTCAAGATTGGGAACCAAA
450 ATTCTTTTCAAGATTGGGAACCAAA
* * * * *
267152 AACATATTCTTTTCATTAGGATACATGACATTGACGCATTAATGTCGCAAGAAAAG-TATTTCTT
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCT-TTTCTT
* * *
267216 TCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTCAAATAAGA-AAA-AGTGAATAGTCATACTA
65 TC-ACAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACA-TGAATAGTTATACTA
* * * * * * * * *
267279 ATCCCTATTTTTTTCAGGATTTGGCACCATATACCTAGTCTTCATATAATGATACATGATATTTA
128 ATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTGA
* ** *
267344 TGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTCGTAAAGTCTAAGTTCATGCCTTA
193 TGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCA
* * * * * *
267409 ACTGTGACAAACCTGGATTCTAGTAATGATCTTTAATCATTTTGTGAGTAGGCACTATAAACACA
258 AATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * *
267474 TTCTCCTCATTTGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCATTTCTTTGCCCTA
323 TTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAAG-AAATCTTTTCTTTGCCCTA
* * * * * * * ** * * * *
267539 TTTTCCTTAAAATAAAAATTCATCTAC-AAAATATGACAACCATCAATTTTCATAACATTCTTCA
387 TTTTCCTTAAAATCAAAGTTCATC-CCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCA
* * *
267603 TTCTTTTCAAGATTGGAAACTAAG
451 TTCTTTTCAAGATTGGGAACCAAA
* * * ** *
267627 AACACATTCTCTTCATAACGATACATGA-TTTGATGCTTTGGGGTCACAAGAAAAGCTTTTCTTT
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTTT
* * * * * * *
267691 CCATCA-TTTTTGATAGAGTCCAAGTTTGTCTCTTCAATAAGACAAATAGGAATAGTCATTCTAA
66 -CA-CAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAA
* ** *
267755 TCCCCATTCTTTTCAGGATTA-G-ACGCATAAACTTTTTCTTCTTATAAAGATACACGATATTGA
129 TCCCCATTCTTTTCAGGATTAGGCAC-CATAAACATAGTCTTCTTATAAGGATACACGATATTGA
* * * * *
267818 TGCTTTGGTTTCACAAGAAATGCTTTCTTCCCACCAATTTTTGTAAACTCTATGTTTGTTCCTCA
193 TGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCA
* * *
267883 AATGAGACAAACATGGATTCTAATAATGATCTTCATTCATTTTTTGATTAGGCACTATAAATACA
258 AATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * * * * * * *
267948 TTCTCTTTATTAGGATATATGATATTGATGATTTTCTTTTGCATGGAAATATTTTATTTACCTTA
323 TTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCA-AGAAATCTTTTCTTTGCCCTA
* * * * * * *
268013 TTTTCTTTAAAATGAAAATTCATCCCTTAAAT-AGGACAA-CAATCGATTTTCATAATC-GTCTT
387 TTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGG-CAAGC-ATTGATTCTCGTAA-CAGTCTC
* * * *
268075 CATTCTTTTCATGATTAGGAACCGAG
449 CATTCTTTTCAAGATTGGGAACCAAA
* * * * * * * *
268101 AACACATTTTTTTCATTACGATACATGACATTAATACTTTGGTGTCACGAGAAAAGCTTTTCTTT
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTTT
* * * * * *
268166 CCATCA-TTTTTAATAAAATCAAAGTTTGTTTCTTATATAAGACAAACATGAATGGTCATACTAA
66 -CA-CAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAA
* * * * *
268230 -CCCCATTCTTTTTAGGATTTGGCACCATAAACATAGCCTTCTTATAAGAATACATGATATTGAT
129 TCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTGAT
* * * * * **
268294 GCTTTGGGTTCGCAAGAAAGGCTTTCTACCC-CCAAATTTTTGTAGATTCTAAATTCATGCCTCA
194 GCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACC-AATTTTTGTAAAGTCTAAGTTTGTGCCTCA
* * * * *
268358 ATTGTGACAAACATGGATTTTAGTAATGATCATCATTCTTTTTGTGATTAGGCACTATAAACACA
258 AATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * *
268423 TTCTACTCATTAGGATAAATGATATTGATGATTTTCTTTTG-AATGAAAATATTTTATTTGCCCT
323 TTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAA-G-AAATCTTTTCTTTGCCCT
* * *
268487 ATTTTCC-T---ATC---G-------CTTAAATATGACAA-CTAATGAGTT-TCGTAACCA-TCT
386 ATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGC-ATTGA-TTCTCGTAA-CAGTCT
* * * *
268535 TCATTCTTTTCACGATTGGAAACCAAG
448 CCATTCTTTTCAAGATTGGGAACCAAA
* * *
268562 AACACATTCTCTTCATTATGATACATGACATTGATGCTTTTAGGTCGCAAGAAAAGCTTTTCTTT
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTTT
* * * * * *
268627 CCATAGTTTTTGGTAGAATCAAAGTTTGTCTTTTCAATAAGACAAACATGAGTAGTCATACTAAT
66 -CACAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAAT
* * * ** * *
268692 CTCCATTCTTTTCAGGATTAGGCACTATAAACTTAGTCTTCACATAAGAATACACGCTATTGATG
130 CCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTGATG
* * * * *
268757 CTTTTGTTTTGGAAGAAAAGCTTTCTTCCTACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAA
195 CTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAA
** * * * * * *
268822 TGAGGTAAACATGGATTCTAGTAATTATCTTCATTCATTTTGTGAGTAGGCATTTTATACAGATT
260 TGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATT
* * *
268887 CTCCTTATTAGGATAAATGTTATTAATGA-TTT-TTTT-CAAGGAAATCTTTTCTTTGCCCTA-T
325 CTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAA-GAAATCTTTTCTTTGCCCTATT
* * * * * *
268948 TTCCTTAAAATCGAGGTTCATCCCTTTAATAAGGTAGGCATTGATTCTCGTAACAGACTCCATTC
389 TTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTC
*
269013 GTTTCAA-ATTTGGGAACCAAA
454 TTTTCAAGA-TTGGGAACCAAA
** * * * * * * *
269034 AATGCATTCCCTTCCA-CATGATACAAGATATTGATGTTGTTG-TGTCGCAAGAAAAGTTTTTCT
1 AACACATTCTCTT-CATTAGGATACATGACATTGATGCT-TTGATGTCGCAAGAAAAGCTTTTC-
* * * * *
269097 TTTCACTGTTTTTGATAGAATCAAAGTTTCTCTCTTAAATAAAACATACATTAATAGTTATACTA
63 TTTCACAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTA
* * * *
269162 ATCCCTATTCTTTTCAGGATTTA-GCACGAGAAACATAGTCTTCTTATAAGGATACATGATATTG
128 ATCCCCATTCTTTTCAGGA-TTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTG
* * *
269226 ATGCTTTGGTTTTGCAAGAAAGGCTTTCTTCCC-CCGAATTTTTGTAAAGTCTAGGTTTGTGTCT
192 ATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACC-AATTTTTGTAAAGTCTAAGTTTGTGCCT
* * *
269290 CAATTGTGACAAACATGGATTCTAGTAATGATCATCATTCATTTTGTGA--AGGCACTATAAACA
256 CAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACA
* ** * * * **** * *
269353 CATTCTCTTCATTATCATAAATGATATTAATGGTATTCTTTTATGTGAAAGTCTTTTCATTGCTC
321 CATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAAGAAA-TCTTTTCTTTGCCC
* * * * *
269418 TATTTTCCTGAAAATCAAAGTTCATCTCTTAAATAAGGCAAGTATTGATTCTCGTAATAGTTTCC
385 TATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCC
* *
269483 ATTCTTTTCAAAATTGGGAACTAAA
450 ATTCTTTTCAAGATTGGGAACCAAA
* * * * * * * **
269508 AACACATTCTCTTCCTCAGGAAAAAAGACATAGATGCTTTGATGTCGTAAGAAAAGCTTTTCTCC
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTTT
* * *
269573 CACTGTTTTTGATAGAATCATAGTTTATCTCTTAAATAAGA-AAAGCATGAATAGTTATACTAAT
66 CACAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAA-CATGAATAGTTATACTAAT
* * * * * *
269637 -CCCATTATTTTTAGGATTTGGCACCATAAACATAGTCTTCTTATAAGGATACATGACATTGACG
130 CCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTGATG
* * * ** *
269701 CTTTGGTTTTGCAAGAAAGGCTTTCTTCCCCCCAATTTTTGTAAAGTCTAAATTCCTACCTCAAA
195 CTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAA
* * * *
269766 TGAGACACACTTGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCAATATAAACACATT
260 TGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATT
* * * * * * * *
269831 CTCCTCTTTAAGAT-AATTATATTGATGGTATTCTTTTGCATGAAAATCTATTCTTTGCCCTAAT
325 CTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAAG-AAATCTTTTCTTTGCCCTATT
** * * *
269895 TTCCCAAAAATCAAAGTTCATTCCTTAAATAAGGCAAGAATTGATTCTCGTAACATTCTCCATTC
389 TTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTC
*
269960 TTTTCAAGATTGGGAACTAAA
454 TTTTCAAGATTGGGAACCAAA
* * * * * * ** *
269981 ATCACATT-TCCTTCCTTAGCATACAAGATATTGATG-TTTGGTGTCATAAGAAAAGCTTTCCTT
1 AACACATTCT-CTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTT
*
270044 TCCACTAG-TTTTGATAGAATCAAAGTTTGTCTCTGAAATAA-AGCAAACATGAATAGTTATACT
65 T-CAC-AGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGA-CAAACATGAATAGTTATACT
* * * * *
270107 AATCCCTATTCTCTTCAGTATTAGGCACCATAAACATAGTCTTCTTATGAGGATATAC-AGTATT
127 AATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGA-TATT
* ** * * * * * *
270171 AACACTTTGAG-TTCGCAAGAAAGGCTTTTTTCTCACCAATTTTAGTAAAGTATAAGTTTATGCA
191 GATGCTTTG-GTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCC
* * * * * *
270235 TCAAATGCGATAAAAATGGATTCTAGTAATGATCTTCATTCATTATGGGATTAATG-ACTATAAA
255 TCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATT-AGGCACTATAAA
* ** * * * * *
270299 CACATTCTCCTAAAAAGAATAAATGGTATTGATGATTATCTTTTGCATGGAAATCATTTCTTTGC
319 CACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCA-AGAAATCTTTTCTTTGC
* ** * * * * * * **
270364 CCTATTTTCTTTAAAATCAAAGTTCATTTCTTAAATAAAGAAAGCTTTAACTCTCGTAAGAACCT
383 CCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCT
270429 CCACTT-TTTTCAAGATTGGGAACCAAA
448 CCA-TTCTTTTCAAGATTGGGAACCAAA
* * * * *
270456 AACACATTCTTTTCATTAGGATACATGACATTAACGCTTT-AGGGTCGCAAGAAAAGCATTTCTT
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGA-TGTCGCAAGAAAAGCTTTTCTT
** * * ** * * * *
270520 TCAACCCTTTTTTATAGAATCGAAGTTTACCTAC-TCAGTAATACAAACATGAATAGTTATTCTA
65 TC-ACAGTTTTTGATAGAATCAAAGTTTGTCT-CTTAAATAAGACAAACATGAATAGTTATACTA
* * * * *
270584 ATCCCCATTTTTTTCAAGG-TTTGGCACCATAAAGATAGTCTTCTCAAAAGGATACACGATATTG
128 ATCCCCATTCTTTTC-AGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTG
* * *
270648 ATGCTTTGGTTTCACAAAAAAGGGCTTTCTTCCC-CTCAATTTTTGTAAAG-CGTAAGTTCGTGC
192 ATGCTTTGGTTTCGCAAGAAA-GGCTTTCTTCCCAC-CAATTTTTGTAAAGTC-TAAGTTTGTGC
* * ** * * * *
270711 CTCAATTGTGACAAATGTGGATTCTAGTAATAATCCTCATTCACTTTGTAATTAGGCACTATAAA
254 CTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAA
* * * * * *
270776 CACATTCTCTTCATTAGGATAAATGATATTAATGATTTTCTTTTACATGGAAACCTTTTCTTTTC
319 CACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCA-AGAAATCTTTTCTTTGC
* * * * * * *
270841 CCCATTTTCTTTAAAATAAAAATTCATCCTTTAAATATA-GCAAACATTGATTCTCGTAATAGTC
383 CCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATA-AGGCAAGCATTGATTCTCGTAACAGTC
* **
270905 TCCATTCTTTTCAAAATTGGG-TGCAAA
447 TCCATTCTTTTCAAGATTGGGAACCAAA
* * * ***
270932 GAACACATTCTCTTTATTAGGATATATGACATTGATGCTTTGGTGTAATAAGAAAAGCTTTTCTT
1 -AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTT
* * * * *
270997 TC-CATCGTTTTTGATAGAATCAAAGTTTGACTCTTCAATCAGATAAACATGAATAGTAATACTA
65 TCACA--GTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTA
* * * * **
271061 ATCCCCATTTTTTTTAGGATTTA-GCACCATAAACATTGTCTTCTGATAAGGATACATAATATTG
128 ATCCCCATTCTTTTCAGGA-TTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTG
* * * * *** *
271125 ATGGTTTGGTTTCGCAAGAAAGGCTTTCTTTCTACCAA---TTGTAAAGTCTATGTTCACGTCTC
192 ATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTC
* * * * ** * * * *
271187 AATTGTA-AAAAACATGGATTCTGGCAATGATCTTCATTTGTTTTGTGGTTAGGTAGTATAAATA
257 AAATG-AGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACA
* * * *
271251 CATTCT-CTACTTTAGGATAAATCATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTACC
321 CATTCTCCT-CATTAGGATAAATGATATTGATGATTTTCTTTTGCAAG-AAATCTTTTCTTTGCC
* * * * *
271315 CTATTTTTCTTAAAATCAAAGTTCATACCTTAAATAAGGCAAGCATTTATTCTCATAATAGTCTC
384 CTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTC
* *
271380 CATTCTTTTTAAGATTAGGAACCAAA
449 CATTCTTTTCAAGATTGGGAACCAAA
* * * * * *
271406 AATACATTCTTTTCAATAAGATACATGACATTGACGCTTTGATGTAGCAAGAAAAGCATTTT-TT
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGC-TTTTCTT
* * * *
271470 TCAGCAGTTTTTGATAGAATCAAAGTTTGTCTCTAAAACAAGGCAAATATGAATAGTTATACTAA
65 TCA-CAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAA
** * * * * * *
271535 TGTCCATTCTTTTCAGGATTAGGCACCATAACCATACTCATCTTGTAAGGATAAACGATATTGAA
129 TCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTGAT
* *
271600 GCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCCATGTTTGTGCCTCAA
194 GCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAA
* * * * * * **
271665 ATGAGGCAAACATGGGTTCTTGTAAAGATATTCATTCATTTTGTGATTAGGAACTATAAATGCAT
259 ATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACAT
*
271730 TCTCCTCATTAGGATAAATGATATTAATGATTTTCTTTTGCACAGAAATCTTTTCTTTGCCCTAT
324 TCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCA-AGAAATCTTTTCTTTGCCCTAT
* * ** * *
271795 TTTGCTTAAAATCAAGGTTCATCCCTTAGGTAAAGCAAGCATTGATTCTCGTAACAGTCTTCATT
388 TTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATT
* *
271860 CTTTTTAAGAATGGGAACCAAA
453 CTTTTCAAGATTGGGAACCAAA
* * * * *
271882 AACACATTCTTTTCATTAGGATATATGAGATTGATGTTTTAATGTCGCAAGAAAAGCTTTTCTTT
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTC-TT
* * * * * *
271947 TAACCA-TTTTTTATAGAATTAAAGTTTGTCTTTTAAATAAGACAAACATGAATGGTCATACTAA
65 TCA-CAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAA
* * * *
272011 TCCCCATTCTTTTCAGGATTTGGCACCATAAACATAGTCTTCTCAAAAGAATACACGATATTGAT
129 TCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTGAT
* * * * * * **
272076 GTTTTGGGTTCGCAAG-AAGTGCTTTCTTCCC-CTAAATTTTCGTAGAGTCTAAATTTGCACCTC
194 GCTTTGGTTTCGCAAGAAAG-GCTTTCTTCCCAC-CAATTTTTGTAAAGTCTAAGTTTGTGCCTC
* * * *
272139 -AATTATGATAAACATTGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACA
257 AAATGA-GACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACA
* * * *
272203 CATTCTCCTCATTAAGATTAAA-GATATTAATGATTGTCTTTTGCAAGGAAACCTTTTCTTTGCC
321 CATTCTCCTCATTAGGA-TAAATGATATTGATGATTTTCTTTTGCAA-GAAATCTTTTCTTTGCC
* * * * * * * *
272267 CTATTATCGTTAAAATCAAAGTTTATCCCTTAAATTAGGTAGGCATTGATTCTCGTAATAGTGTC
384 CTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTC
* *
272332 CAATCTTTTCAAGATTGGAAACCAAA
449 CATTCTTTTCAAGATTGGGAACCAAA
* *
272358 AACACATTCTCTTCATTACGATACATGGCATTGATGCTTT-AGTGTCGCAAGAAAAGCTTTTCTT
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGA-TGTCGCAAGAAAAGCTTTTCTT
* * * * *
272422 TCAAACGTTTTTGATAGAATCAAAGTTTGTCTCTTCAATAATACAGACATGAATGGTTATACTAA
65 TCACA-GTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAA
* * ** * *
272487 TCCCCATTCTTTTCAGGATTA-GCCCCTATAAACTTAGTCTTCAAATAAGGATACACGAAATTAA
129 TCCCCATTCTTTTCAGGATTAGGCACC-ATAAACATAGTCTTCTTATAAGGATACACGATATTGA
* * * * * * **
272551 TGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACTAACTTTTGTAAACTCTAGGCTTACGCCTCA
193 TGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCA
* * * *
272616 AATGAGATAAACATGGATTCTAGTAATGATCTTCATTCGTTTTGTGATTAAGCATTATAAACACA
258 AATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * * * ** * *
272681 TTCTCCTTATTAGGATAAATGATATTAATGATTTTCTTTTCCATGGAAATAATTTATTTGGCCTA
323 TTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCA-AGAAATCTTTTCTTTGCCCTA
* * * * * * * * *
272746 TTTTCCTTAAAATAAAAATTCATCCCATAAATATGGCAACCATCGATTTTCATAACAGTCTACAT
387 TTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCAT
* *
272811 TCTTTTCAAGATTAGGAACCAAG
452 TCTTTTCAAGATTGGGAACCAAA
* * * *
272834 AACATATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGCTTTTCTTT
1 AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTTT
* * * *
272899 C-CATCGTTTTTGATAG-ATCAAAG-TT-TCTCTTTAATAAGACAAACATGAACAATTATACTAC
66 CACA--GTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAA
* *
272960 TCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTT-TACATAAGGAT----GATATTGA
129 TCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCT-TATAAGGATACACGATATTGA
* ** * * * * **
273020 CGCTTTGGTTTCATAAGAAAGGCTTTCTCCCCACAAACTTTTGAAAAGTCTAAGTTAATGCCTCA
193 TGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCA
*
273085 CTAATGA-A-AAATATGGATTCT
258 --AATGAGACAAACATGGATTCT
273106 TCTCATTAGG
Statistics
Matches: 4912, Mismatches: 898, Indels: 294
0.80 0.15 0.05
Matches are distributed among these distances:
458 5 0.00
459 18 0.00
460 8 0.00
461 156 0.03
462 188 0.04
463 2 0.00
465 1 0.00
469 73 0.01
470 38 0.01
471 18 0.00
472 475 0.10
473 727 0.15
474 937 0.19
475 690 0.14
476 1181 0.24
477 392 0.08
478 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (474 bp):
AACACATTCTCTTCATTAGGATACATGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTTT
CACAGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAATC
CCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATACACGATATTGATGC
TTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAAT
GAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
TCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAAGAAATCTTTTCTTTGCCCTATTTT
CCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTCTCCATTCTT
TTCAAGATTGGGAACCAAA
Found at i:274269 original size:476 final size:476
Alignment explanation
Indices: 273369--275337 Score: 1977
Period size: 476 Copynumber: 4.1 Consensus size: 476
273359 TTCTTATAAG
* * * ** * * *
273369 GAAAGGCTTTCTT-TCTACTAATTTTTGCAAAGCCTAAGTTCATGCCACAAATGTGACAAACATG
1 GAAAGGCTTTCTTCT-TACCAATTTTTGTAAAGTCTAAGTTTGTACCTCAAATGAGACAAACATG
* * * * *
273433 GATTCTTGTAGTGATCTTCATTTATTTTGTGATTAGGCACAATAAACACATTCTCCTCTTTAAGA
65 GATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAAGA
* * * * * **
273498 TAAATTATATTGATGATTTT-TTTCGTATGGAAATCTTTTCTTAGCTTTATTTTCATTAAAATC-
130 TAAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCATTAAAATCA
** * * * * *
273561 AAATTCCATCCTTTAAATAAGGGAAGCATTGATTCTTATAATAGTCTCCATTCATTTCAAGATTC
195 AAATT-CATCCCATAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTG
* * * * * * * *
273626 AGAACCAAAAATACATTTTTTTCCTTAGGATACATGACATTTACGCTTTGGTGTCGCAAGAAAAG
259 GGAACCAAAAACACATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAG
* *
273691 CATTTT-TTTCAGT-AGTTTTTGATAGAATCAAAGTTTGTCTCTAAAATAAGACAAACATGAATA
324 C-TTTTCTTTCAATCA-TTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATA
* * ** ** * * * *
273754 GTTATATTAATGTCTTTTTTTTTCAGGATTAGGCACCAT-AACTATACTTTTCTTG-TAGGGATA
387 GTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAAC-ATAGTCTTC-TGATAAGGATA
* * * *
273817 AACAATACTGAAGCTTTGGTTTCGTAA
450 CACAATATTGATGCTTTGGTTTCGCAA
* *
273844 GAAAGGCTTTCTTCTTACCAATTTTTGTAAAGTATATGTTTGTACCTCAAATGAGACAAACATGG
1 GAAAGGCTTTCTTCTTACCAATTTTTGTAAAGTCTAAGTTTGTACCTCAAATGAGACAAACATGG
* * * ** * * * *
273909 GTTCTTGTAAAGATCTTCATTTGTTTTGTTATTAGGCATTATAAATACATTCTCCTCATTAGGAT
66 ATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAAGAT
* ** *
273974 AAATGATATTGATGATTTTCTTTTGCACAGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAA
131 AAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCATTAAAATCAA
** * ** * * * * *
274039 GGTTCATCCCTTAGGTAAAGCAAGCATTGATTCTCGTAATAGTCTTCATTCTTTTTAAGATTGGG
196 AATTCATCCCATAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGG
* * ** * * *
274104 AACCAAAAACACATTCTTTTCATTA-GAATATATGGGATTGATGTTTTAGTGTCCCAAGAAAAGC
261 AACCAAAAACACATTCTCTTCATTACG-ATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGC
* * * * *
274168 TTTTCTTTTAACCATTTGTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACACGAATGGTC
325 TTTTCTTTCAATCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTC
* * * * ** **
274233 ACACTAATCCCCAATCTTTTCAGGATTTGTCACCATAAACATAGTCTTCTGATAAAAATACATGA
390 ATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTGATAAGGATACACAA
* *
274298 TATTGATGTTTTGGGTTCGCAA
455 TATTGATGCTTTGGTTTCGCAA
* * * *
274320 GAAAGGCTTTCTTCCCTTA--AATTTTTGTAGAGTCTAAATTTGCACCTC-AATTATGACAAACA
1 GAAAGGCTTTCTT--CTTACCAATTTTTGTAAAGTCTAAGTTTGTACCTCAAATGA-GACAAACA
* *
274382 TTGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAA
63 TGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAA
* * * * *
274447 GATTAAA-GATATTAATAATTGTCTTTTGCGTGGAAATCTTTTCTTTGCCCTACTATCATTAAAA
128 GA-TAAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCATTAAAA
* * ** * * *
274511 TCAAAGTTTATCCCATAAATTTGGCAGGCATTGATTCTCGTAACAGTGTCCAATT-TTTTCAAGA
192 TCAAAATTCATCCCATAAATAAGGCAAGCATTGATTCTCATAACAGTCTCC-ATTCTTTTCAAGA
* * * * *
274575 TTAGAAACTAAAAACATATTCTCTTCATTACGATACATGGCATTGATGCTTTGGTGTCGCAAGAA
256 TTGGGAACCAAAAACACATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCGCAAGAA
* * * *
274640 AAGATTTTCTTTCAATCGTTTTTGATAGAATCAAAGTTTGTCTCTTCAATAATACAAACATGAAT
321 AAGCTTTTCTTTCAATCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAAT
* * * *
274705 AGTCATACTGATCCCCATTCTTTTTAGGATTAGGC-CCTGTAAACATAGTCTTCAGATAAGGATA
386 AGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACC-ATAAACATAGTCTTCTGATAAGGATA
* *
274769 CACGAA-ATTGATGCTTTAGTTTCCCAA
450 CAC-AATATTGATGCTTTGGTTTCGCAA
* * * * *
274796 GAAAGGCTTTCTTCTCACCAATTTTTGTAAACTCTACGCTTGTGCCTCAAATGAGACAAACATGG
1 GAAAGGCTTTCTTCTTACCAATTTTTGTAAAGTCTAAGTTTGTACCTCAAATGAGACAAACATGG
* * *
274861 ATTCTAGTAATGATCTTCATTCGTTTTGTGATTAGGCACTATAAACACATTCTCCTTATTAGGAT
66 ATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAAGAT
* * ** * * * *
274926 AAATGATATTAATGATTCTCTTTTCCATGGAAATAATTTATTTGGCCTTTTTTTC-TTAAAATAA
131 AAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTT-GCCCTATTTTCATTAAAATCA
* * * * * ** *
274990 AAATTCATCCCATAAATATGACAACCATCGATTTTCATAACAGTCTTTATTCTTTTCATGATTGG
195 AAATTCATCCCATAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGG
* * * * * *
275055 GAACCAAGAACATATTCTCTTCATTATGATTCATGACATTGTTGCTTTGGTGTCACAAGAAAAGC
260 GAACCAAAAACACATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGC
* * * *
275120 TTTTCTTTCCATCATTTTTGATAGAATCAAAGTTTGTCTCTTTAATAAGATAAACATGAATAGTT
325 TTTTCTTTCAATCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTC
* * * * * *
275185 ATACTAATCCTCATTCTTTTCAGGGTTAGGCACTATAAACTTAGTCTT-TACATAAGGAT----G
390 ATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCT-GATAAGGATACACA
* * **
275245 ATATTGATGTTTTAGTTTCAAAA
454 ATATTGATGCTTTGGTTTCGCAA
* ** * ** *
275268 GAAAGGCATTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCATACCTCACTAATGA-A-AAATAT
1 GAAAGGCTTTCTTCTTACCAATTTTTGTAAAGTCTAAGTTTGTACCTCA--AATGAGACAAACAT
275331 GGATTCT
64 GGATTCT
275338 TCTCATTAGG
Statistics
Matches: 1230, Mismatches: 237, Indels: 57
0.81 0.16 0.04
Matches are distributed among these distances:
471 1 0.00
472 70 0.06
473 1 0.00
474 8 0.01
475 146 0.12
476 972 0.79
477 28 0.02
478 4 0.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (476 bp):
GAAAGGCTTTCTTCTTACCAATTTTTGTAAAGTCTAAGTTTGTACCTCAAATGAGACAAACATGG
ATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAAGAT
AAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCATTAAAATCAA
AATTCATCCCATAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGG
AACCAAAAACACATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCT
TTTCTTTCAATCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCA
TACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTGATAAGGATACACAAT
ATTGATGCTTTGGTTTCGCAA
Found at i:274999 original size:952 final size:950
Alignment explanation
Indices: 273422--275232 Score: 2239
Period size: 952 Copynumber: 1.9 Consensus size: 950
273412 GCCACAAATG
* * * *
273422 TGACAAACATGGATTCTTGTAGTGATCTTCATTTATTTTGTGATTAGGCACAATAAACACATTCT
1 TGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACAATAAACACATTCT
* * * * ** * *
273487 CCTCTTTAAGATAAATTATATTGATGATTTTTTTCGTATGGAAATCTTTTCTTAGCTTTATTTTC
66 CCTCATTAAGATAAATGATATTAATAATTTTTTTCG-ATGGAAATCTTTTCTTAGCCCTACTATC
** * * *
273552 ATTAAAATCAAATTCCATCCTTTAAATAAGGGAAGCATTGATTCTTATAATAGTCTCCATTCATT
130 ATTAAAATCAAATTCCATCCCATAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCATT
* * * * *
273617 TCAAGATTCAGAACCAAAAATACATTTTTTTCCTTAGGATACATGACATTTACGCTTTGGTGTCG
195 TCAAGATTCAGAAACAAAAATACATTTTCTTCATTACGATACATGACATTGACGCTTTGGTGTCG
*
273682 CAAGAAAAGCATTTTTTTCAGTAGTTTTTGATAGAATCAAAGTTTGTCTCTAAAATAAGACAAAC
260 CAAGAAAAGCATTTTTTTCAATAGTTTTTGATAGAATCAAAGTTTGTCTCTAAAATAAGACAAAC
* * ** * * * * *
273747 ATGAATAGTTATATTAATGTCTTTTTTTTTCAGGATTAGGCACCATAACTATACTTTTCTTGTAG
325 ATGAATAGTCATACTAATCCCATTCTTTTTCAGGATTAGGCACCATAACTATACTCTTCTAGTAA
* ** * *
273812 GGATAAACAATACTGAAGCTTTGGTTTCGTAAGAAAGGCTTTCTTCTTACCAATTTTTGTAAAGT
390 GGATAAACAATACTGAAGCTTTAGTTTCCCAAGAAAGGCTTTCTTCTCACCAATTTTTGTAAACT
* * * * * *
273877 ATATGTTTGTACCTCAAATGAGACAAACATGGGTTCTTGTAAAGATCTTCATTTGTTTTGTTATT
455 ATACGCTTGTACCTCAAATGAGACAAACATGGATTCTAGTAAAGATCTTCATTCGTTTTGTGATT
* * * * *
273942 AGGCATTATAAATACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCACAGAAA
520 AGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTAATGATTCTCTTTTCCACAGAAA
** * * ** * ** * *
274007 TCTTTTCTTTGCCCTATTTTCCTTAAAATCAAGGTTCATCCCTTAGGTAA-AGCAAGCATTGATT
585 TAATTTATTTGCCCTATTTTCCTTAAAATAAAAATTCATCCCATAAATAAGA-CAACCATCGATT
* * * *
274071 CTCGTAATAGTCTTCATTCTTTTTAAGATTGGGAACCAAAAACACATTCTTTTCATTA-GAATAT
649 CTCATAACAGTCTTCATTCTTTTCAAGATTGGGAACCAAAAACACATTCTCTTCATTATG-AT-T
** * * *
274135 -ATGGGATTGATGTTTTAGTGTCCCAAGAAAAGCTTTTCTTTTAACCATTTGTGATAGAATCAAA
712 CATGACATTGATGCTTTAGTGTCACAAGAAAAGCTTTTCTTTCAACCATTTGTGATAGAATCAAA
* * *
274199 GTTTGTCTCTTAAATAAGACAAACACGAATGGTCACACTAATCCCCAATCTTTTCAGGATTTGTC
777 GTTTGTCTCTTAAATAAGACAAACACGAATAGTCACACTAATCCCCAATCTTTTCAGGATTAGGC
274264 ACCATAAACATAGTCTTCTGATAAAAATACATGATATTGATGTTTTGGGTTCGCAAGAAAGGCTT
842 ACCATAAACATAGTCTTCTGATAAAAATACATGATATTGATGTTTTGGGTTCGCAAGAAAGGCTT
274329 TCTTCCCTTAAATTTTTGTAGAGTCTAAATTTGCACCTCAATTA
907 TCTTCCCTTAAATTTTTGTAGAGTCTAAATTTGCACCTCAATTA
* *
274373 TGACAAACATTGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCT
1 TGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACAATAAACACATTCT
*
274438 CCTCATTAAGATTAAA-GATATTAATAATTGTCTTTTGCG-TGGAAATCTTTTCTTTGCCCTACT
66 CCTCATTAAGA-TAAATGATATTAATAATT-T-TTTT-CGATGGAAATCTTTTCTTAGCCCTACT
* ** * * *
274501 ATCATTAAAATCAAAGTT-TATCCCATAAATTTGGCAGGCATTGATTCTCGTAACAGTGTCCAAT
127 ATCATTAAAATCAAA-TTCCATCCCATAAATAAGGCAAGCATTGATTCTCATAACAGTCTCC-AT
* * * *
274565 T-TTTTCAAGATT-AGAAACTAAAA-ACATATTCTCTTCATTACGATACATGGCATTGATGCTTT
190 TCATTTCAAGATTCAGAAACAAAAATACAT-TT-TCTTCATTACGATACATGACATTGACGCTTT
* **
274627 GGTGTCGCAAGAAAAG-ATTTTCTTTCAATCGTTTTTGATAGAATCAAAGTTTGTCTCTTCAATA
253 GGTGTCGCAAGAAAAGCATTTT-TTTCAATAGTTTTTGATAGAATCAAAGTTTGTCTCTAAAATA
* * * *
274691 ATACAAACATGAATAGTCATACTGATCCCCATTCTTTTT-AGGATTAGGC-CCTGTAAAC-ATAG
317 AGACAAACATGAATAGTCATACTAAT-CCCATTCTTTTTCAGGATTAGGCACC-AT-AACTATAC
* * *
274753 TCTTC-AGATAAGGATACACGAA-ATTGATGCTTTAGTTTCCCAAGAAAGGCTTTCTTCTCACCA
379 TCTTCTAG-TAAGGATAAAC-AATACTGAAGCTTTAGTTTCCCAAGAAAGGCTTTCTTCTCACCA
* * *
274816 ATTTTTGTAAACTCTACGCTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCAT
442 ATTTTTGTAAACTATACGCTTGTACCTCAAATGAGACAAACATGGATTCTAGTAAAGATCTTCAT
*
274881 TCGTTTTGTGATTAGGCACTATAAACACATTCTCCTTATTAGGATAAATGATATTAATGATTCTC
507 TCGTTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTAATGATTCTC
** * * * *
274946 TTTTCCATGGAAATAATTTATTTGGCCTTTTTTTCTTAAAATAAAAATTCATCCCATAAATATGA
572 TTTTCCACAGAAATAATTTATTTGCCCTATTTTCCTTAAAATAAAAATTCATCCCATAAATAAGA
* * * * *
275011 CAACCATCGATTTTCATAACAGTCTTTATTCTTTTCATGATTGGGAACCAAGAACATATTCTCTT
637 CAACCATCGATTCTCATAACAGTCTTCATTCTTTTCAAGATTGGGAACCAAAAACACATTCTCTT
* * * * *
275076 CATTATGATTCATGACATTGTTGCTTTGGTGTCACAAGAAAAGCTTTTCTTTCCATCATTTTTGA
702 CATTATGATTCATGACATTGATGCTTTAGTGTCACAAGAAAAGCTTTTCTTTCAACCATTTGTGA
* * * * * * *
275141 TAGAATCAAAGTTTGTCTCTTTAATAAGATAAACATGAATAGTTATACTAATCCTCATTCTTTTC
767 TAGAATCAAAGTTTGTCTCTTAAATAAGACAAACACGAATAGTCACACTAATCCCCAATCTTTTC
* * *
275206 AGGGTTAGGCACTATAAACTTAGTCTT
832 AGGATTAGGCACCATAAACATAGTCTT
275233 TACATAAGGA
Statistics
Matches: 719, Mismatches: 124, Indels: 33
0.82 0.14 0.04
Matches are distributed among these distances:
950 4 0.01
951 99 0.14
952 590 0.82
953 24 0.03
954 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (950 bp):
TGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACAATAAACACATTCT
CCTCATTAAGATAAATGATATTAATAATTTTTTTCGATGGAAATCTTTTCTTAGCCCTACTATCA
TTAAAATCAAATTCCATCCCATAAATAAGGCAAGCATTGATTCTCATAACAGTCTCCATTCATTT
CAAGATTCAGAAACAAAAATACATTTTCTTCATTACGATACATGACATTGACGCTTTGGTGTCGC
AAGAAAAGCATTTTTTTCAATAGTTTTTGATAGAATCAAAGTTTGTCTCTAAAATAAGACAAACA
TGAATAGTCATACTAATCCCATTCTTTTTCAGGATTAGGCACCATAACTATACTCTTCTAGTAAG
GATAAACAATACTGAAGCTTTAGTTTCCCAAGAAAGGCTTTCTTCTCACCAATTTTTGTAAACTA
TACGCTTGTACCTCAAATGAGACAAACATGGATTCTAGTAAAGATCTTCATTCGTTTTGTGATTA
GGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTAATGATTCTCTTTTCCACAGAAAT
AATTTATTTGCCCTATTTTCCTTAAAATAAAAATTCATCCCATAAATAAGACAACCATCGATTCT
CATAACAGTCTTCATTCTTTTCAAGATTGGGAACCAAAAACACATTCTCTTCATTATGATTCATG
ACATTGATGCTTTAGTGTCACAAGAAAAGCTTTTCTTTCAACCATTTGTGATAGAATCAAAGTTT
GTCTCTTAAATAAGACAAACACGAATAGTCACACTAATCCCCAATCTTTTCAGGATTAGGCACCA
TAAACATAGTCTTCTGATAAAAATACATGATATTGATGTTTTGGGTTCGCAAGAAAGGCTTTCTT
CCCTTAAATTTTTGTAGAGTCTAAATTTGCACCTCAATTA
Found at i:276626 original size:476 final size:473
Alignment explanation
Indices: 275333--277661 Score: 2328
Period size: 475 Copynumber: 4.9 Consensus size: 473
275323 AAAAATATGG
* * * * * *
275333 ATTCTTCTCATTAGGATTAATGATATCGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGTCCT
1 ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
* * * ** * *
275398 ATTTTCTTTAAAATCCAAGTTCATCCCTTAAAGAATGCAAGCATTGATTCGCATAATAATCTTCA
66 ATTTTCCTTAAAATCAAAGTTCATCCCTTAAA-AAAGCAAGCATTGATTCTTATAACAGTCTTCA
* * * * *
275463 TTTTTTTCATGATT-CGAACCAAAGAACACATTCTTTTTATTAGGGTACATGACATTAATGCTTT
130 TTCTTTTCAAGATTGGGAACCAAA-AACACATACTTTTT-TTAGGATACATGACATTAATGCTTT
* * * * * ** *
275527 GTTGTTGCAACAAAAGCATTTCTTGCAACCGTTTTTGATAGAGCCAAAGTTTGTCTATTAAATAA
193 G-TGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* * * * *
275592 GACAAACATGAA-AGTCATACTAATCCCCATTCTTTTCTGGATTTGACACCATAAACATAGTCTT
257 GACAAACATGAATAGTCATACTAATCCCTATTCTTTTCAGGATTAGGCACTATAAACATAGTCTT
* * ** ** * *
275656 CTCATAAGGTTACAAGATATTGACACTTTCATTTTGCAAGAAAGGCTTTCTTTCCACTAATTTTT
322 CTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTTCCACCAATTTTT
* * ** * * * *
275721 GTAAAGCCTAAGTAGGTGCCACAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTCATTT
387 GAAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTT
275786 TGTGATTA-GCA-TAATAAACAC
452 TGTGATTAGGCACT-ATAAACAC
* * * *
275807 ATTCTCC-TATTCAGGATAAAAGATATTGATGATTTTCTTTTGTATGAAAATCTTTTCTTTGCCT
1 ATTCTCCTTATT-AGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* * * *
275871 TATTTTCCATTAAAATCAAATTTTATCCCTTAAATAAGGCAAGCATTGATTCTTATAACAGTCTC
65 TATTTTCC-TTAAAATCAAAGTTCATCCCTTAAA-AAAGCAAGCATTGATTCTTATAACAGTCTT
** * * *
275936 CATTCTTTTCAAGATTCAGAACCAAAAACACAT-TTTTTTCATTAGTATACATGACATTTATGCT
128 CATTCTTTTCAAGATTGGGAACCAAAAACACATACTTTTT--TTAGGATACATGACATTAATGCT
* * * ** *
276000 TTGGAGTTGCAAGAAAAGCATTTT-TTT-AGTAGC--TTTTGATAGAATCAAAGTTTAACTCTAA
191 TT-GTGTCGCAAGAAAAGC-TTTTCTTTCA--ACCATTTTTGATAGAATCAAAGTTTGTCTCTTA
* * * * *
276061 AATAAGACAAACATGAATAGTTATACTAATGTCCT-TCCTTTTCAGGATTAGGCACCATAACCAT
252 AATAAGACAAACATGAATAGTCATACTAAT-CCCTATTCTTTTCAGGATTAGGCACTATAAACAT
* ** * * *
276125 ACTCTTCTTGTAAGGATAAACGATATTGAAGCTTTGGTTTCGCAAGAAAGGCTTTCTTTTCACCA
316 AGTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTTCCACCA
* * * * * * *
276190 ATTTTTGAAAAATATATGTTTGTGCCTCAAATGAGACAAACATGGGTTCTCGTAAAGATCTTTAT
381 ATTTTTGAAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCAT
*
276255 TCATTTTGTGATTAGGCACTATAAATAC
446 TCATTTTGTGATTAGGCACTATAAACAC
**
276283 ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCACAGAAATCTTTTCTTTGCCCT
1 ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
* * * *
276348 ATTTTCCTTAAAA-CTAAGGTTCATCCCTTAAGAAAAGTAAGCATTGATTCTTGTAACAGTCTTT
66 ATTTTCCTTAAAATC-AAAGTTCATCCCTTAA-AAAAGCAAGCATTGATTCTTATAACAGTCTTC
* * *
276412 ATTCGTTTT-AAGATTGGGAACCAAAAACACATACTTTTTTTAAGGATATATGAGATTAATGTTT
129 ATTC-TTTTCAAGATTGGGAACCAAAAACACATACTTTTTTT-AGGATACATGACATTAATGCTT
* * *
276476 TAGTGTCGCAAGAAAAGCTTTTCTTTTAACCATTTTTGATGGAATCAAAGTTTGTCTCCTAAATA
192 T-GTGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATA
* * * * *
276541 AGACAAACATAAATGGTCATACTAATCCCTATTCTTTTCAGGATTTGGCAATATAAACATAATCT
256 AGACAAACATGAATAGTCATACTAATCCCTATTCTTTTCAGGATTAGGCACTATAAACATAGTCT
* * * *
276606 TCTCATAAGAATATACGATATTGATGTTTTAGGTTT-GCAACAAAGGCTTTC-TTCC-CCTAAAT
321 TCTCATAAGGATACACGATATTGATGCTTT-GGTTTCGCAAGAAAGGCTTTCTTTCCACC--AAT
* * * ** * * *
276668 TTTTGTAGAGTCTAAATTTGCACCTC-AATTATGACAAATACT-GATTCTAGTAATGATCTTTAT
383 TTTTGAAAAGTCTAAGTTTGTGCCTCAAATGA-GACAAACA-TGGATTCTAGTAATGATCTTCAT
*
276731 TCACTTTGTGATTAGGCACTATAAACAC
446 TCATTTTGTGATTAGGCACTATAAACAC
* * * * * ** *
276759 ATTCTCCTTGTTAAGATAAAAGATATTAATGATTGTCTGCTGCATGGAAATCTTTTTTTTGCCCT
1 ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
* * * * * ** * *
276824 ATTATCGTTAAAATCAAAGTTTATCCCTTAAATTAGGC-AGTCATTGATTCTCGTAACAGTGTCC
66 ATTTTCCTTAAAATCAAAGTTCATCCCTTAAA-AAAGCAAG-CATTGATTCTTATAACAGTCTTC
* * * * * * *
276888 AATCTTTTCAAGATTGGAAACCAAAAACACATTCTCTTTTTTACGATACAAGGCATTGATGCTTT
129 ATTCTTTTCAAGATTGGGAACCAAAAACACATACT-TTTTTTAGGATACATGACATTAATGCTTT
* *** *
276953 GATGTCGTAAGAAAAGCTTTTCTTTCAATTGTTTTTGATAGAATCAAAGTTTGTCTCTTCAATAA
193 G-TGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* *
277018 TACAAACATGAATAGTCATACTAATCCCTATTCTTTTTAGGATTAGGC-CTTATAAACATAGTCT
257 GACAAACATGAATAGTCATACTAATCCCTATTCTTTTCAGGATTAGGCAC-TATAAACATAGTCT
* * *
277082 TCAT-ATAAGGATACACGAAATTGATGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAATTT
321 TC-TCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTTCCACCAATTT
* * * * * *
277146 CTG-TAACTCTAAGCTTGTGCCTCAAATGAGGCAAACATGGATTCTAGTAATGATCTTCATTCTT
385 TTGAAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCAT
277210 TTTGTGATTAGGCACTATAAACAC
450 TTTGTGATTAGGCACTATAAACAC
* * * * * *
277234 ATTCTCCTTATTAGGATAAATGATATTAATAATTTTCTTATCCATGGAAATATTTTATTTTG-CC
1 ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTT-CTTTGCCC
* * * * * * *
277298 TATTTTCCTTAAAATAAAATTTCATCCCATAAATATGACAAACATCGATT-TTCATAACAGTCTT
65 TATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAAG-CAAGCATTGATTCTT-ATAACAGTCTT
* * ** * * ** * *
277362 CATTCTTTTCATGATTGGGAACTAAGCACATATTCTCTTCATT-GCAATACATGACATTGATGCT
128 CATTCTTTTCAAGATTGGGAACCAAAAACACATACT-TTTTTTAG-GATACATGACATTAATGCT
* * * * *
277426 TTGGTGTCACAAGAAAAGCTTTTCTTTCCATCATTTTGGATAGAATCAAAGTTTGTCTCTTTAAT
191 TT-GTGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAAT
* * * * * *
277491 AGGACAAAGATGAATAGTTATACTAATCTC-ATTCTTTTAAGGATTAGGCACTATAAACTTAGTC
255 AAGACAAACATGAATAGTCATACTAATCCCTATTCTTTTCAGGATTAGGCACTATAAACATAGTC
* * *
277555 TTCACATAAGGAT----GATATTGATGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAATTT
320 TTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTTCCACCAATTT
** *
277616 TTGAAAAGTCTAAGTTCATGCCTCACTAAT--GACAAATATGGATTCT
385 TTGAAAAGTCTAAGTTTGTGCCTCA--AATGAGACAAACATGGATTCT
277662 TCTCATTAGG
Statistics
Matches: 1539, Mismatches: 264, Indels: 107
0.81 0.14 0.06
Matches are distributed among these distances:
470 49 0.03
471 30 0.02
473 6 0.00
474 161 0.10
475 673 0.44
476 596 0.39
477 22 0.01
478 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (473 bp):
ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCT
ATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAAGCAAGCATTGATTCTTATAACAGTCTTCAT
TCTTTTCAAGATTGGGAACCAAAAACACATACTTTTTTTAGGATACATGACATTAATGCTTTGTG
TCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACA
AACATGAATAGTCATACTAATCCCTATTCTTTTCAGGATTAGGCACTATAAACATAGTCTTCTCA
TAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTTCCACCAATTTTTGAAA
AGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTG
ATTAGGCACTATAAACAC
Found at i:276883 original size:951 final size:941
Alignment explanation
Indices: 275333--277628 Score: 2529
Period size: 951 Copynumber: 2.4 Consensus size: 941
275323 AAAAATATGG
* * * * *
275333 ATTCTTCTCATTAGGATTAATGATATCGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGTCCT
1 ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTG-CCT
* * ** * *
275398 ATTTTCTTTAAAATCCAAGTTCATCCCTTAAAGAATGCAAGCATTGATTCGCATAATAATCTTCA
65 ATTTTCCTTAAAA-CTAAGTTCATCCCTTAAA-AATGCAAGCATTGATTCTTATAACAGTCTTCA
* * * *
275463 TTTTTTTCATGATT-CGAACCAAAGAACACATTCTTTTTATT-AGGGTACATGACATTAATGCTT
128 TTCTTTTCATGATTGGGAACCAAA-AACACATACTTTTT-TTAAGGATACATGACATTAATGCTT
* * * * * ** *
275526 TGTTGTTGCAACAAAAGCATTTCTTGCAACCGTTTTTGATAGAGCCAAAGTTTGTCTATTAAATA
191 TG-TGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATA
* * *
275591 AGACAAACATGAAA-GTCATACTAATCCCCATTCTTTTCTGGATTTGACACCATAAACATAGTCT
255 AGACAAACAT-AAATGTCATACTAAT-CCCATTCTTTTCAGGATTTGGCACTATAAACATAGTCT
* ** * * *
275655 TCTCATAAGGTTACAAGATATTGACACTTTCA-TTTTGCAAGAAAGGCTTTCTTTCCACTAATTT
318 TCTCATAA-G-TA-TAGATATTGA-TGTTTTAGGTTTGCAAGAAAGGCTTTC-TTCCCCTAATTT
* ** * * *
275719 TTGTAAAGCCTAAGTAGGTGCCACAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTCAT
378 TTGTAAAGCCTAAATAGGCACCACAATTATGACAAACATGGATTCTAGTAATGATCTTCATTCAC
* * * **
275784 TTTGTGATTAGCATAATAAACACATTCTCCTATTCAGGATAAAAGATATTGATGATTTTCTTTTG
443 TTTGTGATTAGCATAATAAACACATTCTCCTATTCAAGATAAAAGATATTAATGATTGTCTGCTG
* * * *
275849 TATGAAAATCTTTTCTTTGCCTTATTTTCCATTAAAATCAAATTTTATCCCTTAAATAAGGCAAG
508 CATGAAAATCTTTTCTTTGCCCTATTATCCATTAAAATCAAAGTTTATCCCTTAAATAAGGCAAG
* *
275914 CATTGATTCTTATAACAGTCTCCATTCTTTTCAAGATTCAG-AACCAAAAACACATT-T-TTTTC
573 CATTGATTCTCATAACAGTCTCCAATCTTTTCAAGATT-AGAAACCAAAAACACATTCTCTTTT-
* * * *
275976 ATTA-GTATACATGACATTTATGCTTTGGA-GTTGCAAGAAAAGCATTTT-TTT-AGTAGCTTTT
636 -TTACG-ATACAAGACATTGATGCTTT-GATGTCGCAAGAAAAGC-TTTTCTTTCAATAGCTTTT
* *
276037 GATAGAATCAAAGTTTAACTCTAAAATAAGACAAACATGAATAGTTATACTAATGTCCT-TCCTT
697 GATAGAATCAAAGTTTAACTCTAAAATAAGACAAACATGAATAGTCATACTAAT-CCCTATCCTT
* * * *
276101 TTCAGGATTAGGCAC-CATAACCATACTCTTCTTGTAAGGATAAACGATATTGAAGCTTTGGTTT
761 TTCAGGATTAGGC-CTCATAAACATACTCTTCATATAAGGATAAACGAAATTGAAGCTTTGGTTT
* ** * * *
276165 CGCAAGAAAGGCTTTCTTTTCACCAATTTTTGAAAAATATATGTTTGTGCCTCAAATGAGACAAA
825 CACAAGAAAGGCTTTCTTCCCACCAATTTCTG-AAAATATAAGCTTGTGCCTCAAATGAGACAAA
* * * *
276230 CATGGGTTCTCGTAAAGATCTTTATTCATTTTGTGATTAGGCACTATAAATAC
889 CATGGATTCTAGTAAAGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
**
276283 ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCACAGAAATCTTTTCTTTGCCCT
1 ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTG-CCT
* * * *
276348 ATTTTCCTTAAAACTAAGGTTCATCCCTTAAGAAAAGTAAGCATTGATTCTTGTAACAGTCTTTA
65 ATTTTCCTTAAAACTAA-GTTCATCCCTTAA-AAATGCAAGCATTGATTCTTATAACAGTCTTCA
* * * *
276413 TTCGTTTT-AAGATTGGGAACCAAAAACACATACTTTTTTTAAGGATATATGAGATTAATGTTTT
128 TTC-TTTTCATGATTGGGAACCAAAAACACATACTTTTTTTAAGGATACATGACATTAATGCTTT
* * *
276477 AGTGTCGCAAGAAAAGCTTTTCTTTTAACCATTTTTGATGGAATCAAAGTTTGTCTCCTAAATAA
192 -GTGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* *
276542 GACAAACATAAATGGTCATACTAATCCCTATTCTTTTCAGGATTTGGCAATATAAACATAATCTT
256 GACAAACATAAAT-GTCATACTAATCCC-ATTCTTTTCAGGATTTGGCACTATAAACATAGTCTT
*
276607 CTCATAAGAATATACGATATTGATGTTTTAGGTTTGCAACAAAGGCTTTCTTCCCCTAAATTTTT
319 CTCATAAG--TATA-GATATTGATGTTTTAGGTTTGCAAGAAAGGCTTTCTTCCCCT-AATTTTT
* * ** * * *
276672 GTAGAGTCTAAATTTGCACCTCAATTATGACAAATACT-GATTCTAGTAATGATCTTTATTCACT
380 GTAAAGCCTAAATAGGCACCACAATTATGACAAACA-TGGATTCTAGTAATGATCTTCATTCACT
*
276736 TTGTGATTAGGCACT-ATAAACACATTCTCCT-TGTTAAGATAAAAGATATTAATGATTGTCTGC
444 TTGTGATTA-GCA-TAATAAACACATTCTCCTAT-TCAAGATAAAAGATATTAATGATTGTCTGC
* * * *
276799 TGCATGGAAATCTTTTTTTTGCCCTATTAT-CGTTAAAATCAAAGTTTATCCCTTAAATTAGGC-
506 TGCATGAAAATCTTTTCTTTGCCCTATTATCCATTAAAATCAAAGTTTATCCCTTAAATAAGGCA
* * *
276862 AGTCATTGATTCTCGTAACAGTGTCCAATCTTTTCAAGATTGGAAACCAAAAACACATTCTCTTT
571 AG-CATTGATTCTCATAACAGTCTCCAATCTTTTCAAGATTAGAAACCAAAAACACATTCTCTTT
* * * *
276927 TTTACGATACAAGGCATTGATGCTTTGATGTCGTAAGAAAAGCTTTTCTTTCAATTGTTTTTGAT
635 TTTACGATACAAGACATTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTTTCAATAGCTTTTGAT
** ** * * *
276992 AGAATCAAAGTTTGTCTCTTCAATAATACAAACATGAATAGTCATACTAATCCCTATTCTTTTTA
700 AGAATCAAAGTTTAACTCTAAAATAAGACAAACATGAATAGTCATACTAATCCCTATCCTTTTCA
* * * *
277057 GGATTAGGCCTTATAAACATAGTCTTCATATAAGGATACACGAAATTGATGCTTTGGTTTCACAA
765 GGATTAGGCCTCATAAACATACTCTTCATATAAGGATAAACGAAATTGAAGCTTTGGTTTCACAA
* * * *
277122 GAAAGGCTTTCTTCCCACCAATTTCTGTAACTCTAAGCTTGTGCCTCAAATGAGGCAAACATGGA
830 GAAAGGCTTTCTTCCCACCAATTTCTGAAAATATAAGCTTGTGCCTCAAATGAGACAAACATGGA
* *
277187 TTCTAGTAATGATCTTCATTCTTTTTGTGATTAGGCACTATAAACAC
895 TTCTAGTAAAGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * * * *
277234 ATTCTCCTTATTAGGATAAATGATATTAATAATTTTCTTATCCATGGAAATATTTTATTTTGCCT
1 ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTT-CTTTGCCT
* * * * *
277299 ATTTTCCTTAAAA-TAAAATTTCATCCCATAAATATGACAAACATCGATT-TTCATAACAGTCTT
65 ATTTTCCTTAAAACT--AAGTTCATCCCTTAAAAATG-CAAGCATTGATTCTT-ATAACAGTCTT
* * * * * * *
277362 CATTCTTTTCATGATTGGGAA-C-TAAGCACATA-TTCTCTTCATTGCAATACATGACATTGATG
126 CATTCTTTTCATGATTGGGAACCAAAAACACATACTT-TTTTTA-AG-GATACATGACATTAATG
* * * * *
277424 CTTTGGTGTCACAAGAAAAGCTTTTCTTTCCATCATTTTGGATAGAATCAAAGTTTGTCTCTTTA
188 CTTT-GTGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAA
* * * * * * * *
277489 ATAGGACAAAGATGAATAGTTATACTAATCTCATTCTTTTAAGGATTAGGCACTATAAACTTAGT
252 ATAAGACAAACATAAAT-GTCATACTAATCCCATTCTTTTCAGGATTTGGCACTATAAACATAGT
* * * * *
277554 CTTCACATAAGGAT-GATATTGATGCTTT-GGTTTCACAAGAAAGGCTTTCTTCCCACCAATTTT
316 CTTCTCATAAGTATAGATATTGATGTTTTAGGTTT-GCAAGAAAGGCTTTCTTCCC-CTAATTTT
* *
277617 TGAAAAGTCTAA
379 TGTAAAGCCTAA
277629 GTTCATGCCT
Statistics
Matches: 1129, Mismatches: 179, Indels: 80
0.81 0.13 0.06
Matches are distributed among these distances:
945 5 0.00
946 47 0.04
947 1 0.00
948 4 0.00
949 20 0.02
950 280 0.25
951 550 0.49
952 217 0.19
953 5 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (941 bp):
ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCTA
TTTTCCTTAAAACTAAGTTCATCCCTTAAAAATGCAAGCATTGATTCTTATAACAGTCTTCATTC
TTTTCATGATTGGGAACCAAAAACACATACTTTTTTTAAGGATACATGACATTAATGCTTTGTGT
CGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAA
ACATAAATGTCATACTAATCCCATTCTTTTCAGGATTTGGCACTATAAACATAGTCTTCTCATAA
GTATAGATATTGATGTTTTAGGTTTGCAAGAAAGGCTTTCTTCCCCTAATTTTTGTAAAGCCTAA
ATAGGCACCACAATTATGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGCA
TAATAAACACATTCTCCTATTCAAGATAAAAGATATTAATGATTGTCTGCTGCATGAAAATCTTT
TCTTTGCCCTATTATCCATTAAAATCAAAGTTTATCCCTTAAATAAGGCAAGCATTGATTCTCAT
AACAGTCTCCAATCTTTTCAAGATTAGAAACCAAAAACACATTCTCTTTTTTACGATACAAGACA
TTGATGCTTTGATGTCGCAAGAAAAGCTTTTCTTTCAATAGCTTTTGATAGAATCAAAGTTTAAC
TCTAAAATAAGACAAACATGAATAGTCATACTAATCCCTATCCTTTTCAGGATTAGGCCTCATAA
ACATACTCTTCATATAAGGATAAACGAAATTGAAGCTTTGGTTTCACAAGAAAGGCTTTCTTCCC
ACCAATTTCTGAAAATATAAGCTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAAAGATCTT
CATTCATTTTGTGATTAGGCACTATAAACAC
Found at i:279403 original size:476 final size:473
Alignment explanation
Indices: 277657--279954 Score: 2444
Period size: 476 Copynumber: 4.8 Consensus size: 473
277647 ACAAATATGG
* *
277657 ATTCTTCTCATTAGGATAAATGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCCT
1 ATTCTCCTCATTAGGATAAAAGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCCT
* * * *
277722 ATTTTCTTTAAAATCAAAATTCATCCCTTAAATAAGGGAAGCATTGATTCGCATAATAGTCTTCA
66 ATTTTCCTTAAAATCAAAATTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCTTCA
* * * * * * * *
277787 GTT-TTTTGATGATTCG-GACCAAAAAACATATTCTTTTCATTAGGGTACATCACATTGATGCTT
131 -TTCTTTTCAAGATTAGAAACC-AAAAACACATTCTCTTCATTAGGATACATGACATTGATGCTT
* * * * ** *
277850 T-GTTGTTGCAAGAAAAACATTTCTTACAACCATTTTTGATAGAGCCAAAGTTTGTTTAC-TAAA
194 TAG-TGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCT-CTTAAA
* * * * * *
277913 TAAGACAAACAT-AAAAGTCATACTAATCCTCATTTTTTTCAGGATTTGACACCATAAACATAGT
257 TAAGACAAACATGAATAGTTATACTAATCCCCATTCTTTTCAGGATTAGGC-CCATAAACATAGT
** ** *
277977 CTTCTCATAAGGATACACGATATTGACACTTTCATTTCGCAAGGAAA-GCTTTCTTTCCACTAAT
321 CTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAA-GAAAGGCTTTC-TTCC-CCAAT
* * * * *
278041 TTTTGTAAAGCCTAAGTTCATGC-CAT-AATTGTGACAAACATGGATTCTAGTAGTGATCTTCAT
383 TTTTGTAAAGTCTAAGTT--TGCGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCAT
*
278104 TCATTTTGTGATTA-GCACAATAAACAC
446 TCATTTTGTGATTAGGCACTATAAACAC
* *
278131 ATTCTCCTCTTTAGGATAAAAGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCCA
1 ATTCTCCTCATTAGGATAAAAGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCCT
* * * *
278196 ATTTTCATTAAAATCAAATTTCATCCCTTAAATAAGGCAAGCATTGATTCTTGTAATAGTCTCCA
66 ATTTTCCTTAAAATCAAAATTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCTTCA
* * * **
278261 TTCTTTTCAAGA-TACAGAACCAAAAACACATTTTCTTCATTAGGATACATGACATTTACACTTT
131 TTCTTTTCAAGATTAGA-AACCAAAAACACATTCTCTTCATTAGGATACATGACATTGATGCTTT
* * * *
278325 GGTGTCGCAAGAAAAGCATTT-TTT--AGCAGTTTTTGATAGAATCAAAGTTTGTCTCTAAAATA
195 AGTGTCGCAAGAAAAGCTTTTCTTTCAACCA-TTTTTGATAGAATCAAAGTTTGTCTCTTAAATA
* ** * * *
278387 AGACAAACATGAATCGTTATACTAATGTCCATTCTTTTCAAGATTACGCTCCATAACCAT-GCTC
259 AGACAAACATGAATAGTTATACTAATCCCCATTCTTTTCAGGATTAGGC-CCATAAACATAG-TC
** * * * * * *
278451 TTCTTGTAAGGATAAACGATACTAAAGCTTTGGTTTCGTAAGAAAGGCTTTCTTTCCACCAATGT
322 TTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTC-TTCC-CCAATTT
* * * * * * *
278516 TTGTAAAGTCTATGTTTGTGCCTCAAATGAGATAAACATGGGTTCTTGTAAAGATCTTCATTCGT
385 TTGTAAAGTCTAAGTTTGCGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCAT
*
278581 TTTGTGATTAGGCACTATAAAGAC
450 TTTGTGATTAGGCACTATAAACAC
* * * ***
278605 ATTCTCTTCATTATGATAAATA-ATATTGATGATTTTCTTTTGAACAAAAATCTTTTCTTTGCCC
1 ATTCTCCTCATTAGGATAAA-AGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCC
* ** ** * * *
278669 TATTTTCCTTAAAACCAAGGTTCATCCCTTAGGTAAAGTAAGCATTGATTCTCGTAACAGTCTTC
65 TATTTTCCTTAAAATCAAAATTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCTTC
* * * * *
278734 ATTCTTTTTAAGATT-GGAACCAAAAACACATTC-CTTTCATTAGGATATATGAGATTGATGTTT
130 ATTCTTTTCAAGATTAGAAACCAAAAACACATTCTC-TTCATTAGGATACATGACATTGATGCTT
* * ** *
278797 TAGTGTTGCAGGAAAAGCTTTAATTTTAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATA
194 TAGTGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATA
* * * * **
278862 AAACAAACATAAATGGTCATACTAATCCCCATTCTTTTCAGGATTTAGAACCATAAACATAGTCT
259 AGACAAACATGAATAGTTATACTAATCCCCATTCTTTTCAGGA-TTAGGCCCATAAACATAGTCT
* * *
278927 TCTCATAAGAATACACGATATTGATGTTTTGGGTTCGCAAGAAAGGCTTTCTTCCCCTAAATTTT
323 TCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCC--AATTTT
* * * * * *
278992 TGTAGAGTCTAAATTTGCACCTC-AATTATGACAAACATTGATTCTAGTAATGATCTTCATTCAC
386 TGTAAAGTCTAAGTTTGCGCCTCAAATGA-GACAAACATGGATTCTAGTAATGATCTTCATTCAT
279056 TTTGTGATTAGGCACTATAAACAC
450 TTTGTGATTAGGCACTATAAACAC
* * * * *
279080 ATTCTCCTCATTAAGATAAAAGATATTAATAATTGTCTTTTGTACGGAAATCTTTTCTTTGCCCT
1 ATTCTCCTCATTAGGATAAAAGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCCT
* * * * * * * * *
279145 ATTATCGTTAAAATCAAAGTTTATCCCTTAAATTATGTAAGCATTGATTCTCGTAATAGTATCCA
66 ATTTTCCTTAAAATCAAAATTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCTTCA
* * ** * *
279210 ATCTTTTCAACATTAGAAACCAAAAACACATTCTCTTCATTACAATACATGGCATTGATGCTTCA
131 TTCTTTTCAAGATTAGAAACCAAAAACACATTCTCTTCATTAGGATACATGACATTGATGCTTTA
* * *
279275 GTGTCGCAAGAAAAGCTTTTCTTTCAATCATTTTTGATAGAATCAAAGTTTGTCTCTTCAATAAT
196 GTGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAG
*
279340 ACAAACATGAATAGTTATACTAATCCCCATTCTTTTCAGGATTAGGCCCTATAAACTTAGTCTTC
261 ACAAACATGAATAGTTATACTAATCCCCATTCTTTTCAGGATTAGGCCC-ATAAACATAGTCTTC
* * * * *
279405 ACGTAAGGATACACGAAATTGATGCTTTGGTTTCCCAAAAAAGGCTTTCTTCCCACCAATTTTTG
325 TCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTT-CC-CCAATTTTTG
* * * * * * **
279470 TAAACTCCACGCTTGTGCCTCAAATGAGACAAACATGGATTCTACTAATGATCTTCATTTGTTTT
388 TAAAGTCTAAGTTTGCGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTT
* *
279535 GTGATTAGGCACTATCAATAC
453 GTGATTAGGCACTATAAACAC
* * * ** * * *
279556 ATTCTCCTTATTAGGATAAATGATATTAATGATTTTCTTTTCCATGGAAATATTTTATTTGGCCT
1 ATTCTCCTCATTAGGATAAAAGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCCT
* * * * * * * ** * *
279621 ATTTTCCTTAAAATAAAAATTCATCCCATAAATATGACAACCATCGATTTTTATAACAGTCTTTA
66 ATTTTCCTTAAAATCAAAATTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCTTCA
* * * * * * * * *
279686 TTCTTTTCAAGATTGGGAACCAAGAAGATATTCTCTTCATTATGATGCATGACATTGTTGCTTTG
131 TTCTTTTCAAGATTAGAAACCAAAAACACATTCTCTTCATTAGGATACATGACATTGATGCTTTA
* * * *
279751 GTGTCACAAGAAAAGCTTTTCTTTCCATCATTTTTGATAGAATCAAAGTTTGTCTCTTTAATAAG
196 GTGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAG
* * * * *
279816 ATAAACATGAATAGTTATACTAATCCCCATTCTTTTCAGGGTTAGGCACTATAATCTTAGTCTTC
261 ACAAACATGAATAGTTATACTAATCCCCATTCTTTTCAGGATTAGGC-CCATAAACATAGTCTTC
* * *
279881 ACATAAGGAT----GATATTGATGCTTTGGTTTCACAAGAAAGACTTTCTTCCCACCAATTTTTG
325 TCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTT-CC-CCAATTTTTG
*
279942 AAAAGTCTAAGTT
388 TAAAGTCTAAGTT
279955 CATGCCTCAC
Statistics
Matches: 1518, Mismatches: 275, Indels: 64
0.82 0.15 0.03
Matches are distributed among these distances:
471 6 0.00
472 100 0.07
473 204 0.13
474 321 0.21
475 326 0.21
476 551 0.36
477 8 0.01
478 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (473 bp):
ATTCTCCTCATTAGGATAAAAGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCCT
ATTTTCCTTAAAATCAAAATTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAATAGTCTTCA
TTCTTTTCAAGATTAGAAACCAAAAACACATTCTCTTCATTAGGATACATGACATTGATGCTTTA
GTGTCGCAAGAAAAGCTTTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAG
ACAAACATGAATAGTTATACTAATCCCCATTCTTTTCAGGATTAGGCCCATAAACATAGTCTTCT
CATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCCAATTTTTGTAA
AGTCTAAGTTTGCGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTG
ATTAGGCACTATAAACAC
Found at i:281196 original size:475 final size:474
Alignment explanation
Indices: 279987--281809 Score: 1899
Period size: 475 Copynumber: 3.9 Consensus size: 474
279977 TGGATTCTTC
* * * *
279987 TCATTAGGATAAATGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCTTATTTTCT
1 TCATTAGGATAAATAATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCCTATTTTCC
* * * * * *
280052 TTAAAATCAAAGTTCATCCCTTAAATACGGGAAGCATTGATTCGCATAATAGTCCTCATTTTTTT
66 TTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTTCATTCTTTT
* * * * * *
280117 CATGATTCGG-ACCAAAAAACATATTCTTTTCATTAGGGTACATGACATTGATGCTTTGTTGTTG
131 CAAGATTAGGAACC-AAAAACACATTCTTTTCATTAGGATACATGACATTGATGCTTTGGTGTCG
* ** * ** * * ** *
280181 CAAGAAAAACATTTCTGACAACGATTTTTGATAGAGCCAAAGTCTATCAATTAAATAAGACAAAT
195 CAAGAAAAGCATTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAAC
** * * * *
280246 AT-AAAAGTCATACTAAT-CCTCATTTTTTTCAGGATTTGACACCATAAACATAGTTTTCTCATA
260 ATGAATCGTTATACTAATGCC-CATTCTTTTCAGGATTAG-CACCATAAACATAGTCTTCTCATA
** * * * * *
280309 AGGATAAACGATATTGACA-CTTTCATTTCGCAAGAAAAGCTTTCTTTCTACTAATTTTTGTAAA
323 AGGATAAACGATATTGA-AGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAA
* * * * * *
280373 GCCTAAGTTCATGCCAT-AATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTCATTTTGTG
387 GTCTAAGTTTATGCC-TCAAATGAGATAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTG
* *
280437 ATTAGCACAATAAACACATTCTCC
451 ATTAGCACTATAAACACATTCTCT
* *
280461 TCTTTAGGATAAA-AGATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCCAATTTTC
1 TCATTAGGATAAATA-ATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCCTATTTTC
* * * ** * * *
280525 ATTAAAATCAAATTTCATCCCTTAAATAAGGCAAGCATTGATTTTTGTAATAGTCTCCATTATTT
65 CTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTTCATTCTTT
* * * **
280590 TCAAGA-TACAGAACCAAAAACACATTTTTTTCATTAGGATACATGACATTTACACTTTGGTGTC
130 TCAAGATTA-GGAACCAAAAACACATTCTTTTCATTAGGATACATGACATTGATGCTTTGGTGTC
* * * *
280654 GCCAGAAAAGCATTT-TTT-TAGCAGTTTTTGATAGAATCAAAGTTTGTCTCTAAAATAAGACAA
194 GCAAGAAAAGCATTTCTTTCAACCA-TTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAA
* * * * **
280717 ACATGAATCGTTATACTAATGTCCATTCTTTTCAGGATTACGCTCCATAACCATACTCTTCTTGT
258 ACATGAATCGTTATACTAATGCCCATTCTTTTCAGGATTA-GCACCATAAACATAGTCTTCTCAT
* ** * * *
280782 AAGGATAAACGATACTGAAGCTTTGGTTTCGTAAGAAAGGCTCTCTTTCCACCAATGTTTGTAAA
322 AAGGATAAACGATATTGAAGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAA
* * * * * *
280847 GTCTATGTTTGTGCCTCAAATAAGATAAACATGGGTTCTTGTAAAGATCTTCATTCATTTTGTGA
387 GTCTAAGTTTATGCCTCAAATGAGATAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGA
*
280912 TTAGGCACTATAAAGACATTCTCT
452 TTA-GCACTATAAACACATTCTCT
* *
280936 TCATTAGGATAAATAATATTGATGATTTTCTTTTGAACAGAAATCTTTTCTTTGCCCTATTTTCC
1 TCATTAGGATAAATAATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCCTATTTTCC
* * ** * * *
281001 TTAAAACCAAGGTTCATCCCTTAGGTAAAGTAAGCATTGATTCTCGTAACAGTCTTCATTCTTTT
66 TTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTTCATTCTTTT
* ** * * * *
281066 TAAGATT-GGAACCAAAAACACATTCTTTTCATTAGGATGTATGAGATTGATGTTTTAGTGTTGC
131 CAAGATTAGGAACCAAAAACACATTCTTTTCATTAGGATACATGACATTGATGCTTTGGTGTCGC
* * * * * *
281130 AGGAAAAGC-TTTAATTTTAACCATTTTTGATAGAATCAAAGTTTGTCTCTTCAATAATATAAAC
196 AAGAAAAGCATTT-CTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAAC
* * * * **
281194 ATGAATGGTTATACTAATCCCCATTCTTTTCAGGATTAGCCCCTATAAACTTAGTCTTCAAATAA
260 ATGAATCGTTATACTAATGCCCATTCTTTTCAGGATTAGCACC-ATAAACATAGTCTTCTCATAA
* * * * *
281259 GGATACACGAAATT-AATGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACTAACTTTTGTAAAC
324 GGATAAACGATATTGAA-GCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAG
* * * *
281323 TCTAGGCTTACGCCTCAAATGAGATAAACATGGATTCTAGTAATGATCTTCATTCGTTTTGTGAT
388 TCTAAGTTTATGCCTCAAATGAGATAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGAT
*
281388 TAAGCATTATAAACACATTCTCCT
453 T-AGCACTATAAACACATTCT-CT
* * ** * ** * *
281412 T-ATTAGGATAAATGATATTAATGATTTTCTTTTCCATGGAAATAATTTATTTGGCCTATTTTCC
1 TCATTAGGATAAATAATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCCTATTTTCC
* * * * * * * *
281476 TTAAAATAAAAATTCATCCCATAAATATGGCAACCATCGATTTTCATAACAGTCTACATTCTTTT
66 TTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTTCATTCTTTT
* * * * *
281541 CAAGATTAGGAACCAAGAACATATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCAC
131 CAAGATTAGGAACCAAAAACACATTCTTTTCATTAGGATACATGACATTGATGCTTTGGTGTCGC
* * * * *
281606 AAGAAAAGCTTTTCTTTCCATCGTTTTTGATAGAATCAAAG-TT-TCTCTTTAATAAGACAAACA
196 AAGAAAAGCATTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACA
* * * *
281669 TGAA-CAATTATACTACT-CGCCATTCTATTCAGGATTAGGCACCATAAACTTAGTCTT-TACAT
261 TGAATC-GTTATACTAATGC-CCATTCTTTTCAGGATTA-GCACCATAAACATAGTCTTCT-CAT
* *
281731 AAGGAT----GATATTGAAGCTTTGGTTTCACAAGAAAGACTTTCTTCCCACCAATTTTTGAAAA
322 AAGGATAAACGATATTGAAGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAA
*
281792 GTCTAAGTTCATGCCTCA
387 GTCTAAGTTTATGCCTCA
281810 CTAATGACAA
Statistics
Matches: 1113, Mismatches: 210, Indels: 56
0.81 0.15 0.04
Matches are distributed among these distances:
470 60 0.05
471 2 0.00
472 2 0.00
473 43 0.04
474 452 0.41
475 465 0.42
476 86 0.08
477 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (474 bp):
TCATTAGGATAAATAATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCCTATTTTCC
TTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCTTCATTCTTTT
CAAGATTAGGAACCAAAAACACATTCTTTTCATTAGGATACATGACATTGATGCTTTGGTGTCGC
AAGAAAAGCATTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACA
TGAATCGTTATACTAATGCCCATTCTTTTCAGGATTAGCACCATAAACATAGTCTTCTCATAAGG
ATAAACGATATTGAAGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCT
AAGTTTATGCCTCAAATGAGATAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAG
CACTATAAACACATTCTCT
Found at i:282861 original size:475 final size:472
Alignment explanation
Indices: 281826--282927 Score: 1287
Period size: 470 Copynumber: 2.3 Consensus size: 472
281816 ACAAATATGG
* * * *
281826 ATTCTTCTCATTAGGATAAATGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCTT
1 ATTCTCCTCATTAGGATAAATAATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCCT
* * * *
281891 ATTTTCTTTAAAATCAAAGTTCATCCCTTAAATACGGGAAGCATTGATTCGCATAATAGTC-CTC
66 ATTTTCATTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAATAGTCTC-C
* * * **
281955 ATT-TTTTCATGATTCGGACCAAAAA-ACATATTCTTTTCATTAGGGTACATGACATTGATGCTT
130 ATTCTTTTCAAGATTCGAACCAAAAACACATATTCTTTTCATTAGGATACATGACATTGACACTT
* * * * *
282018 TGTTGTTGCAAGAAAAACATTTCTGACAACGATTTTTGATAGAGCCAAAGTCTCTCTATTAAATA
195 TGGTGTCGCAAGAAAAACATTTCTGACAAAGATTTTTGATAGAACCAAAGTCTCTCTATAAAATA
* *
282083 AGACAAATATAAAAGTCATACTAATCCTCATTTTTTTCAGGATTTGACACCATAAACAGTTTTCT
260 AGACAAACATAAAAGTCATACTAATCCTCATTTTTTTCAGGATTCGACACCATAAACAGTTTTCT
* * *
282148 CATAAGGATACACGATATTGACACTTTCATTTCGCAAGAAAAGCTTTCTTTCCACTAATTTTTGT
325 CATAAGGATAAACGATACTGACACTTTCATTTCGCAAGAAAAGCTTTCTTTCCACCAATTTTTGT
* * ** *
282213 AAACCTAAGTTCATGCCATAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTCATTTTGT
390 AAACCTAAGTTCATGCCATAAATGAGACAAACATGGATTCTAGTAAAGATCTTCATTCATTTTCT
282278 GATTAGCACAATAAACAC
455 GATTAGCACAATAAACAC
*
282296 ATTCTCCTCTTTAGGATAAA-AGATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCC
1 ATTCTCCTCATTAGGATAAATA-ATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCC
* * *
282360 AATTTTCATTAAAATCAAATTTCATCCCTTAAATAAGGCAAGCATTGATTCTTATAATAGTCTCC
65 TATTTTCATTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAATAGTCTCC
* *
282425 ATTCTTTTCAAGATTCAGAACCAAAAACACAT-TTC-TTTCATTAGGATATATGACATTTACACT
130 ATTCTTTTCAAGATTC-GAACCAAAAACACATATTCTTTTCATTAGGATACATGACATTGACACT
* ** * * * *
282488 TTGGTGTCGCAAGAAAAGCATTT-TTTCAATAG-TTTTTGATAGAATCAAAGTTTGTCTCTAAAA
194 TTGGTGTCGCAAGAAAAACATTTCTGACAA-AGATTTTTGATAGAACCAAAGTCTCTCTATAAAA
* * * *
282551 TAAGACAAACATGAATAGTTATACTAAT-GTCCATTCTTTTT-AGGATTACG-CACCATAACCA-
258 TAAGACAAACAT-AAAAGTCATACTAATCCT-CATT-TTTTTCAGGATT-CGACACCATAAACAG
** * ** * * *
282612 TACTCTTCTTGTAAGGATAAATGATACTGA-AGCTTTGGTTTCGTAAGAAAGGCTTTCTTTTCAC
319 T--T-TTCTCATAAGGATAAACGATACTGACA-CTTTCATTTCGCAAGAAAAGCTTTCTTTCCAC
* * * * * *
282676 CAATTTTTGTAAAGTCTATGTTTATGCC-TCAAATGAGATAAACATGGGTTCTTGTAAAGATCTT
380 CAATTTTTGTAAA-CCTAAGTTCATGCCAT-AAATGAGACAAACATGGATTCTAGTAAAGATCTT
* * *
282740 CATTCGTTTTCTGATTAGGCACTATAAATAC
443 CATTCATTTTCTGATTA-GCACAATAAACAC
* *
282771 ATTCTCCTCATTAGGATAAATAATATTGATGATTTTCTTTTGAACAGAAATCTTTTCTTTGCCCT
1 ATTCTCCTCATTAGGATAAATAATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCCT
* * * ** * * * *
282836 ATTTTCCTTAAAACCAAGGTTCATCCCTTAGGTAAGGTAAGCATTGATTCTCGTAACAGTCTTCA
66 ATTTTCATTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAATAGTCTCCA
* *
282901 TTCTTTTTAAGATTGGGAACCAAAAAC
131 TTCTTTTCAAGATT-CGAACCAAAAAC
282928 TGAAAGCTTA
Statistics
Matches: 534, Mismatches: 79, Indels: 33
0.83 0.12 0.05
Matches are distributed among these distances:
470 159 0.30
471 89 0.17
472 20 0.04
473 64 0.12
474 53 0.10
475 148 0.28
476 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (472 bp):
ATTCTCCTCATTAGGATAAATAATATTGATGATTTTCTTTTGTATAGAAATCTTTTCTTTGCCCT
ATTTTCATTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAATAGTCTCCA
TTCTTTTCAAGATTCGAACCAAAAACACATATTCTTTTCATTAGGATACATGACATTGACACTTT
GGTGTCGCAAGAAAAACATTTCTGACAAAGATTTTTGATAGAACCAAAGTCTCTCTATAAAATAA
GACAAACATAAAAGTCATACTAATCCTCATTTTTTTCAGGATTCGACACCATAAACAGTTTTCTC
ATAAGGATAAACGATACTGACACTTTCATTTCGCAAGAAAAGCTTTCTTTCCACCAATTTTTGTA
AACCTAAGTTCATGCCATAAATGAGACAAACATGGATTCTAGTAAAGATCTTCATTCATTTTCTG
ATTAGCACAATAAACAC
Found at i:285621 original size:21 final size:20
Alignment explanation
Indices: 285592--285634 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
285582 GACTAGTGTG
*
285592 GGGACTGCCCGGTTGCAACCT
1 GGGACTG-CCGGTCGCAACCT
* *
285613 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCAACCT
285633 GG
1 GG
285635 TGCGTGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCAACCT
Found at i:286095 original size:13 final size:13
Alignment explanation
Indices: 286077--286115 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
286067 ATAATCCCCC
* *
286077 TGTATCAATACAG
1 TGTATCGATACAA
*
286090 TGTATCGATAAAA
1 TGTATCGATACAA
286103 TGTATCGATACAA
1 TGTATCGATACAA
286116 AGAAAAATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:293875 original size:476 final size:474
Alignment explanation
Indices: 292642--293877 Score: 1453
Period size: 476 Copynumber: 2.6 Consensus size: 474
292632 TTTGTTATAA
* * * * * * ** *
292642 CAAAAACACATTCTTTTCATTAGGATATATGAGATTGATGTTTTAGTGTTGCAGGAAAAGCTTTT
1 CAAAAACACATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGCTTTT
* * * *
292707 CTTT-TAATCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATAAATGGTCATA
66 CTTTCT-ATCATTTTTGATAGAATCAAAGTTTGTCTCTTTAATAAGACAAACATGAATAGTTATA
* * ** * * * *
292771 CTAATCCCCATTTTTTTTTAGGATTTA-GCACCGTGAACATAGTCTTCT-CATAAGAAGACACGA
130 CTAATCCCCA-TTCTTTTCAGGA-TTAGGCACTATAAACTTAGTCTT-TACATAAGGACACACGA
* * * * * *
292834 TATTAATGTTTTGGGTTCGCAAGAAAGGCTTTCTTCCC-CTAAATTTTTGTAGAGTCTAAATTTG
192 TATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCAC-CAATTTTTGTAAAGTCTAAGTTTG
* * * *
292898 CACCTTAATTATGAAAAACATTGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTAT
256 --CCTCAATAATGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTAT
* * * ** * *
292963 AAACAGATTCTCCTCATTAAGATAAAAGATTTTAATAATTATCTTTTGTATGGAAATCTTTTCTT
319 AAACACATTATCCTCATTAAGATAAAAGATATTAATAATTATCTTTTCCATGGAAATATTTTATT
** * * * * * * * *
293028 TACCCTATTATCGTTAAAATCAAAGTTTATCCCTTAAATTATGTAAGCATTGTTTCTCATAATAG
384 TACCCTATTATCCCTAAAATAAAAATTCATCCCATAAATTATGCAACCATCGTTTCTCATAACAG
*
293093 TGTCCAATCTTTTCAAGATTGGAAAC
449 TCTCCAATCTTTTCAAGATTGGAAAC
* * ** *
293119 CAAAAACACATTCTCTTCATTGCGATACATGGCATTGATGCTTTGGCATCACAAGAAAATCTTTT
1 CAAAAACACATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGCTTTT
* *
293184 CTTTCAATCATTTTTGATAGAATCAAAGTTTGTCTCTTTAATAATACAAACATGAATAGTTATAC
66 CTTTCTATCATTTTTGATAGAATCAAAGTTTGTCTCTTTAATAAGACAAACATGAATAGTTATAC
* * * * * *
293249 TAATCCCCATTCTTTCCAGGATTAGGCCCTATAAACTTAGTCTTCACGTAAGGATACACGAAATT
131 TAATCCCCATTCTTTTCAGGATTAGGCACTATAAACTTAGTCTTTACATAAGGACACACGATATT
* * *
293314 GATGCTTTGGTTTCCCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAACTCTACGCTTGTGCCT
196 GATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAG-TT-TGCCT
*** *
293379 CAAATAA-GACAAACATGGATTCTAGTAATGATCTTCATTTGTTTTGTGATTAGGCACTATAAAT
259 C-AATAATGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAAC
* * * * * * **
293443 ACATTATTCTTATTAGGATAAATGATATTAATGATTTTCTTTTCCATGGAAATATTTTATTTGGC
323 ACATTATCCTCATTAAGATAAAAGATATTAATAATTATCTTTTCCATGGAAATATTTTATTTACC
* *
293508 CTATTTTCCCTAAAATAAAAATTCATGCCATAAA-TATGACAACCATCGATTT-TCATAACAGTC
388 CTATTATCCCTAAAATAAAAATTCATCCCATAAATTATG-CAACCATCG-TTTCTCATAACAGTC
* * *
293571 TTCATTCTTTTCAAGATTGGGAAC
451 TCCAATCTTTTCAAGATTGGAAAC
* *
293595 CAAGAACATATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCACAAGAACAA-CTTT
1 CAAAAACACATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCACAAGAA-AAGCTTT
* * *
293659 TCTTTCTATCGTTTTTGATAAAATCAAAGCTTGTCTCTTTAATAAGACAAACATGAATAGTTATA
65 TCTTTCTATCATTTTTGATAGAATCAAAGTTTGTCTCTTTAATAAGACAAACATGAATAGTTATA
*
293724 TTAATCCCCATTCTTTTCAGGATTAGGCACTATAAACTTAGTCTTTACATAAGGACACACGATAT
130 CTAATCCCCATTCTTTTCAGGATTAGGCACTATAAACTTAGTCTTTACATAAGGACACACGATAT
*
293789 TGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGAAAAGTCTAAGTTCATGCC
195 TGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTT--TGCC
** *
293854 TCGCTAATGACAAATATGGATTCT
258 TCAATAATGACAAACATGGATTCT
293878 TCTCATTAGA
Statistics
Matches: 640, Mismatches: 107, Indels: 25
0.83 0.14 0.03
Matches are distributed among these distances:
475 12 0.02
476 496 0.77
477 130 0.20
478 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (474 bp):
CAAAAACACATTCTCTTCATTACGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGCTTTT
CTTTCTATCATTTTTGATAGAATCAAAGTTTGTCTCTTTAATAAGACAAACATGAATAGTTATAC
TAATCCCCATTCTTTTCAGGATTAGGCACTATAAACTTAGTCTTTACATAAGGACACACGATATT
GATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGCCTCA
ATAATGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACA
TTATCCTCATTAAGATAAAAGATATTAATAATTATCTTTTCCATGGAAATATTTTATTTACCCTA
TTATCCCTAAAATAAAAATTCATCCCATAAATTATGCAACCATCGTTTCTCATAACAGTCTCCAA
TCTTTTCAAGATTGGAAAC
Found at i:295253 original size:476 final size:475
Alignment explanation
Indices: 293873--298769 Score: 4828
Period size: 476 Copynumber: 10.4 Consensus size: 475
293863 ACAAATATGG
* * * *
293873 ATTCTTCTCATTAGAATAAATGATATTGATGATTTTCTTTTGTATGGAAATCTTTTCTTTGCCCT
1 ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCTTTTGCATGGAAATCTTTTCTTTGCCC-
** * * * * * ** * * * * * *
293938 ATTTTTTTTAAAGTCAAAGTTCATCCTTTATATAAGGGAAGCATTGATTCGCATAATAGTTTTCA
65 ATTTTCCTTAAAATAAAAATTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCA
* * ** * * * *
294003 TTTTTTTCATGATTCAGATCAAAAAACACATTCTTTTCATTAGGGTACATGACATTGATGCTTTG
130 TTCTTTTCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATACATGACATTGATGCTTTG
* * * * * * *
294068 TTGTTGCAAGAAAAACATTTCTTACAACC-ATTTTTGACAGAGTCAAAGTTTGTCTATTAAATAA
195 GTGTCGCAAGAAAAGCATTTCTTTCAACCTA-TTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* * * * *
294132 GAGAAACTTG-AAAGTCATACTAATCCCCATTCTTTT-TAGAATTTGACACCACAAACATAGTCT
259 GACAAACATGAAAAGTCATACTAATCCCCATTCTTTTCAAG-ATTTGGCACCATAAACATAGTCT
* ** *
294195 TCT--TGAAAGATACACGATATTGACACTTTCATTTCGCAAGAAAGGCTTCCTT-T-CCACTAAT
323 TCTCAT-AAGGATACACGATATTGATGCTTTCGTTTCGCAAGAAAGGCTT--TTCTCCCACTAAT
* * *
294256 TTTTGTAAAGCCTAAGTTCATGCCACAATTGTGACAAACATGGATTCGAGTGGTGATCTTCATTC
385 TTTTGTAAAGCCTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTC
*
294321 ATTTTGTGATTAGGCACAATAAACAC
450 ATTTTGTGATTAGGCACTATAAACAC
* * * * **
294347 ATTCTTCTCTTTAGGATAAATGATATTGATGATTTTCTTCTATATGGAAATCTTTTCTTTGCCCT
1 ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCTTTTGCATGGAAATCTTTTCTTTGCCC-
* * * *** * ** *
294412 ATTTTCATTAAAATCAAATTTCATCCCTTAAATAAGGTGAGCATTGATTCTTATAATAGTCTCCA
65 ATTTTCCTTAAAATAAAAATTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCA
** * *
294477 TTCTTTTCAAGATTCAGAACCAAAAACACA-T-TTTTT-TTAGGATACGTGACATTTATGCTTTG
130 TTCTTTTCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATACATGACATTGATGCTTTG
* * * * * * * *
294539 GCT-TTGCAAGAAAAGCGTTTATTTCAACCATTTTTTTATTGAATCAAAGTTTGCCTATTAAATA
195 G-TGTCGCAAGAAAAGCATTTCTTTCAACC-TATTTTGATAGAATCAAAGTTTGTCTCTTAAATA
* * * * *
294603 AGACAAACATGAAAAGTCATAATAATCCCTATTCTTTTCAGGATTTGGCACCATAAACGTCGTCT
258 AGACAAACATGAAAAGTCATACTAATCCCCATTCTTTTCAAGATTTGGCACCATAAACATAGTCT
* * * *
294668 TCTCATAAGGATACATGATATTGATGTTTTCGTTTCGCAAGAAAGGC-TTTCTTCCTACCAATTT
323 TCTCATAAGGATACACGATATTGATGCTTTCGTTTCGCAAGAAAGGCTTTTC-TCCCACTAATTT
*
294732 TTGTAAAGCCTAAGTTCATGCCTCAATTGTGACAAACTTGGATTCTAGTAGTGATCTTCATTCAT
387 TTGTAAAGCCTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTCAT
*
294797 TTTGTGATTAGGCACTAAAAACAC
452 TTTGTGATTAGGCACTATAAACAC
* * * * *
294821 ATTCTTCTTATTAGGATAAATTATATTGATGGCTTTCTTTTGCATGGTAATCTTTTCTTTGCCAC
1 ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCTTTTGCATGGAAATCTTTTCTTTGCC-C
* * *
294886 ATTTTCCTTAAAATAAAAATTCATCTCTTAAATATGACAAGTATCGATTCTCGTAACAGTCTCCA
65 ATTTTCCTTAAAATAAAAATTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCA
* * * *
294951 TTCTTTTTAAGATTGGGAGA-CAAGAACACATTCTTTTTATTTGGATATATGACATTGATGCTTT
130 TTCTTTTCAAGATTGGGA-ACCAAAAACACATTCTTTTTATTAGGATACATGACATTGATGCTTT
* * * *
295015 GGTATCACAAGAAAAGCATTTCTTTCAGCCTATTTTGATAGAATCAAAGTTTGCCTCTTAAATAA
194 GGTGTCGCAAGAAAAGCATTTCTTTCAACCTATTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* * * * * * *
295080 GATAAACTTGAATAGTCATTCTAATCCCCATTCTTTTTAAGATTAGGCATCATAAACATAGTCTT
259 GACAAACATGAAAAGTCATACTAATCCCCATTCTTTTCAAGATTTGGCACCATAAACATAGTCTT
* * * * * *
295145 CTTATAAAGATACACGGTATTGATGTTTTGGTCTT-GCAAGAAAGGCTTTTC-CCCTACCAATTT
324 CTCATAAGGATACACGATATTGATGCTTTCGT-TTCGCAAGAAAGGCTTTTCTCCC-ACTAATTT
* * * * * *
295208 TTGTAAA-CTTTAAGTTCATGTCTTAATTATAACAAACATGGATTCTATGCA-TGATCTTCATTC
387 TTGTAAAGC-CTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTA-GTAGTGATCTTCATTC
*
295271 ACTTTGTGATTAGGCACTATAAACAC
450 ATTTTGTGATTAGGCACTATAAACAC
* * * *
295297 ATTCTCCTCATTAGGATAAACGAAATTGATGAATTT-TGTTTGCATAGAAATCTTTTCTTTGCTC
1 ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCT-TTTGCATGGAAATCTTTTCTTTGC-C
* * * ** * * * *
295361 TATTTT-CTATAATATCAAAGGTCGA-CCCTTAAATAAGGCAAACATTGATTCTCGTAACAATCT
64 CATTTTCCT-TAAAATAAAAATTC-ATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCT
* * * * * **
295424 CCATTCTTCTCAAGATTAGGAACCAAAAATACATTCCTTTCT-TTAAGATACATGACATTGACAC
127 CCATTCTTTTCAAGATTGGGAACCAAAAACACATT-CTTTTTATTAGGATACATGACATTGATGC
* * * * * *
295488 TTTGGTGTTGCAAGAAAAGCATTTCTTACAACCGT-TTTTGACAGAGTTAAAGTTTGTCTATTAA
191 TTTGGTGTCGCAAGAAAAGCATTTCTTTCAACC-TATTTTGATAGAATCAAAGTTTGTCTCTTAA
* * * ** *
295552 AAAAGACAAACATGAAAAGTCTTTCTAATCTTCATTCTTTTCAAGATTTGGCACCATAAACGTAG
255 ATAAGACAAACATGAAAAGTCATACTAATCCCCATTCTTTTCAAGATTTGGCACCATAAACATAG
* * * * *
295617 TCTTCTCATAAGGATGCACGATATTGATGCTTTCATTTCGCAAGAAA-GCCTTTCTTCCTACCAA
320 TCTTCTCATAAGGATACACGATATTGATGCTTTCGTTTCGCAAGAAAGGCTTTTC-TCCCACTAA
* * * * *
295681 TTTTGGTAAAGCCTAAGTTCGTGCCTCAATTGTGACAAACTTGGATTTTAGTAGTGTTCTTCATT
384 TTTTTGTAAAGCCTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATT
*
295746 CATTTTGTGATTAGGCACTATAAACAA
449 CATTTTGTGATTAGGCACTATAAACAC
* *
295773 ATTCTCCTTATTAGGATAAATGATATTGATGACTTTC-TTT---T----A---TTTCATTGCCCT
1 ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCTTTTGCATGGAAATCTTTTCTTTGCCC-
** ** * * * ** * * *
295827 ATTTTCCTTAAAATCAAAGGTGGA-CCCCTAAATAAGGCAAGTATTAATTCTCGTAGCAGTTTTC
65 ATTTTCCTTAAAAT-AAAAATTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCC
* * * * * * *
295891 ATTCTTATCAAGATTGAGAACCAAAAATACATTCCTTTCATTATGATGCATGACATTGATGCTTT
129 ATTCTTTTCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATACATGACATTGATGCTTT
* *
295956 GGTCTCCCAAGAAAAGCA----TTT----C-----T--T----TC-AA--TTG--T-TT--ATAA
194 GGTGTCGCAAGAAAAGCATTTCTTTCAACCTATTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
* * *
295994 GACAAACAAGAAAAGTCATACTAATTCCCATTATTTTCAAGATTTGGCACCATAAACATAGTCTT
259 GACAAACATGAAAAGTCATACTAATCCCCATTCTTTTCAAGATTTGGCACCATAAACATAGTCTT
* * * * * * * *
296059 CTCCTAAGGATAAACGATACTGATGCTTTGGTTTCACAATAAATGC-TTTCTGCCACTAATTTTT
324 CTCATAAGGATACACGATATTGATGCTTTCGTTTCGCAAGAAAGGCTTTTCTCCCACTAATTTTT
* * * * * * *
296123 GTAAAGCCTAAGTTCATACCTCAATTATGACAAACATGGATTTTGGTAATGATCTTCATTTACTT
389 GTAAAGCCTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTCATTT
296188 TGTGATTAGGCACTATAAACAC
454 TGTGATTAGGCACTATAAACAC
* * * *
296210 ATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTTCTCC
1 ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCTTTTGCATGGAAATCTTTTCTTTGC-CC
* * ** *
296275 ATTTTCCTTAAAATAAAAATTCATCTCTTAAATATGACAATTATCGATTCTCTTAACAGT-TCCC
65 ATTTTCCTTAAAATAAAAATTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCT-CC
* * * * *
296339 ATTCTTTTCATGATTGGGAGCCAAGAACATATTCTCTTTATTAGGATACATGACATTGATGCTTT
129 ATTCTTTTCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATACATGACATTGATGCTTT
* * *
296404 GGTGTCGCAAGAAAAGCATTTCTTTTAACC-ATTTTTGATAGAATCAAAGCTTATCTAC-TAAAT
194 GGTGTCGCAAGAAAAGCATTTCTTTCAACCTA-TTTTGATAGAATCAAAGTTTGTCT-CTTAAAT
* * * *
296467 AAGACAAACATG-AAAGTCATAATAATTCCCATTCTTTTCAGGATTTGGCACCATAAACATCGTC
257 AAGACAAACATGAAAAGTCATACTAATCCCCATTCTTTTCAAGATTTGGCACCATAAACATAGTC
* * * *
296531 TTCTCATAAGGATACACGATATTGCTACTTTTGTTTCGCATGAAAGG-TTTTCTTCCCACTAATT
322 TTCTCATAAGGATACACGATATTGATGCTTTCGTTTCGCAAGAAAGGCTTTTC-TCCCACTAATT
* * * * * *
296595 TTTGTATAGCTTAAGTTCATGCCTCAATTGTGACAAACATAGATCCTAGTAGTAATCTTTATTCA
386 TTTGTAAAGCCTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTCA
296660 TTTTGTGATTAGGCACTATAAACAC
451 TTTTGTGATTAGGCACTATAAACAC
* * * * * *
296685 ATTCTTCTTATTAGGATAAACGATATTGA-CA-TTTTTTTGTGCATGAAAATCTTTTCTTTGCCA
1 ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCTTT-TGCATGGAAATCTTTTCTTTGCC-
* * * * * *
296748 CATTTTCCTTAAAATAAAAATTCATCCCTTAAATATGACAAGCATCAACTCTCATAATAGTCTTC
64 CATTTTCCTTAAAATAAAAATTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCC
* * * *
296813 ATTCTTTT-AAGATTAGGAGCCAAGAACACATTCTTTTTATTAGGATACATGACAGTGATGCTTT
129 ATTCTTTTCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATACATGACATTGATGCTTT
* * * ** *
296877 GGTATCACAAGAAAAGCATTTATTTCAGTCGATTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
194 GGTGTCGCAAGAAAAGCATTTCTTTCAACCTATTTTGATAGAATCAAAGTTTGTCTCTTAAATAA
** * * * * * * *
296942 GACAAACATGAGTAGTCATTCTAATCTCCATTCTTTTTAGGATTAGACACCTATAAACATAATCT
259 GACAAACATGAAAAGTCATACTAATCCCCATTCTTTTCAAGATTTGGCACC-ATAAACATAGTCT
* * * * * * *
297007 TCTTATAAGGACACACGGTAATT-ATGCTTTGGTTTCACAAGAAAGGCTTTTCCCCCACTAATGT
323 TCTCATAAGGATACACGAT-ATTGATGCTTTCGTTTCGCAAGAAAGGCTTTTCTCCCACTAATTT
* *
297071 TTGTAAA-CTCTAAGTTCGTGCCTTAATTGTGACAAACATGGATTCTAAG-AGTGATCTTCATTC
387 TTGTAAAGC-CTAAGTTCATGCCTCAATTGTGACAAACATGGATTCT-AGTAGTGATCTTCATTC
*
297134 ATTTTGTGATTAGGCACTATAAACAT
450 ATTTTGTGATTAGGCACTATAAACAC
* * * * * * * *
297160 ATTCTCCTCATTAGGATAGATAAAATTAATGAATTT-TGTTTGCATAGAAATCTTTACTTTGCTA
1 ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCT-TTTGCATGGAAATCTTTTCTTTGC-C
* * ** ** * * *
297224 TATTTTCCTTAAAATGAAAGGTCGA-CCCTTAAATAAGGTAAGCATTGATTCTCATAACAGTCCC
64 CATTTTCCTTAAAATAAAAATTC-ATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTC
* * * * * **
297288 CATTCTTATT-AGGATTGGGAACCAAAAATACATTCCTTTCATTAAGATACATGACATTGACACT
128 CATTCTT-TTCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATACATGACATTGATGCT
* ** * * * * *
297352 TTAGTGTTACAAGAAAAGCATTTCTTACAACCGT-TTTTGATTGAGTCAAAATTTGTCTATTAAA
192 TTGGTGTCGCAAGAAAAGCATTTCTTTCAACC-TATTTTGATAGAATCAAAGTTTGTCTCTTAAA
* * *
297416 TAAGACAAACATGAAAAGTCATTCTAATCCTCATTCTTTTCAGGATTTGGCACCATAAACATAGT
256 TAAGACAAACATGAAAAGTCATACTAATCCCCATTCTTTTCAAGATTTGGCACCATAAACATAGT
* *
297481 CTTCGCATAAGGATACACGATATTGATGCTTTCGTTTCGCAAGAAAGGC-TTTCTTCCCATTAAT
321 CTTCTCATAAGGATACACGATATTGATGCTTTCGTTTCGCAAGAAAGGCTTTTC-TCCCACTAAT
*
297545 TTTTGTAAAGCCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTC
385 TTTTGTAAAGCCTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTC
*
297610 ATTTTGTGATTTGGCACTATAAACAC
450 ATTTTGTGATTAGGCACTATAAACAC
** **
297636 ATTCTCCTCATTA-GAGTAAATGATATTGATGACTTTCTTTTATATAAAAATCTTTTCTTTGCCC
1 ATTCTCCTCATTAGGA-TAAATGATATTGATGACTTTCTTTTGCATGGAAATCTTTTCTTTGCCC
* ** * ** * * *
297700 TATTTTCCTTAAAATCAAAGGTCGA--CCTGTAAACAAGGTAAGCA-CTGATTATCGTGATAGTC
65 -ATTTTCCTTAAAATAAAAATTC-ATCCCT-TAAATAAGACAAGCATC-GATTCTCGTAACAGTC
* * *
297762 TCCATT-TTTATCAAGATTGGGAACCAAAAACACATTCCTTTCATT---AT-GATGACATTGATG
126 TCCATTCTTT-TCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATACATGACATTGATG
* * *
297822 CTTTGGTCTCGCAAGAAAAGCATTTCTTTTAACC-ATTTATAATAGAATCAAAGTTTGTCTCTTA
190 CTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCTATTT-TGATAGAATCAAAGTTTGTCTCTTA
* * * *
297886 AATAAGACAAACCA-GAAAAGTCATACTAATCCCTATTATTTTCAAGATTTGGCATCATAAACTT
254 AATAAGACAAA-CATGAAAAGTCATACTAATCCCCATTCTTTTCAAGATTTGGCACCATAAACAT
* * * * * *
297950 AGTCTTCTCCTAAGGATA-AGCGATATTGATGCTTTGGTTTTGCAAGAAAGTC-TTTCTTCCTAG
318 AGTCTTCTCATAAGGATACA-CGATATTGATGCTTTCGTTTCGCAAGAAAGGCTTTTC-TCCCAC
* * *
298013 TAATTTTTGTAAAGCTTAAGTTCATACCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTC
381 TAATTTTTGTAAAGCCTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTC
* *
298078 ATTTACTTTGTGATTAGGCACTATAAACAC
446 ATTCATTTTGTGATTAGGCACTATAAACAC
* * * *
298108 ATTATCCTCATTAGAATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTTCCCC
1 ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCTTTTGCATGGAAATCTTTTC-TTTGCCC
* * * * * * *
298173 ATTTT-TTTAACATAAAAATTCAT-CTTCTAAATATGACCAGCATCGATTCTCTTAACAAT-TCC
65 ATTTTCCTTAAAATAAAAATTCATCCCT-TAAATAAGACAAGCATCGATTCTCGTAACAGTCT-C
** * * * **
298235 CATTCTTTTCAAGATTGGGGGCCAAGAACACAGTCTCTTTATTAGGATATGTGACATTGATGCTT
128 CATTCTTTTCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATACATGACATTGATGCTT
* * * * *
298300 TGGTGTTGCAAGAAAAGTATTTCTTTCAACAGT-TTTTGATAGAATCAAAATTTGTCTCTCAAAT
193 TGGTGTCGCAAGAAAAGCATTTCTTTCAAC-CTATTTTGATAGAATCAAAGTTTGTCTCTTAAAT
* ** * * * * * * * *
298364 AAAACAAATGTGAATAGTCAAACTAATTCTCATTCTATTT-AGGATTAGTCACCATAAACTTAGT
257 AAGACAAACATGAAAAGTCATACTAATCCCCATTCT-TTTCAAGATTTGGCACCATAAACATAGT
* * *
298428 CTTCTCATAAGGATACACAATATTGATGCTTTAGTTTCGCAAGAAAGGC-TTTCTTCCCACCAAT
321 CTTCTCATAAGGATACACGATATTGATGCTTTCGTTTCGCAAGAAAGGCTTTTC-TCCCACTAAT
* * * * * *
298492 TTTTGTAAAGTCTACGTTCGTGCCTCAATTGTTACAAACATGGATTCTAGTAATGATCTACATTC
385 TTTTGTAAAGCCTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTC
* ** * *
298557 ACTTTGTGATTAGATACTTTAAACAT
450 ATTTTGTGATTAGGCACTATAAACAC
* * * * * * *
298583 ATTCTCCTCATTAGGATAAATTATATTGATGATTTTCTTTTACCTGAAAATCTTTTCTTCGCTCT
1 ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCTTTTGCATGGAAATCTTTTCTTTGC-CC
* *
298648 ATTTTCCTTAAAATAAAAATTCATCCCTTAAATATGACAAGCAAT-GATTCTCGTAATAGTCTCC
65 ATTTTCCTTAAAATAAAAATTCATCCCTTAAATAAGACAAGC-ATCGATTCTCGTAACAGTCTCC
* * * * *
298712 ATTCATTTT-AAGATTAGGAACCAAGAACACATTCTCTTCATTACGATACATGACATTG
129 ATTC-TTTTCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATACATGACATTG
298770 CTAGCTTTTG
Statistics
Matches: 3679, Mismatches: 607, Indels: 272
0.81 0.13 0.06
Matches are distributed among these distances:
437 123 0.03
438 102 0.03
439 2 0.00
440 2 0.00
441 2 0.00
443 3 0.00
445 3 0.00
446 1 0.00
447 6 0.00
448 118 0.03
449 2 0.00
452 4 0.00
456 1 0.00
457 1 0.00
461 3 0.00
463 1 0.00
464 4 0.00
465 117 0.03
466 5 0.00
467 2 0.00
468 3 0.00
470 4 0.00
471 117 0.03
472 355 0.10
473 182 0.05
474 610 0.17
475 622 0.17
476 1061 0.29
477 223 0.06
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (475 bp):
ATTCTCCTCATTAGGATAAATGATATTGATGACTTTCTTTTGCATGGAAATCTTTTCTTTGCCCA
TTTTCCTTAAAATAAAAATTCATCCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCCAT
TCTTTTCAAGATTGGGAACCAAAAACACATTCTTTTTATTAGGATACATGACATTGATGCTTTGG
TGTCGCAAGAAAAGCATTTCTTTCAACCTATTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGA
CAAACATGAAAAGTCATACTAATCCCCATTCTTTTCAAGATTTGGCACCATAAACATAGTCTTCT
CATAAGGATACACGATATTGATGCTTTCGTTTCGCAAGAAAGGCTTTTCTCCCACTAATTTTTGT
AAAGCCTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTCATTTTG
TGATTAGGCACTATAAACAC
Found at i:297001 original size:475 final size:473
Alignment explanation
Indices: 295990--298769 Score: 3101
Period size: 475 Copynumber: 5.9 Consensus size: 473
295980 TCAATTGTTT
* * *
295990 ATAAGACAAACAAGAAAAGTCATACTAATTCCCATTATTTTCAAGATTTGGCACCATAAACATAG
1 ATAAGACAAACATGAAAAGTCATACTAATT-CCATTCTTTTCAGGATTTGGCACCATAAACATAG
* * * * * * *
296055 TCTTCTCCTAAGGATAAACGATACTGATGCTTTGGTTTCACAATAAATGCTTTC-TGCCACTAAT
65 TCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACTAAT
* * * * * *
296119 TTTTGTAAAGCCTAAGTTCATACCTCAATTATGACAAACATGGATTTTGGTAATGATCTTCATTT
130 TTTTGTAAAGCTTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
*
296184 ACTTTGTGATTAGGCACTATAAACACATTCTCCTTATTAGGATAAATGATATTGATGATTTTCTT
195 ACTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
* *
296249 TTGCATGAAAATCTTTTCTTTTCTCCATTTTCCTTAAAATAAAAATTCATCTCTTAAATATGACA
260 TTGCATGAAAATCTTTTCTTTGC-CCATTTTCCTTAAAATAAAAATTCATCCCTTAAATATGACA
** * * * * *
296314 ATTATCGATTCTCTTAACAGT-TCCCATTCTTTTCATGATTGGGAGCCAAGAACATATTCTCTTT
324 AGCATCGATTCTCATAACAGTCT-CCATTCTTTTCAAGATTGGGAACCAAGAACACATTCTCTTC
* *
296378 ATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTTAACCATTTTTGAT
388 ATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACGA-TTTTGAT
* *
296443 AGAATCAAAGCTTATCTAC-TAA
452 AGAATCAAAGTTTGTCT-CTTAA
* *
296465 ATAAGACAAACATG-AAAGTCATAATAATTCCCATTCTTTTCAGGATTTGGCACCATAAACATCG
1 ATAAGACAAACATGAAAAGTCATACTAATT-CCATTCTTTTCAGGATTTGGCACCATAAACATAG
* * * * *
296529 TCTTCTCATAAGGATACACGATATTGCTACTTTTGTTTCGCATGAAAGGTTTTCTTCCCACTAAT
65 TCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACTAAT
* * * * * *
296594 TTTTGTATAGCTTAAGTTCATGCCTCAATTGTGACAAACATAGATCCTAGTAGTAATCTTTATTC
130 TTTTGTAAAGCTTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * * * *
296659 ATTTTGTGATTAGGCACTATAAACACATTCTTCTTATTAGGATAAACGATATTGA-CATTTT-TT
195 ACTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
296722 TGTGCATGAAAATCTTTTCTTTGCCACATTTTCCTTAAAATAAAAATTCATCCCTTAAATATGAC
260 T-TGCATGAAAATCTTTTCTTTGCC-CATTTTCCTTAAAATAAAAATTCATCCCTTAAATATGAC
* * * * * * * *
296787 AAGCATCAACTCTCATAATAGTCTTCATTCTTTT-AAGATTAGGAGCCAAGAACACATTCTTTTT
323 AAGCATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAGAACACATTCTCTTC
* * * * *
296851 ATTAGGATACATGACAGTGATGCTTTGGTATCACAAGAAAAGCATTTATTTCAGTCGATTTTGAT
388 ATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCA-ACGATTTTGAT
296916 AGAATCAAAGTTTGTCTCTTAA
452 AGAATCAAAGTTTGTCTCTTAA
** * * * *
296938 ATAAGACAAACATGAGTAGTCATTCTAATCTCCATTCTTTTTAGGATTAGACACCTATAAACATA
1 ATAAGACAAACATGAAAAGTCATACTAAT-TCCATTCTTTTCAGGATTTGGCACC-ATAAACATA
* * * * * *
297003 ATCTTCTTATAAGGACACACGGTAATT-ATGCTTTGGTTTCACAAGAAAGGCTTT-TCCCCCACT
64 GTCTTCTCATAAGGATACACGAT-ATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCT-TCCCACT
* * * *
297066 AATGTTTGTAAA-CTCTAAGTTCGTGCCTTAATTGTGACAAACATGGATTCTAAG-AGTGATCTT
127 AATTTTTGTAAAGCT-TAAGTTCATGCCTCAATTGTGACAAACATGGATTCT-AGTAATGATCTT
* * * * * *
297129 CATTCATTTTGTGATTAGGCACTATAAACATATTCTCCTCATTAGGATAGATAAAATTAATGAAT
190 CATTCACTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATG-AT
* * ** * **
297194 TTT-GTTTGCAT-AGAAATCTTTACTTTGCTATATTTTCCTTAAAATGAAAGGTCGA-CCCTTAA
254 TTTCTTTTGCATGA-AAATCTTTTCTTTGC-CCATTTTCCTTAAAATAAAAATTC-ATCCCTTAA
* ** * * * * *
297256 ATAAGGTAAGCATTGATTCTCATAACAGTCCCCATTCTTATT-AGGATTGGGAACCAAAAATACA
316 ATATGACAAGCATCGATTCTCATAACAGTCTCCATTCTT-TTCAAGATTGGGAACCAAGAACACA
* ** * ** *
297320 TTC-CTTTCATTAAGATACATGACATTGACACTTTAGTGTTACAAGAAAAGCATTTCTTACAACC
380 TTCTC-TTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAA-C
* * * * *
297384 GTTTTTGATTGAGTCAAAATTTGTCTATTAA
443 GATTTTGATAGAATCAAAGTTTGTCTCTTAA
* *
297415 ATAAGACAAACATGAAAAGTCATTCTAATCCTCATTCTTTTCAGGATTTGGCACCATAAACATAG
1 ATAAGACAAACATGAAAAGTCATACTAATTC-CATTCTTTTCAGGATTTGGCACCATAAACATAG
* * *
297480 TCTTCGCATAAGGATACACGATATTGATGCTTTCGTTTCGCAAGAAAGGCTTTCTTCCCATTAAT
65 TCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACTAAT
* * *
297545 TTTTGTAAAGCCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAGTGATCTTCATTC
130 TTTTGTAAAGCTTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * *
297610 ATTTTGTGATTTGGCACTATAAACACATTCTCCTCATTA-GAGTAAATGATATTGATGACTTTCT
195 ACTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGA-TAAATGATATTGATGATTTTCT
** * * ** * *
297674 TTTATATAAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGGTCGA--CCTGTAAACAAG
259 TTTGCATGAAAATCTTTTCTTTGCCC-ATTTTCCTTAAAATAAAAATTC-ATCCCT-TAAATATG
** * * * * *
297737 GTAAGCA-CTGATTATCGTGATAGTCTCCATT-TTTATCAAGATTGGGAACCAAAAACACATTC-
321 ACAAGCATC-GATTCTCATAACAGTCTCCATTCTTT-TCAAGATTGGGAACCAAGAACACATTCT
* * * *
297799 CTTTCATT---AT-GATGACATTGATGCTTTGGTCTCGCAAGAAAAGCATTTCTTTTAACCATTT
384 C-TTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACGATTT
*
297860 ATAATAGAATCAAAGTTTGTCTCTTAA
448 -TGATAGAATCAAAGTTTGTCTCTTAA
* * * * *
297887 ATAAGACAAACCA-GAAAAGTCATACTAATCCCTATTATTTTCAAGATTTGGCATCATAAACTTA
1 ATAAGACAAA-CATGAAAAGTCATACTAATTCC-ATTCTTTTCAGGATTTGGCACCATAAACATA
* * * * *
297951 GTCTTCTCCTAAGGATA-AGCGATATTGATGCTTTGGTTTTGCAAGAAAGTCTTTCTTCCTAGTA
64 GTCTTCTCATAAGGATACA-CGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACTA
*
298015 ATTTTTGTAAAGCTTAAGTTCATACCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCAT
128 ATTTTTGTAAAGCTTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCAT
* * *
298080 TTACTTTGTGATTAGGCACTATAAACACATTATCCTCATTAGAATAAATGATATTGATGATTTTC
193 TCACTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTC
* * * * *
298145 TTTTGCATGGAAATCTTTTCTTTTCCCCATTTT-TTTAACATAAAAATTCAT-CTTCTAAATATG
258 TTTTGCATGAAAATCTTTTC-TTTGCCCATTTTCCTTAAAATAAAAATTCATCCCT-TAAATATG
* * * ** *
298208 ACCAGCATCGATTCTCTTAACAAT-TCCCATTCTTTTCAAGATTGGGGGCCAAGAACACAGTCTC
321 ACAAGCATCGATTCTCATAACAGTCT-CCATTCTTTTCAAGATTGGGAACCAAGAACACATTCTC
* ** * * *
298272 TTTATTAGGATATGTGACATTGATGCTTTGGTGTTGCAAGAAAAGTATTTCTTTCAACAGTTTTT
385 TTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAAC-GATTTT
* *
298337 GATAGAATCAAAATTTGTCTCTCAA
449 GATAGAATCAAAGTTTGTCTCTTAA
* ** * * * * *
298362 ATAAAACAAATGTGAATAGTCAAACTAATTCTCATTCTATTT-AGGATTAGTCACCATAAACTTA
1 ATAAGACAAACATGAAAAGTCATACTAATTC-CATTCT-TTTCAGGATTTGGCACCATAAACATA
* * *
298426 GTCTTCTCATAAGGATACACAATATTGATGCTTTAGTTTCGCAAGAAAGGCTTTCTTCCCACCAA
64 GTCTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACTAA
* * * *
298491 TTTTTGTAAAG-TCTACGTTCGTGCCTCAATTGTTACAAACATGGATTCTAGTAATGATCTACAT
129 TTTTTGTAAAGCT-TAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCAT
** * * *
298555 TCACTTTGTGATTAGATACTTTAAACATATTCTCCTCATTAGGATAAATTATATTGATGATTTTC
193 TCACTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTC
* * * *
298620 TTTTACCTGAAAATCTTTTCTTCGCTCTATTTTCCTTAAAATAAAAATTCATCCCTTAAATATGA
258 TTTTGCATGAAAATCTTTTCTTTGC-CCATTTTCCTTAAAATAAAAATTCATCCCTTAAATATGA
* * *
298685 CAAGCAAT-GATTCTCGTAATAGTCTCCATTCATTTT-AAGATTAGGAACCAAGAACACATTCTC
322 CAAGC-ATCGATTCTCATAACAGTCTCCATTC-TTTTCAAGATTGGGAACCAAGAACACATTCTC
*
298748 TTCATTACGATACATGACATTG
385 TTCATTAGGATACATGACATTG
298770 CTAGCTTTTG
Statistics
Matches: 1945, Mismatches: 299, Indels: 121
0.82 0.13 0.05
Matches are distributed among these distances:
470 2 0.00
471 72 0.04
472 311 0.16
473 128 0.07
474 221 0.11
475 603 0.31
476 446 0.23
477 162 0.08
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (473 bp):
ATAAGACAAACATGAAAAGTCATACTAATTCCATTCTTTTCAGGATTTGGCACCATAAACATAGT
CTTCTCATAAGGATACACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACTAATT
TTTGTAAAGCTTAAGTTCATGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCA
CTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTT
TGCATGAAAATCTTTTCTTTGCCCATTTTCCTTAAAATAAAAATTCATCCCTTAAATATGACAAG
CATCGATTCTCATAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAGAACACATTCTCTTCATT
AGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACGATTTTGATAGAA
TCAAAGTTTGTCTCTTAA
Found at i:300782 original size:32 final size:33
Alignment explanation
Indices: 300719--300786 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
300709 CGTTACAAGC
*
300719 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
*
300752 CAATGTATTGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
300784 CAA
1 CAA
300787 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 14 0.44
33 16 0.50
34 2 0.06
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:302790 original size:32 final size:33
Alignment explanation
Indices: 302727--302794 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
302717 CGTTACAAGC
*
302727 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
*
302760 CAATGTATTGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
302792 CAA
1 CAA
302795 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 14 0.44
33 16 0.50
34 2 0.06
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:302846 original size:297 final size:296
Alignment explanation
Indices: 302306--302897 Score: 979
Period size: 297 Copynumber: 2.0 Consensus size: 296
302296 TGATTAGTGG
* * *
302306 AGTTTCTAGCCGTTATTGACTTGTTGGAGCTTATTTTAATGATTTCTCGTGTGAATGTATCGATA
1 AGTTTATAGCCGTTATTGACTTGTTGGAGCTTATTTGAATGATTTCCCGTGTGAATGTATCGATA
* **
302371 CAATTTTTGATGTATCAATACATATTTAAAAATATAGCCGTTACTAGCCGTTACAAGCCAATGTA
66 CAATTTGTGAAATATCAATACATATTTAAAAATATAGCCGTTACTAGCCGTTACAAGCCAATGTA
* * *
302436 TCGATACAATTTTTTGGTGTATCGATACATTGTATTGATACATACTTGGTATATCGATACGAGTT
131 TCGATACAATTTTATGGTGTATCGATACAATGTATTGATACATACTTGGTATATCGATACAAGTT
* * * *
302501 TGGCTACTGCCAAGAATTCCCAATGACATGTATCGATACATATTTTTCATGTATCGATACATTGC
196 TGGCTACTGCCAAGAAATCCCAATGACATGAATCGATACATATTTTTCATGTATCAATACAATGC
*
302566 AACATGTATCGATACTTTGAATTGTGTATCGATACA
261 AACATGTATCGATACTTTGAAATGTGTATCGATACA
302602 AGTTTATAGCCGTTATTGACTTGTTGGAGCTTATTTGAATGATTTCCCGTGTGAATGTATCGATA
1 AGTTTATAGCCGTTATTGACTTGTTGGAGCTTATTTGAATGATTTCCCGTGTGAATGTATCGATA
* *
302667 CAATTTGTGAAATATCGATACATGTATTTGAAAATATAGCCGTTACTAGCCGTTACAAGCCAATG
66 CAATTTGTGAAATATCAATACA--TATTTAAAAATATAGCCGTTACTAGCCGTTACAAGCCAATG
* *
302732 TATCGATAC-ATTTTATGGTGTATCGATACAATGTATTGATACATACTTTGTGTATCGATACAAG
129 TATCGATACAATTTTATGGTGTATCGATACAATGTATTGATACATACTTGGTATATCGATACAAG
*
302796 TTTGGCTACTGCCAAGAAATCCCAATGACATGAATCGATACATCTTTTTCATGTATCAATACAAT
194 TTTGGCTACTGCCAAGAAATCCCAATGACATGAATCGATACATATTTTTCATGTATCAATACAAT
*
302861 GCAACATGTATCGATACTTTTAAATGTGTATCGATAC
259 GCAACATGTATCGATACTTTGAAATGTGTATCGATAC
302898 TTTTCAAGGT
Statistics
Matches: 274, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
296 80 0.29
297 145 0.53
298 49 0.18
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (296 bp):
AGTTTATAGCCGTTATTGACTTGTTGGAGCTTATTTGAATGATTTCCCGTGTGAATGTATCGATA
CAATTTGTGAAATATCAATACATATTTAAAAATATAGCCGTTACTAGCCGTTACAAGCCAATGTA
TCGATACAATTTTATGGTGTATCGATACAATGTATTGATACATACTTGGTATATCGATACAAGTT
TGGCTACTGCCAAGAAATCCCAATGACATGAATCGATACATATTTTTCATGTATCAATACAATGC
AACATGTATCGATACTTTGAAATGTGTATCGATACA
Found at i:310567 original size:13 final size:13
Alignment explanation
Indices: 310549--310573 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
310539 CATTTTATGG
310549 TGTATCGATACAA
1 TGTATCGATACAA
310562 TGTATCGATACA
1 TGTATCGATACA
310574 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:310589 original size:32 final size:33
Alignment explanation
Indices: 310526--310593 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
310516 CCTTACAAGC
**
310526 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
310559 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
310591 CAA
1 CAA
310594 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:312349 original size:478 final size:476
Alignment explanation
Indices: 310989--314055 Score: 3218
Period size: 478 Copynumber: 6.5 Consensus size: 476
310979 CTTTCCTTTG
* ** * * * * *
310989 ACCAATTTTTGTAAAGTCTTA-TTTCGCACCTCAATTGTGACAAATATGGATTCGAGTAATGATC
1 ACCAATTTTTGTAAAGTCTAAGTTT-GTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATT
* * * * ** *
311053 TTCATTCACTTTGTGATTAGGCACTATAAACACATTCTCTTCATTGGGATAAAGGATATTGATGA
65 TTCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCTCATTAAGATAAATGATATTGATGA
* * *
311118 TTTTCTTTTGCATGGAAATCTCTTCTTTGCCTTATTTTCCTTAAAATCAAAGTTCATCCCTT-TA
130 TTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAA
** * * * * * ** *
311182 GTAAGGCAAGTGTTGATTCTCGTCATAGTGTCCATTCTTTCCACGATTAGGTTCCAAAGACACAT
195 G-AAGGCAAGCATTGATTCTCGTAATAGTCTCCATTCTTTTCAAGATTGGGACCCAAAAACACAT
* ** * * *
311247 TCCTTTCACAAGGATATATGACATTGACGCTTTGGTGTCGC-----AAG-A----TTTCGACCAT
259 TACTTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCAT
* *** * * * *
311302 TTTTGATAGAATCAAAATCCATCTCTTAAATAAGACAAACATGAACAGTTATACTAATC-CACAT
324 TTTTGATAGAATCAAAGTTTGTCACTTAAATAAGACAAACATGAAAAGTCATCCTAATCGC-CAT
* *
311366 TCTTTTTAGGATTAGGCACCATAAACATAGTCTTCTCATAAGGATATACGATATTGATGCTTTGG
388 TCTTTTCAGGATTTGGCACCATAAACATAGTCTTCTCATAAGGATATACGATATTGATGCTTTGG
*
311431 TTTCGCAAGAAA-ACTTTCTTCCC
453 TTTCGCAAGAAAGGCTTTCTTCCC
* *
311454 AGCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATGAGGCAAACATGGATTCTAGTAATGATTT
1 ACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATTT
* * *
311519 TCATTCGTTTTCTAATTAGGCACTACAAACACATTCTCCTTATTAAGATAAATGATATTGATGAT
66 TCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCTCATTAAGATAAATGATATTGATGAT
* * * * * * * *
311584 TTTATTTTGCATGGAAATCTTTTCTTTGCTCTGTTTTCCTTAAAATCGAGGTTTAACCTTTAAAG
131 TTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAAG
* **
311649 AAGGCAAGCATTGATTCTTGTAATAGTCTATATTCTTTTCAAGATTGGGACCCAAAAACACATTA
196 AAGGCAAGCATTGATTCTCGTAATAGTCTCCATTCTTTTCAAGATTGGGACCCAAAAACACATTA
* * *
311714 CTTTCATTAGGATACATGACATAGATGCTTTGGTATCGCAAGAAAAGCTTTTCTTTCAACCATTT
261 CTTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCATTT
* * *
311779 TTGGTAGAATCAAAGTTTGTCACTTAAATAAGACAAACATGAAGAGTGATCCTAATCGCCATTCT
326 TTGATAGAATCAAAGTTTGTCACTTAAATAAGACAAACATGAAAAGTCATCCTAATCGCCATTCT
* * * * *
311844 TTTCAGGATTTAGCACCATAAACATAGTCTTTTTATAAGGAT-TACGATATTGACGCTTTGATTT
391 TTTCAGGATTTGGCACCATAAACATAGTCTTCTCATAAGGATATACGATATTGATGCTTTGGTTT
*
311908 TGCAAGAAAGGCTTTCTTCCC
456 CGCAAGAAAGGCTTTCTTCCC
* * * **
311929 ACCAATTTTGGTAAAGTCTAAATTTGTGCCTTAAATGAGACAAACATGGATTCTAGTAACAATTT
1 ACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATTT
* *
311994 TCATTCGTTTTCTGATTAGGCACTACAAACACATTCTCCTCATTAAGATAAATGACATTGATGAT
66 TCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCTCATTAAGATAAATGATATTGATGA-
* * *
312059 TTTTTCTTTTGCATGGAAATCTTTTCTTTACCCTATTTTCCTTAGAATCAAAATTCATCCCTTAA
130 -TTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAA
* * * * * * * * *
312124 GGAAGGGAAACATTGATTTCTTGTGACAGTCTCCATTATTTTCAGGATTGGGACCTAAAAACACA
194 AGAAGGCAAGCATTGA-TTCTCGTAATAGTCTCCATTCTTTTCAAGATTGGGACCCAAAAACACA
* ** * *
312189 TTACTTTAATTAGTCTACATGACATTGATACTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCG
258 TTACTTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCA
312254 TTTTTGATAGAATCAAAGTTTGTCACTTAAATAAGACAAACATGAAAAGTCATCCTAATCGCCAT
323 TTTTTGATAGAATCAAAGTTTGTCACTTAAATAAGACAAACATGAAAAGTCATCCTAATCGCCAT
* * * *
312319 TCTTTTCAGTATTTGGCAACATAAACATAGTCTTTTTAT-AGGCATATACGATATTGATGCTTTG
388 TCTTTTCAGGATTTGGCACCATAAACATAGTCTTCTCATAAGG-ATATACGATATTGATGCTTTG
* *
312383 ATTTTGCAAGAAAGGCTTTCTTCCC
452 GTTTCGCAAGAAAGGCTTTCTTCCC
* **
312408 ACCAATTTTTGTAAAGTCTAAGTTTGTGCCTTAAATGAGACAAACATGGATTCTAGTAACAATTT
1 ACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATTT
* * * *
312473 TCATTCATTTTCTGATTAGGTACTACAAACACATTCCCCTCGTTAAGATAAATGACATTGATGAT
66 TCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCTCATTAAGATAAATGATATTGATGAT
* * *
312538 TTTCTTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAGAATCAAAATTCATCCTTTAAA
131 TTTC-TTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAA
* * * * *
312603 GAAGGGAAACATTGATTTCTTGTAAAAGTCTCCATGT-TTTTCAGGATTGGGACCCAAAAACACA
195 GAAGGCAAGCATTGA-TTCTCGTAATAGTCTCCAT-TCTTTTCAAGATTGGGACCCAAAAACACA
* * * ** *
312667 TTACTTTAATTAGTG-TACATGACATTGATACTTTCGTGTCATAAGAAAAGCATTTCTCTCAACC
258 TTACTTTCATTAG-GATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACC
* * * * * *
312731 GTTTTTGATAGAATCAAAGTTTGTGACTTAAATAAGGCAAACACGAACACTCATCCTAATCGCCA
322 ATTTTTGATAGAATCAAAGTTTGTCACTTAAATAAGACAAACATGAAAAGTCATCCTAATCGCCA
* * *
312796 TTCTTTTCAGGATTTGGCACCATAAACATAGTCTTCTAATAAGGATATATGATATTGACGCTTTG
387 TTCTTTTCAGGATTTGGCACCATAAACATAGTCTTCTCATAAGGATATACGATATTGATGCTTTG
* *
312861 GTTTCGTAAGAAAGGCTTTCTTCTC
452 GTTTCGCAAGAAAGGCTTTCTTCCC
** * *
312886 ACCAATTTTTGTAAAGTCTAAGTTTGTTACTCAAATGAG----ACATAGATTCTAGTAATTATTT
1 ACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATTT
* *
312947 TCATTCATTTTCTGATTAGGCACTA-AAA-ACATGT-T-CTCCTT--G-TTAA-GATA-TG--G-
66 TCATTCATTTTCTGATTAGGCACTACAAACACAT-TCTCCTCATTAAGATAAATGATATTGATGA
*
313000 ----C----G--TGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTTATCCCTTAAA
130 TTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAA
** * * * * * *
313055 GAAGAAAAACATTAATTCTCAT-ATCATTCTCCATTCTTTCCGAGATTGGGACCCAAAAACACAT
195 GAAGGCAAGCATTGATTCTCGTAAT-AGTCTCCATTCTTTTCAAGATTGGGACCCAAAAACACAT
* ** *
313119 TACTTTCTTTAGGATATC-TGACATTGATGCTTAAGTGTCGCAAGAAAAGCATTTCTTTCAACCG
259 TACTTTCATTAGGATA-CATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCA
* * * * * *
313183 TTTATGTTAAAATCAAAGTTTGTCTCTTAAATAAGGCAAACATGAATAGTCATCCTAATCGCCAT
323 TTTTTGATAGAATCAAAGTTTGTCACTTAAATAAGACAAACATGAAAAGTCATCCTAATCGCCAT
* * * * * *
313248 TCTTTTCAAGATTTGGCACCAAAAACATAATCTTCTCATAAAGATACACAATATTGATGCTTTGG
388 TCTTTTCAGGATTTGGCACCATAAACATAGTCTTCTCATAAGGATATACGATATTGATGCTTTGG
* ** *
313313 TTTCACAAGAAAACCTTTCTT-GC
453 TTTCGCAAGAAAGGCTTTCTTCCC
* ** * * * * *
313336 ACCTAATTTTTGTAAAGTCTAAGTTCGTGCCTCAGTTGGGATAAATATGGATTC-AATAATGATC
1 ACC-AATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATT
* * * * * * * *
313400 TTCATTCACTCTATGATTAGGCACTATAAACATATTCTCCTCATTAGGGTAAATGATAATGATGA
65 TTCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCTCATTAAGATAAATGATATTGATGA
* * * * * * *
313465 TTTTCTTTGGCAAGGAAATCTTTT-TTTGCCCTATTTTCCATATAATAAAAATTCATCTCTTAAA
130 TTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAA
* * * * * * * * *
313529 TATGACAAGCATCT-ATTCTCGTAATAGTCTCTACTCTTTTGAAG-TTGGGAGCTAAGAACACAT
195 GAAGGCAAGCAT-TGATTCTCGTAATAGTCTCCATTCTTTTCAAGATTGGGACCCAAAAACACAT
* * * ***
313592 T-CTCTTTATTAAGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGC-TTT-TATTCTGTC
259 TACT-TTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCT-TTCAACC
* * * * * *
313654 ATATTTTTATAAAATCAAAATTTGTCTCTTAAATAAGACAAATAT-AAATAGTCAT-TTCAAT--
322 AT-TTTTGATAGAATCAAAGTTTGTCACTTAAATAAGACAAACATGAAA-AGTCATCCT-AATCG
* * * * *
313715 CC---C----CAGGATTAGGCACCATAAACATAGGCTTCTCATAGGGATACACGATATTGAAGCT
384 CCATTCTTTTCAGGATTTGGCACCATAAACATAGTCTTCTCATAAGGATATACGATATTGATGCT
313773 TTGGTTTCGCAAGAAAGGC-TT-TTCCTC
449 TTGGTTTCGCAAGAAAGGCTTTCTTCC-C
* * * ** * * * *
313800 TGCCAATTTTTGTAAATTCTATGTTTGCACCTTAATTGTGACAAACATGGATTCTAGTAATGATC
1 -ACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATT
* * **
313865 TTCATTCATTTTGTGATTA-G---TAC-ATCGACATTCTCCTCATTGGGATAAATGATATTGATG
65 TTCATTCATTTTCTGATTAGGCACTACAAAC-ACATTCTCCTCATTAAGATAAATGATATTGATG
* * * * *
313925 ATTTTCTTTTACGTGAAAATCTTTTCTTTGCCCTATTTTCCTTAAAATTAAAGTTCATCCTTTAA
129 ATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAA
* ** * ***
313990 ATAAGATAAGCATTGATTCTCGTAATAGTCTCCATTCTTTTCAAGACTGGGAAATAAAAACACAT
194 AGAAGGCAAGCATTGATTCTCGTAATAGTCTCCATTCTTTTCAAGATTGGGACCCAAAAACACAT
314055 T
259 T
314056 GTAGACACCT
Statistics
Matches: 2217, Mismatches: 314, Indels: 144
0.83 0.12 0.05
Matches are distributed among these distances:
450 7 0.00
451 250 0.11
452 62 0.03
454 31 0.01
455 12 0.01
456 4 0.00
457 5 0.00
459 2 0.00
460 5 0.00
461 56 0.03
462 75 0.03
463 18 0.01
464 106 0.05
465 268 0.12
466 7 0.00
467 3 0.00
468 4 0.00
469 2 0.00
470 3 0.00
471 8 0.00
472 18 0.01
473 105 0.05
474 133 0.06
475 245 0.11
476 1 0.00
477 74 0.03
478 544 0.25
479 169 0.08
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (476 bp):
ACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATTT
TCATTCATTTTCTGATTAGGCACTACAAACACATTCTCCTCATTAAGATAAATGATATTGATGAT
TTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAAG
AAGGCAAGCATTGATTCTCGTAATAGTCTCCATTCTTTTCAAGATTGGGACCCAAAAACACATTA
CTTTCATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCATTT
TTGATAGAATCAAAGTTTGTCACTTAAATAAGACAAACATGAAAAGTCATCCTAATCGCCATTCT
TTTCAGGATTTGGCACCATAAACATAGTCTTCTCATAAGGATATACGATATTGATGCTTTGGTTT
CGCAAGAAAGGCTTTCTTCCC
Found at i:314352 original size:13 final size:13
Alignment explanation
Indices: 314334--314358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
314324 CATAAAGTGT
314334 TGTATCGATACAA
1 TGTATCGATACAA
314347 TGTATCGATACA
1 TGTATCGATACA
314359 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:314358 original size:33 final size:33
Alignment explanation
Indices: 314314--314380 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
314304 TTCAACGATT
314314 TGTATCAATACATAAAGTGTTGTATCGATACAA
1 TGTATCAATACATAAAGTGTTGTATCGATACAA
* *** *
314347 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCAATACATAAAGTGTTGTATCGATACAA
314380 T
1 T
314381 TTAAGCTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCAATACATAAAGTGTTGTATCGATACAA
Found at i:314439 original size:13 final size:13
Alignment explanation
Indices: 314421--314445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
314411 ATCACTTAAA
314421 TGTATCGATACAT
1 TGTATCGATACAT
314434 TGTATCGATACA
1 TGTATCGATACA
314446 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:314510 original size:52 final size:52
Alignment explanation
Indices: 314454--314634 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
314444 CACTGATCTT
314454 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
314506 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* **
314558 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
314610 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
314635 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:318791 original size:10 final size:10
Alignment explanation
Indices: 318776--318802 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
318766 TACTAACTAA
318776 GTTTTTGTTT
1 GTTTTTGTTT
318786 GTTTTTGTTT
1 GTTTTTGTTT
318796 GTTTTTG
1 GTTTTTG
318803 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:320438 original size:13 final size:13
Alignment explanation
Indices: 320420--320450 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
320410 ACAAGAAAAA
320420 CATTTCTTTCAAC
1 CATTTCTTTCAAC
320433 CATTTCTTTCAAC
1 CATTTCTTTCAAC
320446 CATTT
1 CATTT
320451 TTGATAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (13 bp):
CATTTCTTTCAAC
Found at i:321386 original size:476 final size:476
Alignment explanation
Indices: 319889--325399 Score: 6043
Period size: 476 Copynumber: 11.6 Consensus size: 476
319879 ACGTTGCGAC
* * * * *
319889 ACACATTC-CTTTCATTAGGATACATGGCATTGACGCTTTGGTGTCACAAGAAAAGCATCTCTTT
1 ACACATTCTCTTT-ATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT
* * * * *
319953 CAACCATTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAAACAAACATGACTAGTTATACTAAT
65 CCATCGTTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAAT
* * * * * * **
320018 CCCTATTCTTTTTAGTATTAGGCACCATAAACATAGTCTTGTTATAAAGATATACAATATTGACA
130 CCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATACGATATTGATG
* * * *
320083 CTTTGGTTTTGCAAGACAGGCTTTCTTCCCACTAATTTTTGTAAAGTCTAA-TTTCGTGCCTTAA
195 CTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTT-GTGCCTCAA
* * * * * *
320147 AGGTGACAAATATGGATTCTAGTAATGAACTTCATTCATTTTGTGATAAGGCACTATAAACACAT
259 ATGAGACAAACATGGATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACAT
* * * * * *
320212 TCTCTTTATTAGGATAAATGATATTGATGGTATTCTTTTGCATGAAAATCTATTCTTTGTCGC-A
324 TCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTG-CCCTA
* * * * * * * * *
320276 TTTTTCTTAAAATCAAAGTTCCTCCCTTAAATAAGACAAGCATTGATTCTCGTAACAGTTTCCAC
388 TTTTCCTTAAAATAAAAATTCATACCTTAAATATGACAAGCATTGATTCTCATAACAGTCTCCAT
* * * * *
320341 TCTTCTCAAAATTAGGAACCAAAA
453 TCTTTTCAAGATTGGGAGCCAAGA
* * * *
320365 ACACATTC-CTTTCATTAGGATACATGACATTGATGATTTGGTGTCACAAGAAAAACATTTCTTT
1 ACACATTCTCTTT-ATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT
* * * *
320429 CAACCATTTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTTTTAAATATGATAAACATGAA
65 ---CCA--TC-GT------TTTTT-ATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAA
* * * * * * *
320494 AAGTCATA-TATTCCCCATTCTTTTCAGGATTTGGCA-CATAAACATAGTCTTCTCATAAAGAAA
117 TAGTTATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATA
* * ** * * * * *
320557 CACGATATTGATGCTTTGATTTCATATGAAAGGCTTTCTTCCCGCCAAGTTTTCT-AAGCCTAA-
182 TACGATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAG
* * * * ** * *
320620 TTTCGTGCCTCAAGTGTGCCAAACATGCACGCTAGAAATGATCTTCATTCACTTTATGATTAGGC
247 TTT-GTGCCTCAAATGAGACAAACATGGATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGC
* * * *
320685 ACTATAAACACATTTTTCTCATTTGGATAAATGATATTGATGATTTT-TTTTGCATGGAAATCTT
311 ACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTT
* * * *
320749 TTCATTGCCCTATTTTCCTTAAAATAAAAGTTCA-A-CTGTCAAATATGATAAGTATTGATTCTC
376 TTCTTTGCCCTATTTTCCTTAAAATAAAAATTCATACCT-T-AAATATGACAAGCATTGATTCTC
* * * *
320812 GTAACAATCTCCATTTTTTTCAAGATTGGGAAG-CAGGA
439 ATAACAGTCTCCATTCTTTTCAAGATTGGG-AGCCAAGA
* * * *
320850 ACATATTCGCTTTGTTACGATACATGACATTGATGCTTTGAG-GTCGCAAGAAAAGCTTTTCTTT
1 ACACATTCTCTTTATTAGGATACATGACATTGATGCTTTG-GTGTCGCAAGAAAAGCTTTTCTTT
* * *
320914 CCATCGTTTTTTATAGAATCAAAGTTTGTATCTTAAATAAAACAAACATGAATAGTCATACTAAT
65 CCATCGTTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAAT
* * * * *
320979 CCCCATTATTTTCAAGATTTGGCACCATAAACATAGTCTTCTTATAAGGATATATGATATTGATC
130 CCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATACGATATTGATG
* * * * *
321044 CCTTGGTTTCACCAGAAAAGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTTAAA
195 CTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAA
* * *
321109 TGAGACAAACATGGATTCTAGAAATGATTTTCATTCGTTTTGTGATTTGGCACTATAAACACATT
260 TGAGACAAACATGGATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATT
* * *
321174 CTCCTTATTAGGATAAATGATATTAATGATTATCTTTTGCATGAAAATCTTTTCTTTGCCCTTAT
325 CTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCC-TAT
** * ** * *
321239 TTTTATTAAAATAAAAATTGATACCTTAAATATGACAAGCATCAATACTCATAACAATCTCCATT
389 TTTCCTTAAAATAAAAATTCATACCTTAAATATGACAAGCATTGATTCTCATAACAGTCTCCATT
*
321304 CTTTTTAAGATTGGGAGCCAAGA
454 CTTTTCAAGATTGGGAGCCAAGA
* * ** *
321327 ACAAATT-TCTTTATTAGGATAGATGACATTGATGCTTTGGTGTCATAAGAAAAGCTTTTCTTCC
1 ACACATTCTCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC
* * * * * * *
321391 CATCATTTTTGATGGAATTAAAGTTTGTCTCTTAAGTAAGGCAAACATGAATAGTTATACTCATC
66 CATCGTTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAATC
* * *
321456 TCCATTCTTTTCAGGATTAGGTAGCC-TAAACATAGTCTTCTTATAAGGATATATGATATTGATG
131 CCCATTCTTTTCAGGATTAGGCA-CCATAAACATAGTCTTCTTATAAGGATATACGATATTGATG
** * * ** ** * *
321520 CTTTGACTGCGCAAGAAAGGCCTTCTTCCCACCAATTTTTGTAAAACCTAAGTTCATGCATCAAC
195 CTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAA
* * * * * *
321585 TGTGACAAATATGGAATT-TAGAAATGATCTTTATTCACTTTATGATTAAGCACTATAAACACAT
260 TGAGACAAACATGG-ATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACAT
* * * * * *
321649 TCTCCTCATAAGGACAATTGATATTGTTGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCCAT
324 TCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTAT
* * * * *
321714 TTTCATTAAAATAAAAATTCATACCCTAAATATGACAAGCATCGATTCTCGTAATAGTCTCCATT
389 TTTCCTTAAAATAAAAATTCATACCTTAAATATGACAAGCATTGATTCTCATAACAGTCTCCATT
*
321779 CTTTTCAAGATTGGGAGCCAGGA
454 CTTTTCAAGATTGGGAGCCAAGA
* * *
321802 ACAAATTCTCTTTATTAGGAT--A--A-A-TGAT--ATTGAT-T-----------CTTTTCTTTC
1 ACACATTCTCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC
* * * *
321847 CATTGTTTTTGATATAATCAAAGTTTGTCTCTTAAATAAGACAAACATGACTAGTTATACTAATC
66 CATCGTTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAATC
* * ** *
321912 CCAATTCTTTTTAGGATTAAACACCATAAACATAGTCTTCTTATAAGGATATACGAAATTGATGC
131 CCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATACGATATTGATGC
* * * * * * *
321977 TTTGGTTTCGCAAGAACGGTTTTCTTTCCACCAATTTTTGTAAAATTTAATTTTGTGCCTTAAAT
196 TTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAAT
* * * * * ** *
322042 TAGACAAACATTGATTCTAGTAATGTTCTTCATTCCTTTTGTGATTAGGCACTGCAAATACATTC
261 GAGACAAACATGGATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
* * * *
322107 TCCTCATTAGGATAAATGGTATGGATGATTTTCTTTTGCGTGAAAATCTTTTCTTTG-CCTCGTT
326 TCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCT-ATT
* * * * ** * *
322171 TTCCCTAAGATAAAAATTCGTCACC-TAAATATAACAA-CCCTGATTCTCTTAATAGTCTCCATT
390 TTCCTTAAAATAAAAATTCAT-ACCTTAAATATGACAAGCATTGATTCTCATAACAGTCTCCATT
*
322234 CTTTTCAAGATTGAGAGCCAAGA
454 CTTTTCAAGATTGGGAGCCAAGA
* *
322257 ACACATTCTGTTTATTAGGATACATGACATTGATGCTTCGGTGTCGCAAGAAAAGCTTTTCTTTC
1 ACACATTCTCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC
* *
322322 CATCGTTTTTGATAGAATCAAAGTTTG--TCTTAAATAAGACAAAGCATGAATAGTTATACCAAT
66 CATCGTTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAGACAAA-CATGAATAGTTATACTAAT
* * * *
322385 CCACATTCTCTTCAGGATTAGGCACCGTAAACATAATCTTCTTATAAGGATATATC-ATATTGAT
130 CCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATA-CGATATTGAT
* * * *
322449 GCTTTGATTTTGCAAGAAATGCTTTCTTCCCACCAATTTTTTTAAAGTCTAAGTTTGTGCCTCAA
194 GCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAA
* * * * *
322514 ATGAGACAAACATGGATTTTAGTAATAATATTCATTCGTTTTGTGATTAGGCACTATAAACACAT
259 ATGAGACAAACATGGATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACAT
* * ** * * * *
322579 TATTCTCATTAACATAAATGATATCGATGA--TTATTTT-CATGTGAAAATCCTTTCTTTGCCTT
324 TCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCA--TGAAAATCTTTTCTTTGCCCT
* * * *
322641 ATTTTCCTTAAAATCAAAGTTCA-ACCTTCAAATAAGATAAGCATTGATTCTCATAACAGTCTCC
387 ATTTTCCTTAAAATAAAAATTCATACCTT-AAATATGACAAGCATTGATTCTCATAACAGTCTCC
* * ** *
322705 ATTCTTCTCAAGATTAGGAATCAAAA
451 ATTCTTTTCAAGATTGGGAGCCAAGA
* * ** *
322731 ACATATTC-CTTTCATTAGGATACATGACATTGATTCTTTCATGTCGCAAGAAAAGCATTTCTTT
1 ACACATTCTCTTT-ATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT
* * * * * *
322795 CAACCATTTTCTATAGAATCAAAGTTTATCTCTTAAATACGACAAACATGAATAGTTATACTAAT
65 CCATCGTTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAAT
* * * * **
322860 TCTCATTCTTTTCAGGATTAGGCACCATAAATATAGTCTTCTTATAAGGATATACAATATTGACC
130 CCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATACGATATTGATG
* * * * * * * *
322925 CTTTGGTTTCACAGGAAAGGCTTTCTTCCCACCAAGTTTTGTACAGCCTAAGTTCGTGCTTCAAT
195 CTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAA
* * * * *
322990 TGTG-CTAAATATGGATTCTAGTAATGATCTTCATTTACTTTGTGATTAGGCACTATAAACACAT
260 TGAGAC-AAACATGGATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACAT
* *
323054 TCTCCTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCTTAT
324 TCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTAT
* * * *
323119 TTTCCTTAAAATAAAAGTTCA-ACCGTTAAATATGATAAGCATTGATTCTCATAATAGTCTCCTT
389 TTTCCTTAAAATAAAAATTCATACC-TTAAATATGACAAGCATTGATTCTCATAACAGTCTCCAT
* *
323183 TCTTTTCCAGATTGGGAAG-CATGA
453 TCTTTTCAAGATTGGG-AGCCAAGA
** * * *
323207 ACACATTCTCTTCGTTATGATACATGACATTGATGCTTTGGTGTCACAAGAAAAGCTGTTCTTTC
1 ACACATTCTCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC
* * * * *
323272 CAT-TTTTTTTGGTAGAATCAAAGTTTGTATCTTAAATAAGACAAGCATGAATAGTCATACTAAT
66 CATCGTTTTTT-ATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAAT
* * * * *
323336 CCCCCTTATTTTTAGGATTTGGCACCATAAACATAGTCTTCTTATAAGGATATATGATATTGAT-
130 CCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATACGATATTGATG
* * *
323400 CTTTTGGTTTTGCAAGAAAAGCTTTCTTCCCACCAATTTTTGCAAAGTCTAAGTTTGTGCCTCAA
195 C-TTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAA
* * * * *
323465 CTGAGACAAACATGGATTCTACTAAA-GATCTTCATTCGTTTTGTGATTTGCCACTATAAACACA
259 ATGAGACAAACATGGATTCTA-GAAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACA
* * * * * * *
323529 TTTTCCTTATTAGAATAAATGATATTAATGATTTTCTTTTGCATGGAAATCTTTTCTTTCCCCCA
323 TTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTA
* ** * *
323594 TTTTCATTAAAATAAAAATTCATACCACAAATATGACAAGCTTTGATTCGCATAACAGTCTCCAT
388 TTTTCCTTAAAATAAAAATTCATACCTTAAATATGACAAGCATTGATTCTCATAACAGTCTCCAT
*
323659 TCTTTTCAAGATTAGGAGCCAAGA
453 TCTTTTCAAGATTGGGAGCCAAGA
* * * *
323683 ACAAATTCTCTTTATTAGGATAAATGACATTAACGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC
1 ACACATTCTCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC
* * *
323748 AATC-TTTTTTAATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATAAATAGTTATACTCAT
66 CATCGTTTTTT-ATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAAT
* * * *
323812 CCCCATTCTTTTCAGGATTAGACACCCTAAGCATAGTCCTCTTATAAGGATATACGATATTGATG
130 CCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATACGATATTGATG
* * * * * * * *
323877 CTTTGATTTCGCCATAAAGGCTTTCTTACTACCAATTTTTGTAAAGCCTAAGTTCGTGCCTCAAT
195 CTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAA
* * *
323942 TGTGACAAACATGGATTCTAGAAATGATCTTCATTCACTTTGTGATTAGGCACTA-ATAACATAT
260 TGAGACAAACATGGATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGCACTATA-AACACAT
* * * *
324006 TCTCCTC-TTAAGGACAAATGATATTGTTG-TTCTTCTTTTGCATGGAAATCTTTTATTTGCCCC
324 TCTCCTCATT-AGGATAAATGATATTGATGATT-TTCTTTTGCATGAAAATCTTTTCTTTG-CCC
* * * ** * *
324069 CATTTTCATTAAAATAAAAATTCATACCTTAAATATAACAAGCATCAATTCTCTTAACAATCTCC
386 TATTTTCCTTAAAATAAAAATTCATACCTTAAATATGACAAGCATTGATTCTCATAACAGTCTCC
324134 ATTCTTTTCAAGATTGGGAGCCAAGA
451 ATTCTTTTCAAGATTGGGAGCCAAGA
* * * *
324160 ACAAATTCTCTTTATTATGATAAATGACATTGATGCTTTGGTATCGCAAGAAAAGCTTTTCTTTC
1 ACACATTCTCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC
* * *
324225 CATCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTCATC
66 CATCGTTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAATC
* *
324290 CCCATTCTTTTTAGGATTAGGCACCTTAAACATAGTCTTCTTATAAGGATATACGATATTGATGC
131 CCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATACGATATTGATGC
* * *
324355 TTTGGTTTCGCAAGAAAGGTTGCTTGCTTCCCACCTATTTTTGTAAAG-CTTAAGTTCGTGCCTC
196 TTTGGTTTCGCAAGAAA-G--GCTTTCTTCCCACCAATTTTTGTAAAGTC-TAAGTTTGTGCCTC
* * ** *
324419 AATTGTGACAAA-ATGGATTCTAGAAATGATCTTCATTCACATTGTGATTAGGCATTATAAACAC
257 AAATGAGACAAACATGGATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACAC
* * * * *
324483 ATTCTCCTCATAAAGACAAATGATATT-ATTGATTTT-TTTTGCATGGAAATCTTTTTTTTGCCC
322 ATTCTCCTCATTAGGATAAATGATATTGA-TGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCC
* * ** *
324546 TATTTTCCTTAAAATAAAAATTCATCCCTTAAATATGACAAGTAACGATTCTCATAACAGTCTCT
386 TATTTTCCTTAAAATAAAAATTCATACCTTAAATATGACAAGCATTGATTCTCATAACAGTCTCC
* *
324611 ATTCTTTGCAAGATTTGGAGCCAAGA
451 ATTCTTTTCAAGATTGGGAGCCAAGA
* * * *
324637 ACACATTCTCTTTATTAGGAGACATGACATTGATGCTTTGATGTCGTAAGAAAAACATTTT-TTT
1 ACACATTCTCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGC-TTTTCTTT
* * * *
324701 CCATTGCTTTTTT-TAGAATC--A-TTTGTCTCTTATATAAGACAAACATGAATAGTCATAGTAA
65 CCATCG-TTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAA
* * * ** * * *
324762 TCCCCATTCTTTTCAGGATTTGGCCCCATAAACATTGTCTGGTCATAAGGATACACGATATTGAC
129 TCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATACGATATTGAT
* * * * * * *
324827 ACTTTGGTTTCACATGAAAGGCTTTTTTTCCACCAATTTTTGAAAAGTCTAAGTTTCTGCCTCAA
194 GCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAA
* * * * *
324892 ATGAGACTAACATGGATTCTAGTAATGATCTTTATTCATTTTGTGATTAGGCACTATAAACATAG
259 ATGAGACAAACATGGATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACAT
* * *
324957 TCTCCTCATTAGGATAAATAGA-ATTGATGTTTTTTTTTTTGCATGAAAATTTTTTCTTTGCCCT
324 TCTCCTCATTAGGATAAAT-GATATTGATG-ATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCT
* * * * * * * *
325021 ATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAACTTTGATTCTCGTAACAGTCTTCA
387 ATTTTCCTTAAAATAAAAATTCATACCTTAAATATGACAAGCATTGATTCTCATAACAGTCTCCA
* * *
325086 TTCTTTTCAATATTGCGAACCAA-A
452 TTCTTTTCAAGATTGGGAGCCAAGA
* *
325110 ATCACATTGCT-TTCATTAGGATACATGACATTGATG-TTTGGTGTCGCAAGAAAAGCATTTCTT
1 A-CACATT-CTCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTT
* * * * * * * * *
325173 TCAATCGTTCTTGATAGAATCAAAGTTTGTCCCTTACATATGACAAACATGTATAGTCATTCTAA
64 TCCATCGTTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAA
** * * * *
325238 TTGCTATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATAACGATACACGATATTGAT
129 TCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATACGATATTGAT
* ** *
325303 GCTTTGGTTTCGTAAGAAAGGCTTTCCCCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAA
194 GCTTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAA
* * *
325368 TTGTA-ACAAACATGGATTCTTGTAATGATCTT
259 ATG-AGACAAACATGGATTCTAGAAATGATCTT
325400 TGTAAGCTTA
Statistics
Matches: 4234, Mismatches: 688, Indels: 226
0.82 0.13 0.04
Matches are distributed among these distances:
455 69 0.02
456 295 0.07
457 4 0.00
459 1 0.00
460 1 0.00
461 4 0.00
463 3 0.00
464 1 0.00
467 1 0.00
468 4 0.00
470 4 0.00
471 48 0.01
472 126 0.03
473 131 0.03
474 622 0.15
475 445 0.11
476 1393 0.33
477 519 0.12
478 42 0.01
479 80 0.02
480 55 0.01
481 1 0.00
482 4 0.00
483 2 0.00
484 3 0.00
485 137 0.03
486 105 0.02
487 65 0.02
488 28 0.01
489 41 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (476 bp):
ACACATTCTCTTTATTAGGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTC
CATCGTTTTTTATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTTATACTAATC
CCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTTATAAGGATATACGATATTGATGC
TTTGGTTTCGCAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAAT
GAGACAAACATGGATTCTAGAAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTC
TCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCCCTATTT
TCCTTAAAATAAAAATTCATACCTTAAATATGACAAGCATTGATTCTCATAACAGTCTCCATTCT
TTTCAAGATTGGGAGCCAAGA
Found at i:328665 original size:20 final size:20
Alignment explanation
Indices: 328626--328678 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
328616 AACATTTTTA
*
328626 TGAAGATTTTGAAGTAAAA-
1 TGAAGAATTTGAAGTAAAAT
* *
328645 TGAAAGAATTTGATGTGAAAT
1 TG-AAGAATTTGAAGTAAAAT
328666 TGAAGAAATTTGA
1 TGAAG-AATTTGA
328679 GTTTGATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.07
20 17 0.61
21 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (20 bp):
TGAAGAATTTGAAGTAAAAT
Found at i:331735 original size:13 final size:13
Alignment explanation
Indices: 331717--331741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
331707 CATTATGCTT
331717 TGTATTGATACAA
1 TGTATTGATACAA
331730 TGTATTGATACA
1 TGTATTGATACA
331742 TGTTAGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATTGATACAA
Found at i:331758 original size:19 final size:19
Alignment explanation
Indices: 331726--331783 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 19
331716 TTGTATTGAT
*
331726 ACAA-TGTATTGATACATG
1 ACAATTGTATCGATACATG
** *
331744 TTAGTTGTATCGATACATGG
1 ACAATTGTATCGATACAT-G
331764 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
331783 A
1 A
331784 GATTGGTAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 1 0.03
19 14 0.45
20 16 0.52
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (19 bp):
ACAATTGTATCGATACATG
Found at i:331856 original size:33 final size:33
Alignment explanation
Indices: 331814--331877 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
331804 CCACTATTTG
331814 TATCGATACATGAT-ACAATGTATCGATACATTA
1 TATCGATACATGATGA-AATGTATCGATACATTA
*
331847 TATCGATACATGATGAATTGTATCGATACAT
1 TATCGATACATGATGAAATGTATCGATACAT
331878 AGCTTGTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (33 bp):
TATCGATACATGATGAAATGTATCGATACATTA
Found at i:339951 original size:35 final size:35
Alignment explanation
Indices: 339901--339994 Score: 145
Period size: 35 Copynumber: 2.7 Consensus size: 35
339891 GAAAATTGCT
339901 TTGATTAAGGGGGAGAAAATTTTTTGAGAAATGCC
1 TTGATTAAGGGGGAGAAAATTTTTTGAGAAATGCC
* **
339936 TTGGTTAAGGGGGAGAAAATTTTTTGAGAAATGTT
1 TTGATTAAGGGGGAGAAAATTTTTTGAGAAATGCC
*
339971 TTGATTAAGGGGTAG-AAATTTTTT
1 TTGATTAAGGGGGAGAAAATTTTTT
339995 ATTAAAGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 9 0.17
35 45 0.83
ACGTcount: A:0.32, C:0.02, G:0.29, T:0.37
Consensus pattern (35 bp):
TTGATTAAGGGGGAGAAAATTTTTTGAGAAATGCC
Found at i:340588 original size:13 final size:13
Alignment explanation
Indices: 340570--340594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
340560 CATTATGCTT
340570 TGTATCGATACAA
1 TGTATCGATACAA
340583 TGTATCGATACA
1 TGTATCGATACA
340595 TATTAGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:340709 original size:33 final size:33
Alignment explanation
Indices: 340664--340730 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
340654 TTACCACTAT
340664 TTGTATCAATACATGATACAATGTATCGATACA
1 TTGTATCAATACATGATACAATGTATCGATACA
* ** *
340697 TTGTATCGATACATGATGTATTGTATCGATACA
1 TTGTATCAATACATGATACAATGTATCGATACA
340730 T
1 T
340731 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (33 bp):
TTGTATCAATACATGATACAATGTATCGATACA
Found at i:340710 original size:13 final size:13
Alignment explanation
Indices: 340678--340710 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
340668 ATCAATACAT
*
340678 GATACAATGTATC
1 GATACATTGTATC
340691 GATACATTGTATC
1 GATACATTGTATC
340704 GATACAT
1 GATACAT
340711 GATGTATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:346428 original size:22 final size:24
Alignment explanation
Indices: 346398--346441 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
346388 CTTTTCAATC
*
346398 TCTTCAAGA-GTTATACCCCAAAT
1 TCTTCAAGAGGTTATAACCCAAAT
346421 TCTT-AAGAGGTTATAACCCAA
1 TCTTCAAGAGGTTATAACCCAA
346442 GATTTAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (24 bp):
TCTTCAAGAGGTTATAACCCAAAT
Found at i:348764 original size:19 final size:19
Alignment explanation
Indices: 348740--348784 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
348730 AAACGTTTTT
348740 AATGAA-GATTTTGAAGTAA
1 AATGAAGGA-TTTGAAGTAA
*
348759 AATGAAAGGATTTGATGTAA
1 AATG-AAGGATTTGAAGTAA
348779 AATGAA
1 AATGAA
348785 AGAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 15 0.65
21 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (19 bp):
AATGAAGGATTTGAAGTAA
Found at i:348778 original size:20 final size:20
Alignment explanation
Indices: 348749--348786 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
348739 TAATGAAGAT
348749 TTTGAAGTAAAATGAAAGGA
1 TTTGAAGTAAAATGAAAGGA
*
348769 TTTGATGTAAAATGAAAG
1 TTTGAAGTAAAATGAAAG
348787 AAATTTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (20 bp):
TTTGAAGTAAAATGAAAGGA
Found at i:350734 original size:22 final size:22
Alignment explanation
Indices: 350709--350751 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
350699 CCATTTAGTC
350709 CCTATTATTGGATGATCACTTT
1 CCTATTATTGGATGATCACTTT
350731 CCTATTATTGGATGATCACTT
1 CCTATTATTGGATGATCACTT
350752 GATCTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (22 bp):
CCTATTATTGGATGATCACTTT
Found at i:353939 original size:20 final size:20
Alignment explanation
Indices: 353914--353970 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
353904 TACTACCAGT
*
353914 TTCATGTATCGATACAATTC
1 TTCATGTATCAATACAATTC
*
353934 TTCATGTATCAATACAA-TA
1 TTCATGTATCAATACAATTC
**
353953 AGCATGTATCAATACAAT
1 TTCATGTATCAATACAAT
353971 GTATCAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.35
Consensus pattern (20 bp):
TTCATGTATCAATACAATTC
Found at i:353974 original size:13 final size:13
Alignment explanation
Indices: 353956--353982 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
353946 TACAATAAGC
353956 ATGTATCAATACA
1 ATGTATCAATACA
353969 ATGTATCAATACA
1 ATGTATCAATACA
353982 A
1 A
353983 AGCAATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:356145 original size:475 final size:476
Alignment explanation
Indices: 355229--356288 Score: 1330
Period size: 475 Copynumber: 2.2 Consensus size: 476
355219 GATTCTAGCA
* ** *
355229 ACTATAAACACATTCTCCTTATTAGGATAAATGCTATTGATGATTTTCTTTTGTATC-AAAATCT
1 ACTATAAACACATTCTCCTCATTAGGATAAATGGAATTGATGATTTTCTTTTGCA-CGAAAATCT
* * * * **
355293 TTTCTTTGCTCC-ATTTTCCATAAAATAAAAATTCATCCCTTAAATATGACAAGTATCGATTCTC
65 TTTCTTTGC-CCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAACATCGATTCTC
* * * * * * * *
355357 TTAACAGTCTCCATTCTTTTCAAGATTGGGAGCCAAGAACACATTCTCTTTCTTAGGATATATGG
129 GTAACAGTCTACATTCTTTTCAAGACTGGGAACCAAAAACACATTCTCTTCCTTAGGATACATGA
*** * *
355422 CATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATTGTTTTTGATAGAATAAAAGTTTT
194 CATTGATGCTTTGGTGTCGCAAGAAAAAAATTTCTTTCCATTGTTTTTGATAAAATAAAAGTTTG
* * *
355487 TCTCTTGAAAAAGACAAACATTAGTAGTCATACTAATCTCCAATCTTTTCAGGATTAGGCACCAT
259 TCTCTTGAAAAAGACAAACATGAATAGTCATACTAATCCCCAATCTTTTCAGGATTAGGCACCAT
* * * * * * *
355552 AAACATAATCTTCTCATAAGGATACATGATATCGATGCTTTGTCTTTGCAAGAAAGGTTTTTTTC
324 AAACATAATCTTCTCAAAAGAATACACGATATCGATGCTTGGTCTTCGCAAGAAAGGCTTTCTTC
* * *
355617 CCACCAAATTTGGAAAAGTCTAAGCTCCTGCCTCAAATGAGACAAACATGGATTCTAGTAATAAT
389 CCACCAAATTTGGAAAAGCCTAAGCTCATGCATCAAATGAGACAAACATGGATTCTAGTAATAAT
*
355682 ATTCATTCATTTTGTGATTAGGC
454 ATTCATTCACTTTGTGATTAGGC
*
355705 ACTATAAACACATTCTCCTCATTAGGATAAATGGAATTGATGATTTTCTTTTACACGAAAATCTT
1 ACTATAAACACATTCTCCTCATTAGGATAAATGGAATTGATGATTTTCTTTTGCACGAAAATCTT
* * *
355770 TTCTTTGCCCTATTTT-TTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAACATTGATTCTCGT
66 TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAACATCGATTCTCGT
* *
355834 AAGAGTCTACATTCTTTTCATA-ACTGGGAACTAAAAACACATT-TCCTTCCTTAGGATACATGA
131 AACAGTCTACATTCTTTTCA-AGACTGGGAACCAAAAACACATTCT-CTTCCTTAGGATACATGA
* *
355897 CATTGATGCTTTGGTGTCGCAAGAAAAAAATTTCTTT-CATCTTTTTTTGATAAAATCAAAGTTT
194 CATTGATGCTTTGGTGTCGCAAGAAAAAAATTTCTTTCCAT-TGTTTTTGATAAAATAAAAGTTT
* * * *
355961 GTCTCTT-AAATAAGACAAACATGAATAGTCATTCTAATCCCCATTCTTTTCAGGATTTGTCACC
258 GTCTCTTGAAA-AAGACAAACATGAATAGTCATACTAATCCCCAATCTTTTCAGGATTAGGCACC
* * * *
356025 GTAAACTTATTCTTCTCAAAAGAATACACGATATTGATGCATTGGT-TTCGCAAGAAAGGCTTTC
322 ATAAACATAATCTTCTCAAAAGAATACACGATATCGATGC-TTGGTCTTCGCAAGAAAGGCTTTC
* * ** * * * *
356089 TTCCCACCAATTTTTGTGAAGCCTAAGTTCATGCATCAATTGTGACAAATATGGATTCTAGTAAT
386 TTCCCACCAAATTTGGAAAAGCCTAAGCTCATGCATCAAATGAGACAAACATGGATTCTAGTAAT
* * *
356154 GATCTTCTTTCACTTTGTGATTAGGC
451 AATATTCATTCACTTTGTGATTAGGC
* * * * *
356180 ACTATAAACACATTCTTCTCATTGGGATAAAT-GACATTGATCATTTTCTTTTGCATGGAAATCT
1 ACTATAAACACATTCTCCTCATTAGGATAAATGGA-ATTGATGATTTTCTTTTGCACGAAAATCT
* * *
356244 TTT-TTTGCTCTATTTTCCTTAAAATCAAAGTTCATTCCGTAAATA
65 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATA
356289 TGAGAAGCAT
Statistics
Matches: 501, Mismatches: 74, Indels: 19
0.84 0.12 0.03
Matches are distributed among these distances:
474 21 0.04
475 404 0.81
476 76 0.15
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (476 bp):
ACTATAAACACATTCTCCTCATTAGGATAAATGGAATTGATGATTTTCTTTTGCACGAAAATCTT
TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAACATCGATTCTCGT
AACAGTCTACATTCTTTTCAAGACTGGGAACCAAAAACACATTCTCTTCCTTAGGATACATGACA
TTGATGCTTTGGTGTCGCAAGAAAAAAATTTCTTTCCATTGTTTTTGATAAAATAAAAGTTTGTC
TCTTGAAAAAGACAAACATGAATAGTCATACTAATCCCCAATCTTTTCAGGATTAGGCACCATAA
ACATAATCTTCTCAAAAGAATACACGATATCGATGCTTGGTCTTCGCAAGAAAGGCTTTCTTCCC
ACCAAATTTGGAAAAGCCTAAGCTCATGCATCAAATGAGACAAACATGGATTCTAGTAATAATAT
TCATTCACTTTGTGATTAGGC
Found at i:357378 original size:476 final size:473
Alignment explanation
Indices: 356333--358405 Score: 2178
Period size: 476 Copynumber: 4.4 Consensus size: 473
356323 CTTTTCTTTT
* * *
356333 CTTTTCTTTCCAAT-GTTTTTGATCGAATCAAAGTTTGTCTCTTAAATAAGACGAACAAGAATAG
1 CTTTTCTTTCC-ATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAG
* * * * *
356397 TCATACTAATCCCCATTCTTTTCAGGATTTGGCATCATATACATAGTCTTCTCATAAGGATACAC
65 TCATACTAATCCCCATTCTTTT-AGGATTAGGCACCATAAACATTGTCTTCTCATAAGGATACAT
* * * * * * *
356462 GATATTAACACTTTAGTTTCACAAGAAAGGCTTTCTTCCCACCAATTCTTGAAAAGTCTAAGTTC
129 GATATTGATACTTTAGTTTCACAAGAAAGGCTTTCTTCTCACTAATTTTTGTAAAGTCTAAGTTT
* * * *
356527 CTACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACCA
194 GTACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTATGATTAGGCACTA
* * * * *
356592 TAAACACATTCCCCTCCTTAGGATAACTGGA-ATTGATG-TTTTTTTTTAATGGAAATCTTTTCT
259 TAAACACATTCTCCTCATTAGGATAACT-GATATCGATGATTTTCTTTTCATGGAAATCTTTTCT
** * * * * * * **
356655 TTGCCTTATTTTCCTTAAAATCAAAGTTCATCCCGTAAATAAGGCAAGCATTAATTCTCATAACA
323 TTGCCCCATTTTCCATAAAATAAAAATTCATCCCTTAAATATGACAAGCATCGATTCTCATAACA
* * *
356720 GTCTCTAATCTTTTCAAGATTGGGAACCAAAAACACATTC-CATTCATTAGGATAA-AAGACATT
388 GTCTCT-ATCTTTTCAAGATTAGGAACCAAGAACACATTCTC-TTCATTAGGA-AACATGACATT
* *
356783 GATGCTTCGGTGTCGCAACAAAAG
450 GATGCTTTGGTGTCGCAAGAAAAG
** * ** * * *
356807 CTTTTCCATCCATCATTTTCAATAGAATCGAAGTTTGTCTCCTAAATAAGGA-AAACATCAATAG
1 CTTTTCTTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAA-GACAAACATGAATAG
* ** * * *
356871 TCAAACTAATCCTTATTCTTTTCTGGATTAGGCACCATAAACATAGTCTTCTCATAAGCATACAT
65 TCATACTAATCCCCATTCTTTT-AGGATTAGGCACCATAAACATTGTCTTCTCATAAGGATACAT
* * * * * * *
356936 GATATTGATGCTTTGGTTACATAAGAAAGGATTTCTTCCTC-CTAATTTTTCTAAAGTCTAACTT
129 GATATTGATACTTTAGTTTCACAAGAAAGGCTTTCTT-CTCACTAATTTTTGTAAAGTCTAAGTT
* * * * * * * *
357000 TGTGCCTCAATTGTGATAAACATGGATTCTAGTAATGATCTTCATTCACTCTATGGTTAGGGATT
193 TGTACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTATGATTAGGCACT
* ** * *
357065 GTAAACACATTCTCCTTTTTAAGATATA-TGATATCGATG-TTTCTTTTTTCCATGGAAAT-TTG
258 ATAAACACATTCTCCTCATTAGGATA-ACTGATATCGATGATTT-TCTTTT-CATGGAAATCTT-
* * * *
357127 TTCTTTACCCCATTTTCCATAAAATAAAAATTCATCCCTTAAATGTGACAAGCGTCGATTCTCGT
319 TTCTTTGCCCCATTTTCCATAAAATAAAAATTCATCCCTTAAATATGACAAGCATCGATTCTCAT
* * * * *
357192 AACTGTCTCTATTCTCTTCAAGATTGGGAACCAAGAACCCATTCTCTTTATTAGGAAACATGACA
384 AACAGTCTCTA-TCTTTTCAAGATTAGGAACCAAGAACACATTCTCTTCATTAGGAAACATGACA
* *
357257 TTGATGCTTTGGTGTCACAAGAAAGG
448 TTGATGCTTTGGTGTCGCAAGAAAAG
* *
357283 CTTTTTTTTCCATCGTTTTTGATAGAATCAATGTTTGTCTCTTAAATAAGACAAACATGAATAGT
1 CTTTTCTTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGT
** * * * * * * *
357348 TGTACTAGTCCCCACTCTTTTGAAGATTAGGCATCATAATCATTGTCTTCTTATAAGGATATATG
66 CATACTAATCCCCATTCTTTT-AGGATTAGGCACCATAAACATTGTCTTCTCATAAGGATACATG
** * ** *
357413 ATATTGATGTTTTAGTTTCTCAAGAAAGGCTTTCTTCT-TGTCAATTTTTGTAAAGTCTTAGTTT
130 ATATTGATACTTTAGTTTCACAAGAAAGGCTTTCTTCTCACT-AATTTTTGTAAAGTCTAAGTTT
** * * * *
357477 GTGGCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTGTGTTTAGGCACTA
194 GTACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTATGATTAGGCACTA
* * * **
357542 TAAACACTTTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTACATAAAAATCTTTTCT
259 TAAACACATTCTCCTCATTAGGATAACTGATATCGATGATTTTCTTTT-CATGGAAATCTTTTCT
** * * ** * * ** * *
357607 TTGCCCTTTTTTCCTTAAAACAAAAAAACATCTCTTAGATATGACAATAATCGATTCCCGTAACA
323 TTGCCCCATTTTCCATAAAATAAAAATTCATCCCTTAAATATGACAAGCATCGATTCTCATAACA
* * * * * * *
357672 GTCTCCACTCTTTTCAAGATTAGGAACAAAGAACACATTCTCTTCATTAAGATACCTTACATTAA
388 GTCTCTA-TCTTTTCAAGATTAGGAACCAAGAACACATTCTCTTCATTAGGAAACATGACATTGA
*
357737 AGCTTTGGTGTCGCAAGAAAAG
452 TGCTTTGGTGTCGCAAGAAAAG
* * *
357759 CTTTTCTTTGCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACAAGAATAGC
1 CTTTTCTTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGT
* * * * * ***
357824 CATGCTAATCCCCACTCTTTTCAGCATTAGGCACCATGAATATTGTCTTCTCATAAGGATACCCA
66 CATACTAATCCCCATTCTTTT-AGGATTAGGCACCATAAACATTGTCTTCTCATAAGGATACATG
* * * * *
357889 ATATTGATACTTTGGTTTCGCAAGAAAGGTTTTCTTCTCACTAATTTTTGTAAAGTCTATGTTTT
130 ATATTGATACTTTAGTTTCACAAGAAAGGCTTTCTTCTCACTAATTTTTGTAAAGTCTAAGTTTG
* * * * *
357954 TACGTTAATTGAGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTATGATTAAGCGCTAT
195 TACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTATGATTAGGCACTAT
* * *
358019 AAACACATTCTCCTTATTAGGATAAGTGATA-CTTATGATTTTCTTTTGCATGGAAATCTTTTCT
260 AAACACATTCTCCTCATTAGGATAACTGATATC-GATGATTTTCTTTT-CATGGAAATCTTTTCT
358083 TTGCCCC-TTTCTCCATAAAATAAAAATTCATCCCTTAAATATGACAAGCATCGATTCTCATAAC
323 TTGCCCCATTT-TCCATAAAATAAAAATTCATCCCTTAAATATGACAAGCATCGATTCTCATAAC
* * * * * *
358147 AGTCCCTATCATTTTCAAGATTAGGAACCAAGAAAACATTTTCTTTATTAGGATACATGACAATG
387 AGTCTCTATC-TTTTCAAGATTAGGAACCAAGAACACATTCTCTTCATTAGGAAACATGACATTG
* *
358212 ATGCTTTGGTGTTGCAATAAAAG
451 ATGCTTTGGTGTCGCAAGAAAAG
* * * * *
358235 CTTTTATTTCCACCATTTTTGATAGAAATTAAAGTTTGTCTCTTAAATAATACAAACAT-AAGTA
1 CTTTTCTTTCCATCGTTTTTGATAG-AATCAAAGTTTGTCTCTTAAATAAGACAAACATGAA-TA
* * * *
358299 CTCAAACTAATCCGCATTCTTTCTAGGATTAGGCACCATAAACATTGTCTACTCATAAGGATACA
64 GTCATACTAATCCCCATTCTTT-TAGGATTAGGCACCATAAACATTGTCTTCTCATAAGGATACA
* * * * * ***
358364 T-AAATTAACAGTTTGGTTTCGTGAGAAAGGCTTTCTTCTCAC
128 TGATATTGATACTTTAGTTTCACAAGAAAGGCTTTCTTCTCAC
358406 CAAACATGGA
Statistics
Matches: 1310, Mismatches: 265, Indels: 46
0.81 0.16 0.03
Matches are distributed among these distances:
473 4 0.00
474 234 0.18
475 27 0.02
476 953 0.73
477 91 0.07
478 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (473 bp):
CTTTTCTTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGT
CATACTAATCCCCATTCTTTTAGGATTAGGCACCATAAACATTGTCTTCTCATAAGGATACATGA
TATTGATACTTTAGTTTCACAAGAAAGGCTTTCTTCTCACTAATTTTTGTAAAGTCTAAGTTTGT
ACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTATGATTAGGCACTATA
AACACATTCTCCTCATTAGGATAACTGATATCGATGATTTTCTTTTCATGGAAATCTTTTCTTTG
CCCCATTTTCCATAAAATAAAAATTCATCCCTTAAATATGACAAGCATCGATTCTCATAACAGTC
TCTATCTTTTCAAGATTAGGAACCAAGAACACATTCTCTTCATTAGGAAACATGACATTGATGCT
TTGGTGTCGCAAGAAAAG
Found at i:358194 original size:952 final size:950
Alignment explanation
Indices: 356333--358876 Score: 2433
Period size: 952 Copynumber: 2.7 Consensus size: 950
356323 CTTTTCTTTT
* * * *
356333 CTTTTCTTTCCAAT-GTTTTTGATCGAATCAAAGTTTGTCTCTTAAATAAGACGAACAAGAATAG
1 CTTTTATTTCC-ATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAG
* * *
356397 TCATACTAATCCCCATTCTTTTCAGGATTTGGCATCATATACATAGTCTTCTCATAAGGATACAC
65 TCATACTAATCCCCACTCTTTTCAAGATTAGGCATCATATACATAGTCTTCTCATAAGGATACAC
356462 GATATTAACACTTTAGTTTCACAAGAAAGGCTTTCTTCCCACCAATTCTTGAAAAGTCTAAGTTC
130 GATATTAACACTTTAGTTTCACAAGAAAGGCTTTCTTCCCACCAATTCTTGAAAAGTCTAAGTTC
356527 CTACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACCA
195 CTACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACCA
* * * **
356592 TAAACACATTCCCCTCCTTAGGATAACTGGAATTGATGTTTTTTTTTAATGGAAATCTTTTCTTT
260 TAAACACATTCCCCTCATTAGGATAAATGGAATTGATGTTTTCTTTTAATAAAAATCTTTTCTTT
*** * * * *
356657 GCCTTATTTTCCTTAAAATCAAAGTTCATCCCGTAAATAAGGCAAGCATTAATTCTCATAACAGT
325 GCCTTATTTTCCTTAAAATCAAAAAACATCCCGTAAATAAGACAAGAATCAATTCCCATAACAGT
* * * * *
356722 CTCTAATCTTTTCAAGATTGGGAACCAAAAACACATTCCATTCATTAGGATAAAAGACATTGATG
390 CTCCAATCTTTTCAAGATTAGGAACCAAAAACACATTCCATTCATTAAGATAAAAGACATTAAAG
*
356787 CTTCGGTGTCGCAACAAAAGCTTTTCCATCCATCATTTTCAATAGAATCGAAGTTTGTCTCCTAA
455 CTTCGGTGTCGCAACAAAAGCTTTTCCATCCATCATTTTCAATAGAATCAAAGTTTGTCTCCTAA
* * ** * * *
356852 ATAAGGAAAACATCAATAGTCAAACTAATCCTTATTCTTTTCTGGATTAGGCACCATAAACATAG
520 ATAAGGAAAACAACAATAGCCAAACTAATCCCCACTCTTTTCAGCATTAGGCACCATAAACATAG
** * *
356917 TCTTCTCATAAGCATACATGATATTGATGCTTTGGTTACATAAGAAAGGATTTCTTCCTCCTAAT
585 TCTTCTCATAAGCATACACAATATTGATACTTTGGTTACACAAGAAAGGATTTCTTCCTCCTAAT
* * *
356982 TTTTCTAAAGTCTAACTTTGTGCCTCAATTGTGATAAACATGGATTCTAGTAATGATCTTCATTC
650 TTTTCTAAAGTCTAACTTTGTACCTCAATTGAGACAAACATGGATTCTAGTAATGATCTTCATTC
* * * * * *
357047 ACTCTATGGTTAGGGATTGTAAACACATTCTCCTTTTTAAGATATATGATATCGATGTTTCTTTT
715 ACTCTATGATTAGCGACTATAAACACATTCTCCTTATTAAGATATATGATATCGATGTTTCTCTT
*
357112 TTCCATGGAAATTTGTTCTTTACCCCATTTTCCATAAAATAAAAATTCATCCCTTAAATGTGACA
780 TTCCATGGAAATTTGTTCTTTACCCCATTTTCCATAAAATAAAAATTCATCCCTTAAATATGACA
* * * * * **
357177 AGCGTCGATTCTCGTAACTGTCTCTATTCTCTTCAAGATTGGGAACCAAGAACCCATTCTCTTTA
845 AGCATCGATTCTCATAACAGTCCCTATTCTCTTCAAGATTAGGAACCAAGAAAACATTCTCTTTA
* *
357242 TTAGGAAACATGACATTGATGCTTTGGTGTCACAAGAAAGG
910 TTAGGAAACATGACAATGATGCTTTGGTGTCACAAGAAAAG
* *
357283 CTTTTTTTTCCATCGTTTTTGATAGAATCAATGTTTGTCTCTTAAATAAGACAAACATGAATAGT
1 CTTTTATTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGT
** * * * * * *
357348 TGTACTAGTCCCCACTCTTTTGAAGATTAGGCATCATA-ATCATTGTCTTCTTATAAGGATATAT
66 CATACTAATCCCCACTCTTTTCAAGATTAGGCATCATATA-CATAGTCTTCTCATAAGGATACAC
* *** * **** * * * *
357412 GATATTGATGTTTTAGTTTCTCAAGAAAGGCTTTCTTCTTGTCAATTTTTGTAAAGTCTTAGTTT
130 GATATTAACACTTTAGTTTCACAAGAAAGGCTTTCTTCCCACCAATTCTTGAAAAGTCTAAGTTC
* ** * * *
357477 GTGGCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTTTGTGTTTAGGCACTA
195 CTACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACCA
* *
357542 TAAACACTTTCTCCTCATTAGGATAAAT-GATATTGATGATTTTCTTTTACATAAAAATCTTTTC
260 TAAACACATTCCCCTCATTAGGATAAATGGA-ATTGATG-TTTTCTTTTA-ATAAAAATCTTTTC
* * * * * * *
357606 TTTGCCCTT-TTTTCCTTAAAA-CAAAAAAACATCTCTTAGATATGACAATAATCGATTCCCGTA
322 TTTG-CCTTATTTTCCTTAAAATC-AAAAAACATCCCGTAAATAAGACAAGAATCAATTCCCATA
* ****
357669 ACAGTCTCCACTCTTTTCAAGATTAGGAA-CAAAGAACACATTCTC-TTCATTAAGATACCTTAC
385 ACAGTCTCCAATCTTTTCAAGATTAGGAACCAAA-AACACATTC-CATTCATTAAGATAAAAGAC
* * ** * * **
357732 ATTAAAGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTGCATCGTTTTTGATAGAATCAAAGTTTGT
448 ATTAAAGCTTCGGTGTCGCAACAAAAGCTTTTCCATCCATCATTTTCAATAGAATCAAAGTTTGT
* * **
357797 CTCTTAAATAA-GACAAACAAGAATAGCCATGCTAATCCCCACTCTTTTCAGCATTAGGCACCAT
513 CTCCTAAATAAGGA-AAACAACAATAGCCAAACTAATCCCCACTCTTTTCAGCATTAGGCACCAT
* * * * * * * *
357861 GAATATTGTCTTCTCATAAGGATACCCAATATTGATACTTTGGTTTCGCAAGAAAGGTTTTCTT-
577 AAACATAGTCTTCTCATAAGCATACACAATATTGATACTTTGGTTACACAAGAAAGGATTTCTTC
* ** * * *
357925 CTCACTAATTTTTGTAAAGTCTATGTTTTTACGTTAATTGAGACAAACATGGATTCTAGTAATGA
642 CTC-CTAATTTTTCTAAAGTCTAACTTTGTACCTCAATTGAGACAAACATGGATTCTAGTAATGA
* *
357990 TCTTCATTCACTTTATGATTAAGCG-CTATAAACACATTCTCCTTATTAGGATA-AGTGATA-CT
706 TCTTCATTCACTCTATGATT-AGCGACTATAAACACATTCTCCTTATTAAGATATA-TGATATC-
* * *
358052 TATGATTT-TCTTTTGCATGGAAATCTT-TTCTTTGCCCC-TTTCTCCATAAAATAAAAATTCAT
768 GATG-TTTCTCTTTTCCATGGAAAT-TTGTTCTTTACCCCATTT-TCCATAAAATAAAAATTCAT
*
358114 CCCTTAAATATGACAAGCATCGATTCTCATAACAGTCCCTA-TCATTTTCAAGATTAGGAACCAA
830 CCCTTAAATATGACAAGCATCGATTCTCATAACAGTCCCTATTC-TCTTCAAGATTAGGAACCAA
* * ** *
358178 GAAAACATTTTCTTTATTAGGATACATGACAATGATGCTTTGGTGTTGCAATAAAAG
894 GAAAACATTCTCTTTATTAGGAAACATGACAATGATGCTTTGGTGTCACAAGAAAAG
* * * *
358235 CTTTTATTTCCACCATTTTTGATAGAAATTAAAGTTTGTCTCTTAAATAATACAAACAT-AAGTA
1 CTTTTATTTCCATCGTTTTTGATAG-AATCAAAGTTTGTCTCTTAAATAAGACAAACATGAA-TA
* * * * * * * * *
358299 CTCAAACTAATCCGCATTC-TTTCTAGGATTAGGCACCATAAACATTGTCTACTCATAAGGATAC
64 GTCATACTAATCCCCACTCTTTTC-AAGATTAGGCATCATATACATAGTCTTCTCATAAGGATAC
* * * * *
358363 A-TAAATT-A-AC---AGTTT---------GG-TTTCGT------GA-----G-AAAGGCT---T
128 ACGATATTAACACTTTAGTTTCACAAGAAAGGCTTTCTTCCCACCAATTCTTGAAAAGTCTAAGT
* * * *
358397 T-CT---TC---TCA-CCAAACATGGATTCTAGTAGTGATCTTCATTCATTTTGTGATTAGACAC
193 TCCTACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCAC
* * * *
358454 TATAAACATATTCTCCTCATTAGGATAAAT-GATATTGATGATTTTCTTTTACATCAAAATCTTT
258 CATAAACACATTCCCCTCATTAGGATAAATGGA-ATTGATG-TTTTCTTTTA-ATAAAAATCTTT
* ** * * * ** **
358518 TCTTTGCCCTATTTTCCTTAAAAT-AGAAATTCATCCCTTAAATAAGGCAAGCATTGATTCTTAT
320 TCTTTGCCTTATTTTCCTTAAAATCA-AAAAACATCCCGTAAATAAGACAAGAATCAATTCCCAT
* * * * * * ***
358582 AACAGTCTCCATTCTTTTCAAGTTTGGGAACCAAGAACAAATTCTC-TTCATTAGGATACTTGA-
384 AACAGTCTCCAATCTTTTCAAGATTAGGAACCAAAAACACATTC-CATTCATTAAGATAAAAGAC
* * * * *** ** * *
358645 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTTTTTCCATTGTTTTTAATGGAATCAAAGTTTGT
448 ATTAAAGCTTCGGTGTCGCAACAAAAGCTTTTCCATCCATCATTTTCAATAGAATCAAAGTTTGT
* * *** ** * ** * * * *
358710 CTCTTAAATAAGGTAAACATGTATAGTTATACTAATCCATATTTTTTTCAAG-ATTAGAACACTA
513 CTCCTAAATAAGGAAAACAACAATAGCCAAACTAATCCCCACTCTTTTC-AGCATTAG-GCACCA
* * * ** * * *
358774 TAAACTTATTCTTCTCATAAGGATACATGATATTGATGCTTTGGTTTCACAAGAAAGGCTTTCTT
576 TAAACATAGTCTTCTCATAAGCATACACAATATTGATACTTTGGTTACACAAGAAAGGATTTCTT
* * * *
358839 CC-CACCAATTTTTGTAATGTCTAAGTTTGTACCTCAAT
641 CCTC-CTAATTTTTCTAAAGTCTAACTTTGTACCTCAAT
358877 AGGGGTAGCT
Statistics
Matches: 1337, Mismatches: 227, Indels: 96
0.81 0.14 0.06
Matches are distributed among these distances:
913 104 0.08
914 291 0.22
915 6 0.00
918 2 0.00
921 1 0.00
922 2 0.00
925 6 0.00
926 1 0.00
931 1 0.00
937 5 0.00
938 2 0.00
947 5 0.00
949 5 0.00
950 250 0.19
951 27 0.02
952 537 0.40
953 91 0.07
954 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (950 bp):
CTTTTATTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGT
CATACTAATCCCCACTCTTTTCAAGATTAGGCATCATATACATAGTCTTCTCATAAGGATACACG
ATATTAACACTTTAGTTTCACAAGAAAGGCTTTCTTCCCACCAATTCTTGAAAAGTCTAAGTTCC
TACCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACCAT
AAACACATTCCCCTCATTAGGATAAATGGAATTGATGTTTTCTTTTAATAAAAATCTTTTCTTTG
CCTTATTTTCCTTAAAATCAAAAAACATCCCGTAAATAAGACAAGAATCAATTCCCATAACAGTC
TCCAATCTTTTCAAGATTAGGAACCAAAAACACATTCCATTCATTAAGATAAAAGACATTAAAGC
TTCGGTGTCGCAACAAAAGCTTTTCCATCCATCATTTTCAATAGAATCAAAGTTTGTCTCCTAAA
TAAGGAAAACAACAATAGCCAAACTAATCCCCACTCTTTTCAGCATTAGGCACCATAAACATAGT
CTTCTCATAAGCATACACAATATTGATACTTTGGTTACACAAGAAAGGATTTCTTCCTCCTAATT
TTTCTAAAGTCTAACTTTGTACCTCAATTGAGACAAACATGGATTCTAGTAATGATCTTCATTCA
CTCTATGATTAGCGACTATAAACACATTCTCCTTATTAAGATATATGATATCGATGTTTCTCTTT
TCCATGGAAATTTGTTCTTTACCCCATTTTCCATAAAATAAAAATTCATCCCTTAAATATGACAA
GCATCGATTCTCATAACAGTCCCTATTCTCTTCAAGATTAGGAACCAAGAAAACATTCTCTTTAT
TAGGAAACATGACAATGATGCTTTGGTGTCACAAGAAAAG
Found at i:358819 original size:438 final size:438
Alignment explanation
Indices: 357968--358846 Score: 1080
Period size: 438 Copynumber: 2.0 Consensus size: 438
357958 TTAATTGAGA
*
357968 CAAACATGGATTCTAGTAATGATCTTCATTCACTTTATGATTAAGCGCTATAAACACATTCTCCT
1 CAAACATGGATTCTAGTAATGATCTTCATTCACTTTATGATTAAGCACTATAAACACATTCTCCT
* * * **
358033 TATTAGGATAAGTGATACTTATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCCTTTCTCCA
66 CATTAGGATAAATGATACTTATGATTTTCTTTTACATCAAAATCTTTTCTTTGCCCCTTTCTCCA
*
358098 TAAAATAAAAATTCATCCCTTAAATATGACAAGCATCGATTCTCATAACAGTCCCTATCATTTTC
131 TAAAATAAAAATTCATCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCCCTATCATTTTC
* * *
358163 AAGATTAGGAACCAAGAAAACATTTTCTTTATTAGGATACATGACAATGATGCTTTGGTGTTGCA
196 AAGATTAGGAACCAAGAAAACATTCTCTTCATTAGGATACATGACAATGATGCTTTGGTGTCGCA
* * * *
358228 ATAAAAGCTTTTATTTCCACCATTTTTGATAGAAATTAAAGTTTGTCTCTTAAATAATACAAACA
261 AGAAAAGCTTTTATTTCCACCATTTTTAATAGAAATCAAAGTTTGTCTCTTAAATAAGACAAACA
* * *
358293 TAAGTACTCAAACTAATCCGCATTCTTTCTAGGATTAGGCACCATAAACATTGTCTACTCATAAG
326 TAAGTACTCAAACTAATCCACATTCTTTCTAAGATTAGACACCATAAACATTGTCTACTCATAAG
*** *
358358 GATACATAAATTAACAGTTTGGTTTCGTGAGAAAGGCTTTCTTCTCAC
391 GATACATAAATTAACAGTTTGGTTTCACAAGAAAGGCTTTCTTCCCAC
* * * *
358406 CAAACATGGATTCTAGTAGTGATCTTCATTCATTTTGTGATT-AGACACTATAAACATATTCTCC
1 CAAACATGGATTCTAGTAATGATCTTCATTCACTTTATGATTAAG-CACTATAAACACATTCTCC
*
358470 TCATTAGGATAAATGATA-TTGATGATTTTCTTTTACATCAAAATCTTTTCTTTG-CCCTATTTT
65 TCATTAGGATAAATGATACTT-ATGATTTTCTTTTACATCAAAATCTTTTCTTTGCCCCT-TTCT
* * * * *
358533 CCTTAAAATAGAAATTCATCCCTTAAATAAGGCAAGCATTGATTCTTATAACAGTCTCC-ATTC-
128 CCATAAAATAAAAATTCATCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTC-CCTA-TCA
* * * *
358596 TTTTCAAGTTTGGGAACCAAGAACAA-ATTCTCTTCATTAGGATACTTGA-ATTGATGCTTTGGT
191 TTTTCAAGATTAGGAACCAAGAA-AACATTCTCTTCATTAGGATACATGACAATGATGCTTTGGT
* *** * *
358659 GTCGCAAGAAAAGCTTTTTTTTCCATTGTTTTTAAT-GGAATCAAAGTTTGTCTCTTAAATAAGG
255 GTCGCAAGAAAAGCTTTTATTTCCACCATTTTTAATAGAAATCAAAGTTTGTCTCTTAAATAAGA
* * * * * * * * *
358723 TAAACATGTA-TAGTTATACTAATCCATATT-TTTTTCAAGATTAGAACACTATAAAC-TTATTC
320 CAAACAT-AAGTACTCAAACTAATCCACATTCTTTCT-AAGATTAG-ACACCATAAACATT-GTC
* * * *
358785 TTCTCATAAGGATACATGATATTGA-TGCTTTGGTTTCACAAGAAAGGCTTTCTTCCCAC
381 TACTCATAAGGATACAT-AAATTAACAG-TTTGGTTTCACAAGAAAGGCTTTCTTCCCAC
358844 CAA
1 CAA
358847 TTTTTGTAAT
Statistics
Matches: 375, Mismatches: 54, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
435 4 0.01
436 54 0.14
437 79 0.21
438 232 0.62
439 6 0.02
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (438 bp):
CAAACATGGATTCTAGTAATGATCTTCATTCACTTTATGATTAAGCACTATAAACACATTCTCCT
CATTAGGATAAATGATACTTATGATTTTCTTTTACATCAAAATCTTTTCTTTGCCCCTTTCTCCA
TAAAATAAAAATTCATCCCTTAAATAAGACAAGCATCGATTCTCATAACAGTCCCTATCATTTTC
AAGATTAGGAACCAAGAAAACATTCTCTTCATTAGGATACATGACAATGATGCTTTGGTGTCGCA
AGAAAAGCTTTTATTTCCACCATTTTTAATAGAAATCAAAGTTTGTCTCTTAAATAAGACAAACA
TAAGTACTCAAACTAATCCACATTCTTTCTAAGATTAGACACCATAAACATTGTCTACTCATAAG
GATACATAAATTAACAGTTTGGTTTCACAAGAAAGGCTTTCTTCCCAC
Found at i:359811 original size:12 final size:13
Alignment explanation
Indices: 359740--359827 Score: 56
Period size: 14 Copynumber: 6.6 Consensus size: 13
359730 CAATTCTCCA
359740 TTTGTCAAGAAATC
1 TTTGTCAAGAAA-C
*
359754 ATTGTCAAGAAA-
1 TTTGTCAAGAAAC
*
359766 TTATCCTCAA-AAAC
1 TT-T-GTCAAGAAAC
* **
359780 TTTTGTCGAGAATG
1 -TTTGTCAAGAAAC
359794 TTTGTCAA-AAAC
1 TTTGTCAAGAAAC
*
359806 TTTGTCAAGAAAT
1 TTTGTCAAGAAAC
359819 TTTCGTCAA
1 TTT-GTCAA
359828 TACAACCCTT
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
12 11 0.20
13 20 0.36
14 23 0.41
15 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (13 bp):
TTTGTCAAGAAAC
Found at i:359826 original size:26 final size:27
Alignment explanation
Indices: 359755--359827 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 27
359745 CAAGAAATCA
* *
359755 TTGTCAAGAAATTATCCTCAAAAACTT
1 TTGTCAAGAAATTTTCGTCAAAAACTT
*
359782 TTGTCGAG-AATGTTT-GTCAAAAAC-T
1 TTGTCAAGAAAT-TTTCGTCAAAAACTT
359807 TTGTCAAGAAATTTTCGTCAA
1 TTGTCAAGAAATTTTCGTCAA
359828 TACAACCCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 11 0.28
26 19 0.49
27 9 0.23
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (27 bp):
TTGTCAAGAAATTTTCGTCAAAAACTT
Found at i:359888 original size:28 final size:28
Alignment explanation
Indices: 359832--360655 Score: 434
Period size: 28 Copynumber: 28.6 Consensus size: 28
359822 CGTCAATACA
**
359832 ACCCTTTTCAAAGCCCACGAA-TCTCTGGC
1 ACCC-TTTCAAAGCCCAC-AAGTCAGTGGC
* *
359861 ACCCTTTCAAAGCCCAGAAGTCAATGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* * * *
359889 ATCTTTTCAAAGCTCACAAGTCAATGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* * *
359917 ATCCTTCACAAAGCCC-CGAAGTGAGTGGC
1 ACCCTT-TCAAAGCCCAC-AAGTCAGTGGC
* * * *
359946 ATCATTTCAAAGCCCACATGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
** * *
359974 ATTCTTTCAAAGCCAATAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* *
360002 ACCCTTTCAAAGCCCACATGTCAATGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* * * *
360030 AACTTTTCAAAACCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* ** *
360058 ATCCTTCTCAAAGCCCTTAAGTCAATGGC
1 ACCCTT-TCAAAGCCCACAAGTCAGTGGC
* *
360087 ATCCTTCTCAAAGCCCATAAGTCAGTGGC
1 ACCCTT-TCAAAGCCCACAAGTCAGTGGC
* * * *
360116 ATCCTTTTTAAAGACCACAAGTCAATGGC
1 A-CCCTTTCAAAGCCCACAAGTCAGTGGC
* *
360145 ATCCTTTGCAAAGCCCACAAGTCAGTTGC
1 ACCCTTT-CAAAGCCCACAAGTCAGTGGC
*
360174 ATCCTTTCAAAGCCCACACAAGTC-GATGGC
1 ACCCTTTCAAAG-CC-CACAAGTCAG-TGGC
* *
360204 AACCTCTCTCAAAGCCCATAAGTCAGTGGC
1 -ACC-CTTTCAAAGCCCACAAGTCAGTGGC
*
360234 ACCCTTT-AAAGCCCACATAAGTCGGTGGC
1 ACCCTTTCAAAGCCCAC--AAGTCAGTGGC
* * * *
360263 AACCTCTCTCAATGCCCATAAGTTAGTGCGC
1 -ACC-CTTTCAAAGCCCACAAGTCAGTG-GC
** * *
360294 ACCCTTTCAAAGCTTACAAGCCTA-TGAC
1 ACCCTTTCAAAGCCCACAAGTC-AGTGGC
*
360322 ACCCTTTCAAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* ** ** **
360350 GCCCTTTTGAAGAACACAAGTTTGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
** * *
360378 ACCCTTTTTAAGCCCACAAATAAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* * * *
360406 ATCCTTTTAAAGCCCATAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* * * *
360434 AACCATTCTGAAGCCCACACAAGTTAGTGGC
1 ACCCTTTC-AAAG-CC-CACAAGTCAGTGGC
* * **
360465 AGCCTTCTCAAAAGCCCTCATAAGTTGGTGGC
1 ACCCTT-TC-AAAG-CC-CACAAGTCAGTGGC
* *
360497 AACCC-TTCTAAA-CCCA-ATG-CTGCTGG-
1 -ACCCTTTC-AAAGCCCACAAGTCAG-TGGC
* *
360523 --CC-TTGAATCAGCACCTATCTAAGTTAGTGGC
1 ACCCTTTCAA--AGC-CC-A-C-AAGTCAGTGGC
* * *
360554 ACCCTTTCGAAGCTCACAAGTCAGTAGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* * *
360582 ACCTTTTCGAAGCCCACAAATCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
* ** *
360610 ATCCTTTTGAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGC
*
360638 AACC-TTCTAAAGCCCACA
1 ACCCTTTC-AAAGCCCACA
360656 CAAGTTGGTG
Statistics
Matches: 618, Mismatches: 136, Indels: 83
0.74 0.16 0.10
Matches are distributed among these distances:
22 2 0.00
23 4 0.01
24 1 0.00
25 1 0.00
26 3 0.00
27 19 0.03
28 310 0.50
29 150 0.24
30 47 0.08
31 34 0.06
32 39 0.06
33 5 0.01
34 3 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
ACCCTTTCAAAGCCCACAAGTCAGTGGC
Found at i:359938 original size:29 final size:28
Alignment explanation
Indices: 359857--360306 Score: 258
Period size: 29 Copynumber: 15.6 Consensus size: 28
359847 CACGAATCTC
* * *
359857 TGGCACCCTT-TCAAAGCCCAGAAGTCAA
1 TGGCATCCTTCTCAAAGCCC-CAAGTCAG
* * *
359885 TGGCAT-CTTTTCAAAGCTCACAAGTCAA
1 TGGCATCCTTCTCAAAGC-CCCAAGTCAG
* *
359913 TGGCATCCTTCACAAAGCCCCGAAGTGAG
1 TGGCATCCTTCTCAAAGCCCC-AAGTCAG
* * *
359942 TGGCATCATT-TCAAAGCCCACATGTTAG
1 TGGCATCCTTCTCAAAGCCC-CAAGTCAG
* **
359970 TGGCATTCTT-TCAAAGCCAATAAGTCAG
1 TGGCATCCTTCTCAAAGCC-CCAAGTCAG
* * *
359998 TGGCACCCTT-TCAAAGCCCACATGTCAA
1 TGGCATCCTTCTCAAAGCCC-CAAGTCAG
* * * *
360026 TGGCA-ACTTTTCAAAACCCACAAGTTAG
1 TGGCATCCTTCTCAAAGCCC-CAAGTCAG
* *
360054 TGGCATCCTTCTCAAAGCCCTTAAGTCAA
1 TGGCATCCTTCTCAAAGCCC-CAAGTCAG
*
360083 TGGCATCCTTCTCAAAGCCCATAAGTCAG
1 TGGCATCCTTCTCAAAGCCC-CAAGTCAG
* * * *
360112 TGGCATCCTTTTTAAAGACCACAAGTCAA
1 TGGCATCCTTCTCAAAG-CCCCAAGTCAG
360141 TGGCATCCTT-TGCAAAGCCCACAAGTCAG
1 TGGCATCCTTCT-CAAAGCCC-CAAGTCAG
*
360170 TTGCATCCTT-TCAAAGCCCACACAAGTC-G
1 TGGCATCCTTCTCAAAG-CC-C-CAAGTCAG
* *
360199 ATGGCAACCTCTCTCAAAGCCCATAAGTCAG
1 -TGGCATCCT-TCTCAAAGCCC-CAAGTCAG
* *
360230 TGGCACCCTT-T-AAAGCCCACATAAGTCGG
1 TGGCATCCTTCTCAAAGCCC-C--AAGTCAG
* * * *
360259 TGGCAACCTCTCTCAATGCCCATAAGTTAG
1 TGGCATCCT-TCTCAAAGCCC-CAAGTCAG
*
360289 TGCGCACCCTT-TCAAAGC
1 TG-GCATCCTTCTCAAAGC
360307 TTACAAGCCT
Statistics
Matches: 338, Mismatches: 60, Indels: 47
0.76 0.13 0.11
Matches are distributed among these distances:
27 14 0.04
28 115 0.34
29 144 0.43
30 41 0.12
31 11 0.03
32 13 0.04
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
TGGCATCCTTCTCAAAGCCCCAAGTCAG
Found at i:360138 original size:58 final size:58
Alignment explanation
Indices: 359834--360349 Score: 437
Period size: 57 Copynumber: 9.0 Consensus size: 58
359824 TCAATACAAC
** * * *
359834 CCTTTTCAAAGCCCACGAA-TCTCTGGCACCCTT-TCAAAGCCCAGAAGTCAATGGCAT
1 CCTTTTCAAAGCCCAC-AAGTCAATGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCAT
* * ** *
359891 -CTTTTCAAAGCTCACAAGTCAATGGCATCCTTCACAAAGCCCCGAAGTGAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCAT
* * * * * *
359948 -CATTTCAAAGCCCACATGTTAGTGGCATTCTT-TCAAAGCCAATAAGTCAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCAT
* * * * * * *
360003 CCCTTTCAAAGCCCACATGTCAATGGCA-ACTTTTCAAAACCCACAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCAT
* **
360060 CCTTCTCAAAGCCCTTAAGTCAATGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCAT
* * * *
360118 CCTTTTTAAAGACCACAAGTCAATGGCATCCTT-TGCAAAGCCCACAAGTCAGTTGCAT
1 CCTTTTCAAAGCCCACAAGTCAATGGCATCCTTCT-CAAAGCCCATAAGTCAGTGGCAT
* *
360176 CC-TTTCAAAGCCCACACAAGTCGATGGCAACCTCTCTCAAAGCCCATAAGTCAGTGGCA-
1 CCTTTTCAAAG-CC-CACAAGTCAATGGCATCCT-TCTCAAAGCCCATAAGTCAGTGGCAT
* ** * * *
360235 CCCTTT-AAAGCCCACATAAGTCGGTGGCAACCTCTCTCAATGCCCATAAGTTAGTGCGCA-
1 CCTTTTCAAAGCCCAC--AAGTCAATGGCATCCT-TCTCAAAGCCCATAAGTCAGTG-GCAT
* ** * * * * * *
360295 CCCTTTCAAAGCTTACAAGCCTATGACACCCTT-TCAAAGCCCACAAGTTAGTGGC
1 CCTTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCATAAGTCAGTGGC
360350 GCCCTTTTGA
Statistics
Matches: 381, Mismatches: 62, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
55 5 0.01
56 88 0.23
57 98 0.26
58 79 0.21
59 70 0.18
60 33 0.09
61 8 0.02
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (58 bp):
CCTTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCAT
Found at i:360489 original size:204 final size:200
Alignment explanation
Indices: 360214--360707 Score: 492
Period size: 204 Copynumber: 2.4 Consensus size: 200
360204 AACCTCTCTC
* * * * *
360214 AAAGCCCATAAGTCAGTGGCACCCTT-TAAAGCCCACATAAGTCGGTGGCAACCTCTCTCAATG-
1 AAAGCCCATAAGTTAGTGGCAACCTTCTAAAGCCCACACAAGTTGGTGGCAACCT-TCTCAAAGC
360277 CCCATAAGTTAGTGCGC-ACCCTT-TCAAAGCTTACAA-GCCTATGAC-ACCCTTTCAA-AGC-C
65 CCCATAAGTTAGTG-GCAACCCTTCT-AAA-C--ACAATG-C--TG-CTACCC-TTCAACAGCAC
* * ** * *
360336 C-A-C-AAGTTAGTGGCGCCCTTTTGAAGAACACAAGTTTGTGGCACCCTTTT-TAAGCCCACAA
120 CTATCTAAGTTAGTGGCACCCTTTCGAAGAACACAAGTCAGTAGCA-CCTTTTCGAAGCCCACAA
360397 ATAAGTGGCATCCTTTT
184 ATAAGTGGCATCCTTTT
* * *
360414 AAAGCCCATAAGTTAGTGGCAACCATTCTGAAGCCCACACAAGTTAGTGGCAGCCTTCTCAAAAG
1 AAAGCCCATAAGTTAGTGGCAACC-TTCTAAAGCCCACACAAGTTGGTGGCAACCTTCTC-AAAG
* * ** *
360479 CCCTCATAAGTTGGTGGCAACCCTTCTAAACCCAATGCTGCTGGCCTTGAATCAGCACCTATCTA
64 CCC-CATAAGTTAGTGGCAACCCTTCTAAACACAATGCTGCTACCCTTCAA-CAGCACCTATCTA
** *
360544 AGTTAGTGGCACCCTTTCGAAGCTCACAAGTCAGTAGCACCTTTTCGAAGCCCACAAATCAGTGG
127 AGTTAGTGGCACCCTTTCGAAGAACACAAGTCAGTAGCACCTTTTCGAAGCCCACAAATAAGTGG
360609 CATCCTTTT
192 CATCCTTTT
* *
360618 GAAGCCCACAAGTTAGTGGCAACCTTCTAAAGCCCACACAAGTTGGTGGCAACCTTCTCTAAAGC
1 AAAGCCCATAAGTTAGTGGCAACCTTCTAAAGCCCACACAAGTTGGTGGCAACCTTCTC-AAAGC
* * *
360683 GCACACAAGTTGGTGGCAA-CCTTCT
65 -CCCATAAGTTAGTGGCAACCCTTCT
360708 TTAAAGCGCA
Statistics
Matches: 247, Mismatches: 30, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
198 5 0.02
199 4 0.02
200 25 0.10
201 12 0.05
202 34 0.14
203 64 0.26
204 102 0.41
205 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (200 bp):
AAAGCCCATAAGTTAGTGGCAACCTTCTAAAGCCCACACAAGTTGGTGGCAACCTTCTCAAAGCC
CCATAAGTTAGTGGCAACCCTTCTAAACACAATGCTGCTACCCTTCAACAGCACCTATCTAAGTT
AGTGGCACCCTTTCGAAGAACACAAGTCAGTAGCACCTTTTCGAAGCCCACAAATAAGTGGCATC
CTTTT
Found at i:360490 original size:32 final size:31
Alignment explanation
Indices: 360387--360747 Score: 107
Period size: 32 Copynumber: 12.2 Consensus size: 31
360377 CACCCTTTTT
* * *
360387 AAGCCCACA-AA-TAAGTGGCATCC-TTTTA
1 AAGCCCACATAAGTTAGTGGCAACCATTCTA
*
360415 AAG-CC-CATAAGTTAGTGGCAACCATTCTG
1 AAGCCCACATAAGTTAGTGGCAACCATTCTA
* *
360444 AAGCCCACACAAGTTAGTGGCAGCC-TTCTCAA
1 AAGCCCACATAAGTTAGTGGCAACCATTCT--A
* * *
360476 AAGCCCTCATAAGTTGGTGGCAACCCTTCTA
1 AAGCCCACATAAGTTAGTGGCAACCATTCTA
* *
360507 AA-CCCA-AT--GCT-GCTGG---CC-TT-GA
1 AAGCCCACATAAGTTAG-TGGCAACCATTCTA
* * *
360529 ATCAGCACCTATC-TAAGTTAGTGGCACCCTTTC-G
1 A--AGC-CC-A-CATAAGTTAGTGGCAACCATTCTA
* * * * *
360563 AAGCTCAC--AAGTCAGTAGC-ACC-TTTTCG
1 AAGCCCACATAAGTTAGTGGCAACCATTCT-A
* * * *
360591 AAGCCCACA-AA-TCAGTGGCATCC-TTTTG
1 AAGCCCACATAAGTTAGTGGCAACCATTCTA
360619 AAGCCCAC--AAGTTAGTGGCAACC-TTCTA
1 AAGCCCACATAAGTTAGTGGCAACCATTCTA
* * *
360647 AAGCCCACACAAGTTGGTGGCAACCTTCTCTA
1 AAGCCCACATAAGTTAGTGGCAACCAT-TCTA
* * *
360679 AAGCGCACACAAGTTGGTGGCAACC-TTCTTTA
1 AAGCCCACATAAGTTAGTGGCAACCATTC--TA
* * * *
360711 AAGCGCACACAAGTTGGTGGCAACCCTTCTA
1 AAGCCCACATAAGTTAGTGGCAACCATTCTA
360742 AA-CCCA
1 AAGCCCA
360748 ATGTCATTGG
Statistics
Matches: 266, Mismatches: 31, Indels: 70
0.72 0.08 0.19
Matches are distributed among these distances:
22 2 0.01
23 2 0.01
24 3 0.01
25 1 0.00
26 7 0.03
27 14 0.05
28 68 0.26
29 17 0.06
30 34 0.13
31 27 0.10
32 79 0.30
33 9 0.03
34 3 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (31 bp):
AAGCCCACATAAGTTAGTGGCAACCATTCTA
Found at i:360660 original size:30 final size:30
Alignment explanation
Indices: 360624--360747 Score: 169
Period size: 32 Copynumber: 4.0 Consensus size: 30
360614 TTTTGAAGCC
*
360624 CACAAGTTAGTGGCAACCTTCTAAAGCCCA
1 CACAAGTTGGTGGCAACCTTCTAAAGCCCA
*
360654 CACAAGTTGGTGGCAACCTTCTCTAAAGCGCA
1 CACAAGTTGGTGGCAACC-T-TCTAAAGCCCA
*
360686 CACAAGTTGGTGGCAACCTTCTTTAAAGCGCA
1 CACAAGTTGGTGGCAACCTTC--TAAAGCCCA
360718 CACAAGTTGGTGGCAACCCTTCTAAA-CCCA
1 CACAAGTTGGTGGCAA-CCTTCTAAAGCCCA
360748 ATGTCATTGG
Statistics
Matches: 86, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
30 22 0.26
31 6 0.07
32 53 0.62
33 5 0.06
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (30 bp):
CACAAGTTGGTGGCAACCTTCTAAAGCCCA
Found at i:361871 original size:25 final size:27
Alignment explanation
Indices: 361837--361889 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
361827 ATTATCGTCC
*
361837 AAAACTTTTGTCGAG-AATGTTTGTCA
1 AAAACTTTTGTCAAGAAATGTTTGTCA
*
361863 AAAAC-TTTGTCAAGAAATTTTTGTCA
1 AAAACTTTTGTCAAGAAATGTTTGTCA
361889 A
1 A
361890 TACGATCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (27 bp):
AAAACTTTTGTCAAGAAATGTTTGTCA
Found at i:361887 original size:14 final size:14
Alignment explanation
Indices: 361802--361889 Score: 58
Period size: 13 Copynumber: 6.6 Consensus size: 14
361792 CAATTCGGCA
*
361802 TTTGTCAAGAAATG
1 TTTGTCAAGAAATT
* *
361816 GTTGTTAAGAAATT
1 TTTGTCAAGAAATT
* * * *
361830 ATCGTCCA-AAACT
1 TTTGTCAAGAAATT
* *
361843 TTTGTCGAG-AATG
1 TTTGTCAAGAAATT
*
361856 TTTGTCAA-AAA-C
1 TTTGTCAAGAAATT
361868 TTTGTCAAGAAATT
1 TTTGTCAAGAAATT
361882 TTTGTCAA
1 TTTGTCAA
361890 TACGATCTTT
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
12 8 0.15
13 23 0.43
14 23 0.43
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (14 bp):
TTTGTCAAGAAATT
Found at i:361933 original size:28 final size:28
Alignment explanation
Indices: 361899--362503 Score: 318
Period size: 28 Copynumber: 21.5 Consensus size: 28
361889 ATACGATCTT
*
361899 TTTCAAAGCTCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * **
361927 TTTCAAAACTCAGAAGTCAGTGGCATTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
361955 TTTCAAAGCCCACAAGTTAGTAGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
* *
361984 TTTCAAAGCCCACAAGTCAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
362012 TTTGAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * * *
362040 TTTTAAAGCCCAAAAGTTAGTGGTATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
362068 TTTCAAAGCCCAC--GT--GT-----CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
362087 TTTTAAAGCCTACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
362115 TTTCAAAGCCCACATGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * ***
362143 TTTCAAAGCCCATAAGTTAGTGGCAATT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
362171 TTTCAAAGCCCACAAGTCAATGGCATCCA
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
* * ***
362200 TTTCAAAGCCCAAAAGTCA-TCAGCATTT
1 TTTCAAAGCCCACAAGTCAGT-GGCACCC
* *
362228 TTCTCAAAGCCCATACAAGTCGGTGGCAACATC
1 TT-TCAAAGCCC--ACAAGTCAGTGGC-AC-CC
* * * *
362261 TATCAAAACCCATAAGTCAATGGCACCAC
1 TTTCAAAGCCCACAAGTCAGTGGCACC-C
** *
362290 -TT-AAAGCCCACACAAGTCCTTGGTAACCTC
1 TTTCAAAG-CC-CACAAGTCAGTGG-CACC-C
* * *
362320 TCTCAAAGCCCATAAGTCAGTAGGCTCCC
1 TTTCAAAGCCCACAAGTCAGT-GGCACCC
* ** * *
362349 TTTCAAAGCCTATGAGCCTGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
362377 TTTCAAAGACCACAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * **
362405 TTTCGAAGCTCACAAGTTAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
** * * *
362433 TTTTGAAGCCCACAAATCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
362461 TTTTAAAGCCCACATGACAGTGGCAACCC
1 TTTCAAAGCCCACAAGTCAGTGGC-ACCC
362490 -TTCTAAAGCCCACA
1 TTTC-AAAGCCCACA
362504 CAAGTTGGTG
Statistics
Matches: 445, Mismatches: 105, Indels: 53
0.74 0.17 0.09
Matches are distributed among these distances:
19 13 0.03
21 2 0.00
23 2 0.00
24 2 0.00
26 2 0.00
27 3 0.01
28 272 0.61
29 96 0.22
30 24 0.05
31 13 0.03
32 14 0.03
33 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:361985 original size:56 final size:56
Alignment explanation
Indices: 361898--362503 Score: 373
Period size: 56 Copynumber: 10.8 Consensus size: 56
361888 AATACGATCT
* * * * * *
361898 TTTTCAAAGCTCACAAGTCAGTGGCACCCTTTCAAAACTCAGAAGTCAGTGGCAT-
1 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC
*
361953 TCTTTCAAAGCCCACAAGTTAGTAGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATC
1 T-TTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATC
* * * * * *
362011 ATTTGAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCAAAAGTTAGTGGTATC
1 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC
* *
362067 TTTTCAAAGCCCAC--G-T-GT--C-T--TTTTAAAGCCTACAAGTCAGTGGCATC
1 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
362114 TTTTCAAAGCCCACATGTTAGTGGCATCCTTTCAAAGCCCATAAGTTAGTGGCAAT-
1 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-ATC
* * * * *
362170 TTTTCAAAGCCCACAAGTCAATGGCATCCATTTCAAAGCCCAAAAGTCA-TCAGCATT
1 TTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGT-GGCATC
** * * * * * *
362227 TTTCTCAAAGCCCATACAAGTCGGTGGCAACATCTATCAAAACCCATAAGTCAATGGCACC
1 TTT-TCAAAGCCC--ACAAGTTAGTGGCATC--CTTTCAAAGCCCACAAGTCAGTGGCATC
** *** * * *
362288 ACTT-AAAGCCCACACAAGTCCTTGGTAACCTCTCTCAAAGCCCATAAGTCAGTAGGC-TCC
1 TTTTCAAAG-CC-CACAAGTTAGTGGCATCCT-T-TCAAAGCCCACAAGTCAGT-GGCAT-C
* * ** * * * * *
362348 CTTTCAAAGCCTATGAGCCT-GTGGCACCCTTTCAAAGACCACAAGTTAGTGGCACC
1 TTTTCAAAGCCCACAAG-TTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC
* * * ** * *
362404 TTTTCGAAGCTCACAAGTTAGTGGCA-CTTTTTTGAAGCCCACAAATCAATGGCATCC
1 TTTTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCAT-C
* ** * *
362461 TTTT-AAAGCCCACATGACAGTGGCAACCCTTCTAAAGCCCACA
1 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTC-AAAGCCCACA
362504 CAAGTTGGTG
Statistics
Matches: 429, Mismatches: 86, Indels: 70
0.73 0.15 0.12
Matches are distributed among these distances:
47 37 0.09
49 2 0.00
50 2 0.00
51 2 0.00
52 2 0.00
53 2 0.00
54 2 0.00
55 3 0.01
56 166 0.39
57 106 0.25
58 10 0.02
59 44 0.10
60 24 0.06
61 25 0.06
62 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (56 bp):
TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC
Found at i:362147 original size:75 final size:75
Alignment explanation
Indices: 362016--362216 Score: 215
Period size: 75 Copynumber: 2.5 Consensus size: 75
362006 GCATCATTTG
* * *
362016 AAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCAAAAGTTAGTGGTATCTTTTCAAAGCCCAC
1 AAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCAAAAGTTAGTGGCATCCTTTCAAAGCCCAC
362081 GTGTCTTTTT
66 GTGTCTTTTT
* * *
362091 AAAGCCTACAAGTCAGTGGCAT-CTTTTCAAAGCCCACATGTTAGTGGCATCCTTTCAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCATCCTTTT-AAAGCCCAAAAGTTAGTGGCATCCTTTCAAAGCCC-
*
362155 TAAGTTAGTGGCAATTTTT
64 -ACG-T-GT--C--TTTTT
* *
362174 CAAAGCCCACAAGTCAATGGCATCCATTTCAAAGCCCAAAAGT
1 -AAAGCCCACAAGTCAGTGGCATCC-TTTTAAAGCCCAAAAGT
362217 CATCAGCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
74 5 0.05
75 51 0.50
77 2 0.02
78 1 0.01
79 2 0.02
81 1 0.01
83 5 0.05
84 20 0.20
85 12 0.12
86 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (75 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCAAAAGTTAGTGGCATCCTTTCAAAGCCCAC
GTGTCTTTTT
Found at i:362161 original size:103 final size:103
Alignment explanation
Indices: 361982--362183 Score: 316
Period size: 103 Copynumber: 2.0 Consensus size: 103
361972 TAGTAGCATC
* *
361982 CTTTTCAAAGCCCACAAGTCAGTGGCATCATTTGAAAGCCCACAAGTTAGTGGCATCCTTTTAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA
*
362047 GCCCAAAAGTTAGTGG-TATCTTTTCAAAGCCCACGTGT
66 GCCCAAAAGTTAGTGGCAAT-TTTTCAAAGCCCACGTGT
* * * *
362085 CTTTTTAAAGCCTACAAGTCAGTGGCATCTTTTCAAAGCCCACATGTTAGTGGCATCCTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA
*
362150 GCCCATAAGTTAGTGGCAATTTTTCAAAGCCCAC
66 GCCCAAAAGTTAGTGGCAATTTTTCAAAGCCCAC
362184 AAGTCAATGG
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 88 0.98
104 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (103 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA
GCCCAAAAGTTAGTGGCAATTTTTCAAAGCCCACGTGT
Found at i:362529 original size:31 final size:31
Alignment explanation
Indices: 362480--362562 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
362470 CCACATGACA
*
362480 GTGGCAACCCTTCTAAAGCCCACACAAGTTG
1 GTGGTAACCCTTCTAAAGCCCACACAAGTTG
* *
362511 GT-GTAACCTTCTCTAAAGCCCACATAAGTTG
1 GTGGTAACCCT-TCTAAAGCCCACACAAGTTG
362542 GTGGTAACCCTTCTAAA-CCCA
1 GTGGTAACCCTTCTAAAGCCCA
362563 ATGTCACTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 10 0.22
31 29 0.63
32 7 0.15
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (31 bp):
GTGGTAACCCTTCTAAAGCCCACACAAGTTG
Found at i:363912 original size:26 final size:27
Alignment explanation
Indices: 363839--363912 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 27
363829 CAAGAAATGG
* *
363839 TTGTCAAGAAAATATCGTCAAAAACTTT
1 TTGTCAAGAAATTTTCGTCAAAAAC-TT
*
363867 TTGTCGAG-AATGTTT-GTCAAAAAC-T
1 TTGTCAAGAAAT-TTTCGTCAAAAACTT
*
363892 TTGTCAAGAAATTTTCATCAA
1 TTGTCAAGAAATTTTCGTCAA
363913 TACGACCCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
25 11 0.29
26 7 0.18
27 11 0.29
28 9 0.24
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (27 bp):
TTGTCAAGAAATTTTCGTCAAAAACTT
Found at i:363958 original size:28 final size:28
Alignment explanation
Indices: 363917--364310 Score: 296
Period size: 28 Copynumber: 13.6 Consensus size: 28
363907 CATCAATACG
363917 ACCCTTTTCAAAGCCCACAAGTTAGTGGC
1 ACCC-TTTCAAAGCCCACAAGTTAGTGGC
* *
363946 ACCCTTTCAAAGCTCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* * *
363974 ATCCTTTCAAAGCCCATAAGTTAGTGAC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* * * * *
364002 ATCCTTCTTAAAGCTCACAAGTCAGTTGC
1 ACCCTT-TCAAAGCCCACAAGTTAGTGGC
* ** * *
364031 ATCCTCCCAAAGCCCACACAAGTCAATGGC
1 ACCCTTTCAAAG-CC-CACAAGTTAGTGGC
*
364061 AACCTCTCTT-AAAGCCCACAAGTCAGTGGC
1 -ACC-CT-TTCAAAGCCCACAAGTTAGTGGC
* ** *
364091 A--CTTCTTAAAGCCCACAAAAATAGGTGCC
1 ACCCTT-TCAAAGCCCAC-AAGTTA-GTGGC
* * *
364120 AACTTTCTCAAAGCCCATAAGTTAGTGGC
1 ACCCTT-TCAAAGCCCACAAGTTAGTGGC
364149 ACCCTTTCAAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
*
364177 -CCTCTCTCAAAGCCCACAAGATT-GTGGC
1 ACC-CTTTCAAAGCCCACAAG-TTAGTGGC
** * *
364205 ACCCTTTTGAAGCCCACAAATCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
* *
364233 ATCCTTTTAAAGCCCACAAGTTAGTGGC
1 ACCCTTTCAAAGCCCACAAGTTAGTGGC
*
364261 AACCCTTTTAAAGCCCACACAAGTTA-TGGC
1 -ACCCTTTCAAAG-CC-CACAAGTTAGTGGC
*
364291 AACCTTCTCTAAAGCCCACA
1 ACCCTT-TC-AAAGCCCACA
364311 TAAGTTGGTG
Statistics
Matches: 295, Mismatches: 49, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.00
26 3 0.01
27 12 0.04
28 142 0.48
29 64 0.22
30 38 0.13
31 29 0.10
32 6 0.02
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.23
Consensus pattern (28 bp):
ACCCTTTCAAAGCCCACAAGTTAGTGGC
Found at i:365849 original size:28 final size:28
Alignment explanation
Indices: 365690--366220 Score: 343
Period size: 28 Copynumber: 18.8 Consensus size: 28
365680 ATACGACCCT
* *
365690 TTTCAAAGCCCACAAGTTAGTGGAAACC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
365718 -TTCTAAAGCTCACAAGTTAGTGTCATCC
1 TTTC-AAAGCCCACAAGTTAGTGGCATCC
365746 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
365774 TTCTCAAAGCCCACAAGTTAGTGGCATCC
1 TT-TCAAAGCCCACAAGTTAGTGGCATCC
* * *
365803 TTTCGAAGCCCACATGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
365831 TTTCAATGCCCAC-A---AGT--CA--G
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* * *
365851 TTT-AAAGCCTATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* * *
365878 TTTTTAAAGCCCATAAGTTAGTGACATCC
1 -TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
365907 TTCTCAAAGCCCACAAGTTAGAGGCATTCT
1 TT-TCAAAGCCCACAAGTTAGTGGCA-TCC
* * *
365937 TTTGAAAGCCCACACAAGTCAGTTGCATCC
1 TTTCAAAG-CC-CACAAGTTAGTGGCATCC
* ** *
365967 TTTCAAAGCCCGCAAAAGTCGGTGGCAACC
1 TTTCAAAG-CC-CACAAGTTAGTGGCATCC
* *
365997 TCTCTCAAAGCCCACTAGTTAGTGGCACCC
1 T-T-TCAAAGCCCACAAGTTAGTGGCATCC
* ** * *
366027 CTT-AAAGCCCACACAAGTCGGTGGTAACC
1 TTTCAAAG-CC-CACAAGTTAGTGGCATCC
** * ** *
366056 TCTCTCAAAGCCTGCAAGTCAGTATTCACCC
1 T-T-TCAAAGCCCACAAGTTAGT-GGCATCC
* * *
366087 TTTCAAAGCCCACAAGTCAATAGCA-CC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* * *
366114 CTTCTGAAGCCTC-CAAGTTAGTGGCACCC
1 TTTC-AAAGCC-CACAAGTTAGTGGCATCC
* * * *
366143 TTTCGAAGCCCACAGGTTATTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* * * *
366171 TTTCGAAGCCCACAAATCAGTGGCATCA
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
366199 TTT-AAAGCCCACAAGTTAGTGG
1 TTTCAAAGCCCACAAGTTAGTGG
366221 TAACCCTTCT
Statistics
Matches: 397, Mismatches: 77, Indels: 59
0.74 0.14 0.11
Matches are distributed among these distances:
19 6 0.02
20 4 0.01
22 2 0.01
23 3 0.01
24 3 0.01
25 2 0.01
27 29 0.07
28 148 0.37
29 112 0.28
30 56 0.14
31 22 0.06
32 10 0.03
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTTAGTGGCATCC
Found at i:365977 original size:30 final size:28
Alignment explanation
Indices: 365854--366220 Score: 193
Period size: 29 Copynumber: 12.7 Consensus size: 28
365844 AAGTCAGTTT
* * *
365854 AAAGCCTATAAGTCAGTGGCATCCTTTTT
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
* * *
365883 AAAGCCCATAAGTTAGTGACATCCTTCTC
1 AAAGCCCACAAGTCAGTGGCATCCTT-TC
* * * *
365912 AAAGCCCACAAGTTAGAGGCATTCTTTTG
1 AAAGCCCACAAGTCAGTGGCA-TCCTTTC
*
365941 AAAGCCCACACAAGTCAGTTGCATCCTTTC
1 AAAG-CC-CACAAGTCAGTGGCATCCTTTC
* * *
365971 AAAGCCCGCAAAAGTCGGTGGCAACCTCTCTC
1 AAAG-CC-CACAAGTCAGTGGCATCCT-T-TC
* * * *
366003 AAAGCCCACTAGTTAGTGGCACCCCTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
366030 AAAGCCCACACAAGTCGGTGGTAACCTCTCTC
1 AAAG-CC-CACAAGTCAGTGGCATCCT-T-TC
** ** *
366062 AAAGCCTGCAAGTCAGTATTCACCCTTTC
1 AAAGCCCACAAGTCAGT-GGCATCCTTTC
* * *
366091 AAAGCCCACAAGTCAATAGCA-CCCTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
366118 TGAAGCCTC-CAAGTTAGTGGCACCCTTTC
1 -AAAGCC-CACAAGTCAGTGGCATCCTTTC
* * * * *
366147 GAAGCCCACAGGTTATTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
366175 GAAGCCCACAAATCAGTGGCATCATTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
366202 AAAGCCCACAAGTTAGTGG
1 AAAGCCCACAAGTCAGTGG
366221 TAACCCTTCT
Statistics
Matches: 262, Mismatches: 60, Indels: 34
0.74 0.17 0.10
Matches are distributed among these distances:
27 26 0.10
28 67 0.26
29 81 0.31
30 56 0.21
31 22 0.08
32 10 0.04
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:366007 original size:32 final size:32
Alignment explanation
Indices: 365969--366072 Score: 92
Period size: 32 Copynumber: 3.4 Consensus size: 32
365959 TTGCATCCTT
365969 TCAAAGCCCGCAAAAGTCGGTGGCAACCTCTC
1 TCAAAGCCCGCAAAAGTCGGTGGCAACCTCTC
** **
366001 TCAAAG-CC-CACTAGTTAGTGGC-ACC-C-C
1 TCAAAGCCCGCAAAAGTCGGTGGCAACCTCTC
* * * *
366028 TTAAAGCCCACACAAGTCGGTGGTAACCTCTC
1 TCAAAGCCCGCAAAAGTCGGTGGCAACCTCTC
*
366060 TCAAAGCCTGCAA
1 TCAAAGCCCGCAA
366073 GTCAGTATTC
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
27 6 0.11
28 3 0.06
29 13 0.24
30 13 0.24
31 3 0.06
32 16 0.30
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (32 bp):
TCAAAGCCCGCAAAAGTCGGTGGCAACCTCTC
Found at i:366104 original size:59 final size:60
Alignment explanation
Indices: 365949--366100 Score: 189
Period size: 59 Copynumber: 2.5 Consensus size: 60
365939 TGAAAGCCCA
* * *
365949 CACAAGTCAGTTGCATCCTTTCAAAGCCCGCAAAAGTCGGTGGCAACCTCTCTCAAAGCC
1 CACAAGTCAGTTGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACCTCTCTCAAAGCC
* * * * *
366009 CACTAGTTAGTGGCACCCCTT-AAAGCCCACACAAGTCGGTGGTAACCTCTCTCAAAGCC
1 CACAAGTCAGTTGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACCTCTCTCAAAGCC
** *
366068 TGCAAGTCAGTATTCACCCTTTCAAAGCCCACA
1 CACAAGTCAGT-TGCACCCTTTCAAAGCCCACA
366101 AGTCAATAGC
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
59 42 0.56
60 23 0.31
61 10 0.13
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (60 bp):
CACAAGTCAGTTGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACCTCTCTCAAAGCC
Found at i:366279 original size:32 final size:32
Alignment explanation
Indices: 366201--366293 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 32
366191 TGGCATCATT
* * *
366201 TAAAG-CC-CACAAGTTAGTGGTAACCCT-TC
1 TAAAGCCCACACAAGTTGGTGGCAACCTTCTC
*
366230 TATAGCCCACACAAGTTGGTGGCAACCTTCTC
1 TAAAGCCCACACAAGTTGGTGGCAACCTTCTC
* *
366262 TAAAGCTCACATAAGTTGGTGGCAAGCCTTCT
1 TAAAGCCCACACAAGTTGGTGGCAA-CCTTCT
366294 GAAACCAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 4 0.08
30 2 0.04
31 17 0.32
32 24 0.45
33 6 0.11
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (32 bp):
TAAAGCCCACACAAGTTGGTGGCAACCTTCTC
Found at i:367056 original size:30 final size:31
Alignment explanation
Indices: 367013--367088 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
367003 TAAATAGTAC
*
367013 ATGTTTCGATACATTCT-ATTTTTTACCCAG
1 ATGTATCGATACATTCTGATTTTTTACCCAG
* * *
367043 ATGTATTGATACATTCTGTTTTTTTACCTAG
1 ATGTATCGATACATTCTGATTTTTTACCCAG
367074 ATGTATCGATACATT
1 ATGTATCGATACATT
367089 TTTCAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 15 0.38
31 25 0.62
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (31 bp):
ATGTATCGATACATTCTGATTTTTTACCCAG
Found at i:367106 original size:20 final size:20
Alignment explanation
Indices: 367074--367139 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
367064 TTTTACCTAG
*
367074 ATGTATCGATACATTTTTCA
1 ATGTATAGATACATTTTTCA
* * * * *
367094 ATTTATTGATACATGTATGA
1 ATGTATAGATACATTTTTCA
*
367114 ATGTGTAGATACATTTTTCA
1 ATGTATAGATACATTTTTCA
367134 ATGTAT
1 ATGTAT
367140 CGATCATCTA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (20 bp):
ATGTATAGATACATTTTTCA
Found at i:368062 original size:20 final size:20
Alignment explanation
Indices: 368024--368062 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
368014 TAGCCTCTGA
*
368024 TCATGCTTTTTTACTATGTT
1 TCATGCTTTTTAACTATGTT
368044 TCATGCATTTTTAAC-ATGT
1 TCATGC-TTTTTAACTATGT
368063 CTAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (20 bp):
TCATGCTTTTTAACTATGTT
Found at i:372433 original size:476 final size:475
Alignment explanation
Indices: 370313--375020 Score: 4891
Period size: 476 Copynumber: 9.9 Consensus size: 475
370303 ATTGCAATAA
*
370313 GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTGGGCACTATAAACACATTC-C
1 GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCTC
* * *
370377 CTTCAATAGGATAAAAGATATTGATGATTTTTTTTTTGCAT-GAAGATCTTTT-TTTGGCCTATT
66 C-TCATTAGGATAAATGATATTGATGA-TTTTCTTTTGCATGGAA-ATCTTTTCTTT-GCCTATT
** * * * * * *
370440 TTCCTTCGAATAAAAATTCATCCCATAAATATGATAAAAAATGATTCTCATAACAGTCTCCATTC
127 TTCCTTAAAATTAAAATTCATCCCTTAAATAAGACAAGAAATGATTCTCGTAACAGTCTCCATTC
* * *
370505 TTTTCAAGATTGGGAACCAAGAACATATT-CTCTTCATTAGGATACATGACACTGATGCTTTGGT
192 TTTTCAAGATTGGGAACCAAAAACACATTCCT-TTCATTAGGATACATGACATTGATGCTTTGGT
* * * * *
370569 GTCGCAAGAAAAGCTATTCTTTCCATCATTTTTTGATAGAATCAAAG-TTGTCTTTTAAATAAGA
256 GTCACAAGAAAAGCTTTTCTTTCAATC-GTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGA
*
370633 CAAACATGAATAGTCATACTAA-CACCCATTCTTTTCAGGATTAGGCACCATAAA-TATAGTCTT
320 CAAACATGAATAGTCATACTAATC-CCCATTCTTTTCAAGATTAGGCACCATAAACT-TAGTCTT
* ** * *** *
370696 CTTATAA-GACTACATGATATTGATGCTTTGGTTTCACAACTTAGGCTTTTCTCCCACCAATTTT
383 CTCATAAGGA-TACACAATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCCTCCCACCAATTTT
*
370760 TGTAAAGTCTAAGTTCAAGCCTCAATTGT
447 TGTAAAGTCTAAGTTCATGCCTCAATTGT
* * *
370789 GACAAACATGGATTCTAGTAACGATCTTCATTCACTTTGTGATTAGGCACTAAAAACACATTCTT
1 GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCTC
* * **
370854 CTCAATCGGATAAATGATATTGACAATTTTCCTTTTGCATGGAAATCTTTTCTTTGCTCTATTTT
66 CTCATTAGGATAAATGATATTGATGATTTT-CTTTTGCATGGAAATCTTTTCTTTGC-CTATTTT
* * * * * *
370919 CCTTAAAATTAAAATTCA-CCCATTAAATAAGGCAAGCACTGATTCTCGTCATAGTCTCCACTCT
129 CCTTAAAATTAAAATTCATCCC-TTAAATAAGACAAGAAATGATTCTCGTAACAGTCTCCATTCT
* * * *
370983 TTTCATA-ATTAGGAACCAAAAACAAATTCCATTCATTAGGATACATGACATTGACGCTTTGGTG
193 TTTCA-AGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGATGCTTTGGTG
* * * *
371047 TCACAAGAAAAGCATTTCTTTCAACCGTTTTTGATAGAATCAAAGTTTGTCTCTAAAATAACACA
257 TCACAAGAAAAGCTTTTCTTTCAATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACA
** * * * *
371112 AACATGAATAGTCATACTAATCCTTATTCTTTTTCAGGATTAGGCACTATAAAGTTAGTCCTCTC
322 AACATGAATAGTCATACTAATCCCCATTC-TTTTCAAGATTAGGCACCATAAACTTAGTCTTCTC
** * * * * * **
371177 ATAAGGATACATGATATTGAAGCTTTGGTTTCCCAAGAAATGCTTTCATCCTATTAATTTTTGTA
386 ATAAGGATACACAATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCCTCCCACCAATTTTTGTA
* ** *
371242 AAGACTAAGCCCGTGCCTCAATTGT
451 AAGTCTAAGTTCATGCCTCAATTGT
*
371267 GACAAACATGGA-TCTAGTAATGATCTTCATTCACTTTGTGATTGGGCACTATAAACACATTCTC
1 GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCTC
* *
371331 CTCATTAGGATAAAAGATATTGATGATTTTCTTTTGCATGGAAAACTTTTCTTTGCCCTATTTTC
66 CTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTG-CCTATTTTC
* * * * *
371396 CTTCAAATT-AAATTCAGCCCTTAAATATGACAAGAAATGATCCTCGTAACAGTCTCTATTCTTT
130 CTTAAAATTAAAATTCATCCCTTAAATAAGACAAGAAATGATTCTCGTAACAGTCTCCATTCTTT
* * * * *
371460 TCAAGATTGGGAACCAAGAACATATT-CTCTTCATTAGGATACATTACCTTGATTCTTTGGTGTC
195 TCAAGATTGGGAACCAAAAACACATTCCT-TTCATTAGGATACATGACATTGATGCTTTGGTGTC
* * ** *
371524 ACAAGAAAAGCTTTTATTTCCATTATTTTTTATAGAATCAAAGTTTGTCT-TTCAAATAAGACAA
259 ACAAGAAAAGCTTTTCTTTCAATCGTTTTTGATAGAATCAAAGTTTGTCTCTT-AAATAAGAC-A
** * * *
371588 AACAAAAATAGTAATACTAATCCCTATTCTTTTCAAGATTAGGCACCATAAACATAGTCTTCTCA
322 AACATGAATAGTCATACTAATCCCCATTCTTTTCAAGATTAGGCACCATAAACTTAGTCTTCTCA
* * * **
371653 TAAGAATACACGATATTGACGTTGATGCTTTGGTTTCGTAAGAAAGGTTTTTTTCCC-CCAAATT
387 TAAGGATACAC-A-A-T-A--TTGATGCTTTGGTTTCGCAAGAAAGGCTTTCCTCCCACC-AATT
** *
371717 TTTGTAAAGTCTTAAGTTTGTGCTTCAATTGT
445 TTTGTAAAGTC-TAAGTTCATGCCTCAATTGT
* * * * *
371749 GACAAACTTAGATTCTAGTAATGATCTTCATTCA-TGTTATGATTAGGCACTGTAAACACAATCT
1 GACAAACATGGATTCTAGTAATGATCTTCATTCACT-TTGTGATTAGGCACTATAAACACATTCT
* * *
371813 CCTCTTTAGGATAAATGATATTGATGATTTT-TTTTGCTTGGAAAACTTTTCTTTGCCCTATTTT
65 CCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTG-CCTATTTT
* * * * ** * ** * *
371877 CC-TATAAATAAAAATTTATCCCTCAAATATGACAAGAAACAATTCCCACAACAGCCGCCATTCT
129 CCTTA-AAATTAAAATTCATCCCTTAAATAAGACAAGAAATGATTCTCGTAACAGTCTCCATTCT
* * * * *
371941 TTACAAGATTGGGAACCAATAACACA-TCCTATTCATTATGATACATGACATTTATGCTTTGGAG
193 TTTCAAGATTGGGAACCAAAAACACATTCCT-TTCATTAGGATACATGACATTGATGCTTTGGTG
* *
372005 CCACAAGAAAAGCTTTTCTTTCCATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACA
257 TCACAAGAAAAGCTTTTCTTTCAATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACA
*
372070 AACATGAATAGTCATACTAATCCCCATTCTTTTCAAGATTATGCACCATAAACTTAGTCTTCTCA
322 AACATGAATAGTCATACTAATCCCCATTCTTTTCAAGATTAGGCACCATAAACTTAGTCTTCTCA
* ** * *
372135 TAAGGATACACAATGTTGATGCTTTGGTTTCATAAGAAAAGCTATCCTCCCACCAATTTTTGTAA
387 TAAGGATACACAATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCCTCCCACCAATTTTTGTAA
** *
372200 ACCCTAAGTTCATGCCTCAATTTT
452 AGTCTAAGTTCATGCCTCAATTGT
* * * * *
372224 GACAAACTTGGATTCTTGTAATGATCTTCATTCAGTTTGTAATTAGGCACTATAAATACATTCT-
1 GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCTC
* * * *
372288 CTACAATAAGATAAATGATATTAATGATTTTCTTTTGCATGGAAATCATTTCTTTGCCTTATTTT
66 CT-CATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCC-TATTTT
* * * * ** * *
372353 CCTTAAAGTTAAAGTTCATCCCTAAAATATGACAAGAAATGATTCTTATAACAGTCTCTATTCCT
129 CCTTAAAATTAAAATTCATCCCTTAAATAAGACAAGAAATGATTCTCGTAACAGTCTCCATTCTT
*
372418 TTCAAGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACAGTGATGCTTTGGTGTC
194 TTCAAGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTC
* * * * *
372483 GCAAGAAAAG-TATTTCTTTCAA-CAGTTTTTTATAGAATAAAAGTTTGTCTCTTAAATATGATA
259 ACAAGAAAAGCT-TTTCTTTCAATC-GTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACA
* * * *
372546 AACATGAATAGCCATTCTAATCCCCATTCTTTTC-AGCATTAAGCACCATAAACATAGTCTTCTC
322 AACATGAATAGTCATACTAATCCCCATTCTTTTCAAG-ATTAGGCACCATAAACTTAGTCTTCTC
* * * * * * *
372610 ATAAGGCTACACGATATTGACGCATTGGTTTCGTAAGTAAGGCTTTCCTGCCACCAATTTTTGTA
386 ATAAGGATACACAATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCCTCCCACCAATTTTTGTA
**
372675 AAGTCTAAGTTCATGCCTCAAAGGT
451 AAGTCTAAGTTCATGCCTCAATTGT
* * * * * ** *
372700 GATAAACATGGATTCCAGTAATGATATTCATTCAATTGGTGATTAGGTGCTATAAACACATTTTC
1 GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCTC
* * * * * ** *
372765 CTAATTAGGATAAATGATTTTGATGGTATTCTTTTACATAAAAATCTTTTCTTTACACTATTTTC
66 CTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGC-CTATTTTC
* * * * * * *
372830 CTTAAAATCAAAGTTCATCTCTTAAATAAGGCAAGCATTGATTCTTGTAACAGTCTCCATTCTTT
130 CTTAAAATTAAAATTCATCCCTTAAATAAGACAAGAAATGATTCTCGTAACAGTCTCCATTCTTT
*
372895 TCAAGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACCTGACATTGATGCTTTGGTGTCA
195 TCAAGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTCA
* * * *
372960 TAAGAACAG-TATTT-TTTCAACCGTTTTTGATAGAATCAAAGTTTATCTCTTAAATAAGACAAA
260 CAAGAAAAGCT-TTTCTTTCAATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAA
* * * **
373023 CATGAATAGCCATTCTAATCCCCATTCTTTTCAACATTAGGCACTGTAAACATT-GTCTTCTCAT
324 CATGAATAGTCATACTAATCCCCATTCTTTTCAAGATTAGGCACCATAAAC-TTAGTCTTCTCAT
* * *** *
373087 AAGGCTACACAATATTGATGCATTGGTTTCGCAAGTGTGGCTTTCCTCCCACCAATTCTTGTAAA
388 AAGGATACACAATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCCTCCCACCAATTTTTGTAAA
* **
373152 GTCTAAGTTCGTGCCTCAAAGGT
453 GTCTAAGTTCATGCCTCAATTGT
* * * *
373175 GACAAATATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTACGCACTATAAACACATTTTC
1 GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCTC
* * * *** * * *
373240 ATAATTAGGGTAAATGATATTGATGGCATTCTTTTACATGAAAATCTTTTCTTTG--TATTTTTC
66 CTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCTATTTTCC
* * * * * * * * **
373303 TTAAAATCAAAGTTCATCTCTTAAGTAAGGCAAGCATTGATTCTCGTAATAGTCTTTATTCTTTT
131 TTAAAATTAAAATTCATCCCTTAAATAAGACAAGAAATGATTCTCGTAACAGTCTCCATTCTTTT
* * * * * ** * *
373368 CAAGATTAGAAACCAAAAACAAATTCCTTTCATTAGGGTACATAACATTGACACTTTGTTGTCGC
196 CAAGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTCAC
* * * * * *
373433 AAGAAAAGCATTTCTTTCAATC-TTCCTCGATGGAATCAAAGTTTATCTCTTAAACAA-ATCAAA
261 AAGAAAAGCTTTTCTTTCAATCGTT-TTTGATAGAATCAAAGTTTGTCTCTTAAATAAGA-CAAA
* * * * *
373496 CATGAATAGTTATACT-AT-CCCATT-TTTTTATGGATTTGGCACCCT-AACTTAGTCTTCTCAT
324 CATGAATAGTCATACTAATCCCCATTCTTTTCA-AGATTAGGCACCATAAACTTAGTCTTCTCAT
* * * *
373557 AAGGATACACGATATTGATGCTTTGGTTTCGCAACAAAGGCTTTCTTCCCACCAATTTTTGAAAA
388 AAGGATACACAATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCCTCCCACCAATTTTTGTAAA
* * * * * *
373622 GTTTAAATTCCTACCTCAAATGA
453 GTCTAAGTTCATGCCTCAATTGT
* * * * * *
373645 GGCAAACATAGATTCTAGTAATGATC-TCTATTCATTTTGTGATTAAGCACTATAAATAGATTCT
1 GACAAACATGGATTCTAGTAATGATCTTC-ATTCACTTTGTGATTAGGCACTATAAACACATTCT
* * * *
373709 CCTTATTGGGATAAATGGA-ATTGATGATTTTCTTTTGCGTGGAAACCTTTTCTTTG-------T
65 CCTCATTAGGATAAAT-GATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCTATTTT
* * ** * * * *
373766 CC-T---A-T---GTTCATCCTTTAAATAAGGTAAGCATTGATTCTTGTAATAGTCTCCATTCTT
129 CCTTAAAATTAAAATTCATCCCTTAAATAAGACAAGAAATGATTCTCGTAACAGTCTCCATTCTT
* *** * *
373823 TTCAAGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTCACATTTTCGTGAC
194 TTCAAGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTC
* * * *
373888 GCAAGAAAAGCTTTCCTTTCAA-CTGTTTTTGATTA-AATTAAAGTTTGTCTATTAAATAAGACA
259 ACAAGAAAAGCTTTTCTTTCAATC-GTTTTTGA-TAGAATCAAAGTTTGTCTCTTAAATAAGACA
** * *
373951 AA-AAAAATAGTCATACTAATCCCCATTCTTTTCAAGATTAGGCACTATAAATTTAGTCATT-TC
322 AACATGAATAGTCATACTAATCCCCATTCTTTTCAAGATTAGGCACCATAAACTTAGTC-TTCTC
* ** * * * * *
374014 ATAAGGATACTCGTTATTGATTCTTTGGTTTCACAATAAAGGCTTTCCTCGCACCAATTTTTCTA
386 ATAAGGATACACAATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCCTCCCACCAATTTTTGTA
* *
374079 AAGTCTAAGTTCGTGCCTCAATTAT
451 AAGTCTAAGTTCATGCCTCAATTGT
* * * *
374104 TACAAACTTGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTACAAACATATTCTC
1 GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCTC
* * *
374169 TTTATTAGGATAAATGATATTGATGATTTTCTTTTGCATAAAAATCTTTTCTTTTGCATAAAAAT
66 CTCATTAGGATAAATGATATTGATGATTTTCTTTTGC------A----------TG----GAAAT
* * * *
374234 CTTTTCTTTGCCCTATTTTTCTTAAAATTAAATTTCATCCCTTAAATATGACAAGAAACGATTCT
111 CTTTTCTTTG-CCTATTTTCCTTAAAATTAAAATTCATCCCTTAAATAAGACAAGAAATGATTCT
* * * *
374299 TGTAACAGTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACTTTCATTTCATTAGGATACATG
175 CGTAACAGTCTCCATTCTTTTCAAGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATG
* * *
374364 ACATTGATGCTTTGG-GTCATAAGAAAAGCATTTT-TTTCAACCGTTTTTCATAGAATCAAAGTT
240 ACATTGATGCTTTGGTGTCACAAGAAAAGC-TTTTCTTTCAATCGTTTTTGATAGAATCAAAGTT
* * *
374427 TGTCTCTTAAATAAGACAAGCATGAATAGCCATTCTAATCCCCATTCTTTTC-AGCATTAGGCAC
304 TGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAAG-ATTAGGCAC
* * * **
374491 CGTAAACATT-GTCTTCTCATAAGGCTACACAATATTGATGCATTGGTTTCGCAA-ATGTGGCTT
368 CATAAAC-TTAGTCTTCTCATAAGGATACACAATATTGATGCTTTGGTTTCGCAAGA-AAGGCTT
* * * * **
374554 TCCTCCCACAAATTTTTATAAAGTCTAAGTTTATGCCTTAAAGGT
431 TCCTCCCACCAATTTTTGTAAAGTCTAAGTTCATGCCTCAATTGT
* ** * * *
374599 GACAAACATGGATTCTGGTAATGATCTTCATTCTTTTTCTGATTAGGCACTATAAACATATTTTC
1 GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCTC
* * * * * * *
374664 CTAATTAGGATAAATGATATTGATGGTATTCTTTTACTTGAAAATCTTTTCTTAGCCCTATTTTC
66 CTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTG-CCTATTTTC
* * * * * *
374729 CTTAAAATCAAAATTCATCTCTTAAATAAGGCAA-CATTGATTCTCGTAACAGTCTGCATTCTTT
130 CTTAAAATTAAAATTCATCCCTTAAATAAGACAAGAAATGATTCTCGTAACAGTCTCCATTCTTT
* ** * *
374793 TCAAGATTGGGAACCAAAAACAAATTCCTTTCATTAGGATACATGACATTGACACTTTGTTAT-A
195 TCAAGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTCA
* * * * * *
374857 GCAAGAAAAGCATTTCTTTCAATCATTTTTGATGGAATCAAAGTTTATCGCTTAAATAAGTCAAA
260 -CAAGAAAAGCTTTTCTTTCAATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAA
* * * * *
374922 CATGAATTGTTATACTAATCCCCATTTTCTTTCAA-ATTTGGCACCATAAACTTAGTCTTCTTAT
324 CATGAATAGTCATACTAATCCCCATTCT-TTTCAAGATTAGGCACCATAAACTTAGTCTTCTCAT
* *
374986 AAGGATA-AGCAATATTGATGTTTTGGTTTAGCAAG
388 AAGGATACA-CAATATTGATGCTTTGGTTTCGCAAG
375021 TGTAGACACC
Statistics
Matches: 3558, Mismatches: 555, Indels: 238
0.82 0.13 0.05
Matches are distributed among these distances:
456 13 0.00
457 149 0.04
458 22 0.01
459 174 0.05
460 4 0.00
461 1 0.00
464 1 0.00
465 2 0.00
469 4 0.00
470 186 0.05
471 17 0.00
472 136 0.04
473 52 0.01
474 90 0.03
475 751 0.21
476 781 0.22
477 263 0.07
478 117 0.03
479 20 0.01
480 1 0.00
481 44 0.01
482 136 0.04
483 223 0.06
484 2 0.00
487 2 0.00
488 1 0.00
491 1 0.00
492 1 0.00
493 2 0.00
494 56 0.02
495 304 0.09
496 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (475 bp):
GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACACATTCTC
CTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCTATTTTCC
TTAAAATTAAAATTCATCCCTTAAATAAGACAAGAAATGATTCTCGTAACAGTCTCCATTCTTTT
CAAGATTGGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGATGCTTTGGTGTCAC
AAGAAAAGCTTTTCTTTCAATCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACA
TGAATAGTCATACTAATCCCCATTCTTTTCAAGATTAGGCACCATAAACTTAGTCTTCTCATAAG
GATACACAATATTGATGCTTTGGTTTCGCAAGAAAGGCTTTCCTCCCACCAATTTTTGTAAAGTC
TAAGTTCATGCCTCAATTGT
Found at i:374244 original size:19 final size:20
Alignment explanation
Indices: 374195--374242 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
374185 ATATTGATGA
374195 TTTTCTTTTGCATAAAAATC
1 TTTTCTTTTGCATAAAAATC
374215 TTTTCTTTTGCATAAAAATC
1 TTTTCTTTTGCATAAAAATC
374235 TTTTCTTT
1 TTTTCTTT
374243 GCCCTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTCTTTTGCATAAAAATC
Found at i:375378 original size:13 final size:13
Alignment explanation
Indices: 375360--375386 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
375350 ATTACTCAAA
375360 TGTATCGATACAT
1 TGTATCGATACAT
375373 TGTATCGATACAT
1 TGTATCGATACAT
375386 T
1 T
375387 TCAGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:389271 original size:12 final size:11
Alignment explanation
Indices: 389249--389330 Score: 85
Period size: 12 Copynumber: 6.8 Consensus size: 11
389239 GGCATTCTCC
389249 ACAAAAAAAAA
1 ACAAAAAAAAA
389260 ACAAAAACAAAA
1 ACAAAAA-AAAA
389272 ACAAAACAAAACAA
1 AC-AAA-AAAA-AA
389286 ACAAAAGAAAAA
1 ACAAAA-AAAAA
389298 A-ATAAAGAAAAA
1 ACA-AAA-AAAAA
389310 ACAAACAAAAAA
1 ACAAA-AAAAAA
389322 ACAAAAAAA
1 ACAAAAAAA
389331 CGAAAGAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
11 12 0.19
12 32 0.51
13 13 0.21
14 6 0.10
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.01
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:389340 original size:12 final size:11
Alignment explanation
Indices: 389249--389341 Score: 55
Period size: 11 Copynumber: 8.0 Consensus size: 11
389239 GGCATTCTCC
*
389249 ACAAAAAAAAA
1 ACAAAGAAAAA
*
389260 ACAAAAACAAAA
1 ACAAAGA-AAAA
*
389272 ACAAAACAAAACAA
1 AC-AAA-GAAA-AA
389286 ACAAAAGAAAAAA
1 AC-AAAG-AAAAA
*
389299 ATAAAGAAAAA
1 ACAAAGAAAAA
*
389310 ACAAACAAAAA
1 ACAAAGAAAAA
*
389321 A-ACA-AAAAA
1 ACAAAGAAAAA
389330 ACGAAAGAAAAA
1 AC-AAAGAAAAA
389342 CAACGACAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
9 6 0.09
10 2 0.03
11 24 0.35
12 15 0.22
13 8 0.12
14 13 0.19
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.01
Consensus pattern (11 bp):
ACAAAGAAAAA
Found at i:389341 original size:1 final size:1
Alignment explanation
Indices: 389251--389330 Score: 52
Period size: 1 Copynumber: 80.0 Consensus size: 1
389241 CATTCTCCAC
* * * * * * * * * * *
389251 AAAAAAAAAACAAAAACAAAAACAAAACAAAACAAACAAAAGAAAAAAATAAAGAAAAAACAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
389316 AAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAA
389331 CGAAAGAAAA
Statistics
Matches: 55, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:389353 original size:32 final size:31
Alignment explanation
Indices: 389249--389341 Score: 102
Period size: 31 Copynumber: 3.0 Consensus size: 31
389239 GGCATTCTCC
* *
389249 ACAAA-AAAAAAACAAAAACA-AAA-ACAAA
1 ACAAACAAAAAAACAAAAAAAGAAAGAAAAA
* *
389277 ACAAAACAAACAAAAGAAAAAAATAAAGAAAAA
1 AC-AAACAAA-AAAACAAAAAAAGAAAGAAAAA
389310 ACAAACAAAAAAACAAAAAAACGAAAGAAAAA
1 ACAAACAAAAAAACAAAAAAA-GAAAGAAAAA
389342 CAACGACAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
28 2 0.04
29 3 0.06
30 3 0.06
31 21 0.39
32 19 0.35
33 6 0.11
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.01
Consensus pattern (31 bp):
ACAAACAAAAAAACAAAAAAAGAAAGAAAAA
Found at i:389353 original size:44 final size:44
Alignment explanation
Indices: 389251--389341 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
389241 CATTCTCCAC
*
389251 AAAAAAA-AAAC-AAAAACAAAAACAAAACAAAACAAACAAAAG
1 AAAAAAATAAACAAAAAACAAAAAAAAAACAAAACAAACAAAAG
* *
389293 AAAAAAATAAAGAAAAAACAAACAAAAAAACAAAA-AAACGAAAG
1 AAAAAAATAAACAAAAAACAAA-AAAAAAACAAAACAAACAAAAG
389337 AAAAA
1 AAAAA
389342 CAACGACAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 7 0.16
43 3 0.07
44 22 0.51
45 11 0.26
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.01
Consensus pattern (44 bp):
AAAAAAATAAACAAAAAACAAAAAAAAAACAAAACAAACAAAAG
Found at i:390928 original size:34 final size:34
Alignment explanation
Indices: 390853--391013 Score: 207
Period size: 34 Copynumber: 4.7 Consensus size: 34
390843 CTTTAAAAGT
* * *
390853 CCACAACTCCGTGACACCTTTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCA-CTCTTTTTCCTTTT-AAGC
*
390889 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
390923 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
390957 CCACAACTCCGTGGCACTTTTTTTCCTTTT-AGG
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
390990 TCACCAACTCCGTGGCACCCTTTT
1 CCA-CAACTCCGTGGCACTCTTTT
391014 AAGCCCACAA
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
33 4 0.04
34 84 0.74
35 12 0.11
36 14 0.12
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.37
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
Found at i:391051 original size:29 final size:29
Alignment explanation
Indices: 391001--391120 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 29
390991 CACCAACTCC
* *
391001 GTGGCACCCTTT--TAAGCCCACAAGTCG
1 GTGGCACCCTTTCAAAAGCCCACAAGTTG
*
391028 GTGGCACCCCTTTC-AAAGCCCACAAGTTA
1 GTGGCA-CCCTTTCAAAAGCCCACAAGTTG
* *
391057 GTGGCAACC-TTCAAAAGCACACAAGTTG
1 GTGGCACCCTTTCAAAAGCCCACAAGTTG
*
391085 AT-GCAACCCTTTCAAAAGCCCACACAAGTTG
1 GTGGC-ACCCTTTCAAAAG-CC-CACAAGTTG
391116 GTGGC
1 GTGGC
391121 GTCTTCTTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
27 11 0.15
28 25 0.33
29 26 0.35
30 1 0.01
31 10 0.13
32 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (29 bp):
GTGGCACCCTTTCAAAAGCCCACAAGTTG
Found at i:391377 original size:87 final size:87
Alignment explanation
Indices: 391130--391436 Score: 312
Period size: 87 Copynumber: 3.4 Consensus size: 87
391120 CGTCTTCTTC
* * * * * *
391130 TAAGTCCAATATCGCTAGCCTT-AAACTAGCATATTGGCACCTTTATCTTTAAAACCTAATATCG
1 TAAGTCCAATATCGTTGGCCTTGAATC-AGCATATTGGCACC-TTGTCTTTAAGACC-AATGTCG
* * *
391194 CTGGCCTTGAATCAGCATATTGACA
63 CTGGCCTTGAATCAGCACATCGGCA
* * *
391219 CCTTGAAGTCCGATATCGTTGGCCTTAAATCAGCATATTGGCACC-GGCATCTTTAAGACCAATG
1 ---T-AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTG--TCTTTAAGACCAATG
*
391283 TTGCTGGCCTTGAATCAGCACATCGGCA
60 TCGCTGGCCTTGAATCAGCACATCGGCA
* * * * * *
391311 TAAGCCCAATATCGCTGGCTTTGAATCGGCATATTGGCACCTTGTCTTTAAGTCCAATGTCACTG
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
391376 GCCTTGAATCAGCACATCGGCA
66 GCCTTGAATCAGCACATCGGCA
* ** *
391398 CAAGTTTAATATCGTTGGCCATGAATCAGCATATTGGCA
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA
391437 TCTTTATCAT
Statistics
Matches: 180, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
87 71 0.39
88 34 0.19
89 2 0.01
92 28 0.16
93 42 0.23
94 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (87 bp):
TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATCGGCA
Found at i:396559 original size:475 final size:476
Alignment explanation
Indices: 395577--396649 Score: 1392
Period size: 475 Copynumber: 2.3 Consensus size: 476
395567 GTTACGACAG
* * * ** ** * *
395577 CAAGAAAGGCTTTCTTCCCACTAA-TTTTGAAAAGTGTAAGTTTTTGCCTCGAATAAG-G-CCAA
1 CAAGAAAGGCTTTCCTCCCACCAATTTTTGTAAAGCCTAAGTTCGTGCCTC-AAT-TGTGACAAA
* * * *
395639 CATAGATTCTAGTAATGATCTTTATTCATTTTTGTGATTAAGCACCATAAAAACATTCTCCTCAT
64 CATGGATTCTAGTAATGATCTTTATTCA-TTTTGTGATTAGGCACTATAAACACATTCTCCTCAT
* *
395704 TAGGATAAATGGAATTGATGATTTTCTTTTGCTTGGAAATCTTTCCTTTGCCCTATTTTCCTTAA
128 TAGGATAAATGGAATTAATGATTTTCTTTTGCTTGGAAATATTTCCTTTGCCCTATTTTCCTTAA
* *
395769 AATCAAAGTTCATCCCTTCAATAAGGCAAGCATTGATTCTCATAACAGTCCCCATTCTTTTCAAG
193 AATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCCCCATTCTATTCAAG
* * *
395834 ATTGGGAACCATAAACACATTCCTTTCATTAGGATACATGACATTTGAAGCTTTGGAGTGCAAGA
258 ATTAGGAACCAGAAACACATTCCTTTCATTAGGATACATGACATTTGAAGCTTTAGAGTGCAAGA
* * * *
395899 AAAGCATTTCTTTCAACTGTTTTTGATAAAATCAAAGTTTGTCTATTACATATGACAAACGTGAA
323 AAAGCATTTCTTTCAACTGTTTTTGACAAAATCAAAGTTTGTCTATTAAATAAGACAAACATGAA
* * *
395964 TAATCATACTAATCCCTATTCTTTTAAGGATCAGGCACCATAAACTTAGTCTTTTAATAAGGATA
388 TAATCATACTAATCCCCATTCTTTTAAGAATCAGGCACCATAAACTTAGTCTTCTAATAAGGATA
* * *
396029 CATGTTATTGAAGCATTGGTTTCT
453 CAAGATATTGAAGCATTGGTTTCA
* * *** * *
396053 TAAGAAAGGCTTTCTTCTTGCCAATTTTTGTAAAGCCTAATTTCGTGCCTTAATTGTGACAAACA
1 CAAGAAAGGCTTTCCTCCCACCAATTTTTGTAAAGCCTAAGTTCGTGCCTCAATTGTGACAAACA
* * *
396118 TGGATTTTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTTTCC-CAATTA
66 TGGATTCTAGTAATGATCTTTATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTC-ATTA
* ** * *
396182 GGATAAAT-GATATTAATGATTTTCTTTTTCTTTTAAATATTTTCTTTGTCCTATTTTCCTTAAA
130 GGATAAATGGA-ATTAATGATTTTCTTTTGCTTGGAAATATTTCCTTTGCCCTATTTTCCTTAAA
* * * * * *
396246 ATCAAAGTTCATCCGTTAAATAAGGCAAGTATTGATTCTCGTAATAGTCTCCATTCTATTCATGA
194 ATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCCCCATTCTATTCAAGA
* * * * *
396311 TTAGGAACCAGACACATATTCCTTTCATTAGGATACATGACA-TTGACA-TTTTAGTGTGGAAGA
259 TTAGGAACCAGAAACACATTCCTTTCATTAGGATACATGACATTTGA-AGCTTTAGAGTGCAAGA
* *
396374 AAAGCATTTCTTTCAACTGTTTTTGACAAAATCAAAGTTTGTCTCTTAAATAAGACAAACATTAA
323 AAAGCATTTCTTTCAACTGTTTTTGACAAAATCAAAGTTTGTCTATTAAATAAGACAAACATGAA
* * * *
396439 TATTCATACTAATCCCCATTCTTTTCAA-AATTAGGTACCATAAACTTAGTCTTCTCATAAGGAT
388 TAATCATACTAATCCCCATTCTTTT-AAGAATCAGGCACCATAAACTTAGTCTTCTAATAAGGAT
* *
396503 ACAAGATATTGATGC-TGTGTTTTCA
452 ACAAGATATTGAAGCAT-TGGTTTCA
*
396528 CAAGAAAGGCTTTCCTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAAC-
1 CAAGAAAGGCTTTCCTCCCACCAATTTTTGTAAAGCCTAAGTTCGTGCCTCAATTGTGACAAACA
* *
396592 TAGGATTCTAGTAATGATCTTTATTCACTTTGTGATTAGGCGCTATAAACACATTCTC
66 T-GGATTCTAGTAATGATCTTTATTCATTTTGTGATTAGGCACTATAAACACATTCTC
396650 TTCTGCTAGG
Statistics
Matches: 513, Mismatches: 75, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
474 2 0.00
475 257 0.50
476 207 0.40
477 47 0.09
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (476 bp):
CAAGAAAGGCTTTCCTCCCACCAATTTTTGTAAAGCCTAAGTTCGTGCCTCAATTGTGACAAACA
TGGATTCTAGTAATGATCTTTATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAG
GATAAATGGAATTAATGATTTTCTTTTGCTTGGAAATATTTCCTTTGCCCTATTTTCCTTAAAAT
CAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCCCCATTCTATTCAAGATT
AGGAACCAGAAACACATTCCTTTCATTAGGATACATGACATTTGAAGCTTTAGAGTGCAAGAAAA
GCATTTCTTTCAACTGTTTTTGACAAAATCAAAGTTTGTCTATTAAATAAGACAAACATGAATAA
TCATACTAATCCCCATTCTTTTAAGAATCAGGCACCATAAACTTAGTCTTCTAATAAGGATACAA
GATATTGAAGCATTGGTTTCA
Found at i:396932 original size:20 final size:19
Alignment explanation
Indices: 396895--396933 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
396885 AGGTCAAAAC
**
396895 CCTTAAATGTATTGATACA
1 CCTTAAATGTATCAATACA
396914 CCTTCAAATGTATCAATACA
1 CCTT-AAATGTATCAATACA
396934 AAATGCACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (19 bp):
CCTTAAATGTATCAATACA
Found at i:396961 original size:13 final size:13
Alignment explanation
Indices: 396943--396967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
396933 AAAATGCACA
396943 GTATCGATACATT
1 GTATCGATACATT
396956 GTATCGATACAT
1 GTATCGATACAT
396968 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:396980 original size:20 final size:21
Alignment explanation
Indices: 396955--397007 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
396945 ATCGATACAT
*
396955 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
396975 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
396996 TGTATCGATACA
1 TGTATCGATACA
397008 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:397293 original size:13 final size:13
Alignment explanation
Indices: 397275--397300 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
397265 TACACACAAG
397275 ATGTATCGATACA
1 ATGTATCGATACA
397288 ATGTATCGATACA
1 ATGTATCGATACA
397301 TCCCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:397293 original size:208 final size:208
Alignment explanation
Indices: 397047--397458 Score: 743
Period size: 208 Copynumber: 2.0 Consensus size: 208
397037 CCCTTAACTG
*
397047 TTTGTCTCGATACACACAAGATGAATCGATACAATGTATCGATACATCCCAAAATGTATCGATAC
1 TTTGTATCGATACACACAAGATGAATCGATACAATGTATCGATACATCCCAAAATGTATCGATAC
397112 ATTAGCTTGTAACGACTAGTAACGGCTATATTTTCAAATGCATGTATCGATACATCCCAAATTGT
66 ATTAGCTTGTAACGACTAGTAACGGCTATATTTTCAAATGCATGTATCGATACATCCCAAATTGT
*
397177 ATCGATACATTGACACGAGATTGCATTAAAATAAGCTCCAACAAGTCAATAACGACTGCATACTC
131 ATCGATACATTGACACGAGATTGCATTAAAATAAGCTCCAACAAGTCAATAACGACTACATACTC
397242 CACCAATCACCTA
196 CACCAATCACCTA
* *
397255 TTTGTATCGATACACACAAGATGTATCGATACAATGTATCGATACATCCCAAATTGTATCGATAC
1 TTTGTATCGATACACACAAGATGAATCGATACAATGTATCGATACATCCCAAAATGTATCGATAC
* *
397320 ATTGGCTTGTAATGACTAGTAACGGCTATATTTTCAAATGCATGTATCGATACATCCCAAATTGT
66 ATTAGCTTGTAACGACTAGTAACGGCTATATTTTCAAATGCATGTATCGATACATCCCAAATTGT
* *
397385 ATCGATACATTGACACGGGATTGCATTAAAATAAGCTCCAACAAGTCAATAACGGCTACATACTC
131 ATCGATACATTGACACGAGATTGCATTAAAATAAGCTCCAACAAGTCAATAACGACTACATACTC
*
397450 CACTAATCA
196 CACCAATCA
397459 ATCTCCAACG
Statistics
Matches: 195, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
208 195 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (208 bp):
TTTGTATCGATACACACAAGATGAATCGATACAATGTATCGATACATCCCAAAATGTATCGATAC
ATTAGCTTGTAACGACTAGTAACGGCTATATTTTCAAATGCATGTATCGATACATCCCAAATTGT
ATCGATACATTGACACGAGATTGCATTAAAATAAGCTCCAACAAGTCAATAACGACTACATACTC
CACCAATCACCTA
Found at i:397318 original size:33 final size:32
Alignment explanation
Indices: 397257--397320 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
397247 ATCACCTATT
397257 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAGATGTATCGATACAA
*
397289 TGTATCGATACATCCCAA-ATTGTATCGATACA
1 TGTATCGATACA-CACAAGA-TGTATCGATACA
397321 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAGATGTATCGATACAA
Found at i:405946 original size:13 final size:13
Alignment explanation
Indices: 405928--405952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
405918 ATAATGCACA
405928 GTATCGATACATT
1 GTATCGATACATT
405941 GTATCGATACAT
1 GTATCGATACAT
405953 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:406070 original size:13 final size:13
Alignment explanation
Indices: 406052--406077 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
406042 TACACATAAG
406052 ATGTATCGATACA
1 ATGTATCGATACA
406065 ATGTATCGATACA
1 ATGTATCGATACA
406078 TCCCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:408537 original size:20 final size:20
Alignment explanation
Indices: 408499--408537 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
408489 TAGCCTTTGG
*
408499 TCATGCTTTTTCACTATGTT
1 TCATGCTTTTTAACTATGTT
408519 TCATGCATTTTTAAC-ATGT
1 TCATGC-TTTTTAACTATGT
408538 CCAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.51
Consensus pattern (20 bp):
TCATGCTTTTTAACTATGTT
Found at i:411839 original size:476 final size:476
Alignment explanation
Indices: 410845--412351 Score: 1706
Period size: 476 Copynumber: 3.2 Consensus size: 476
410835 ATAAAAGTAC
** * * * *
410845 TTCTTTCAACTGTTTTTTACAGAATCAAAGTTTGTATCTTAAATAATACAAACATGAATAGTCAT
1 TTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCAT
* * * *
410910 ACTAATCCCCATTCTTTTCATGATTAGGCACCATAAACTTAGTTTTCTAATAATGTTACACGATA
66 ACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGATA
* * * *
410975 TTGATGCTTTGGTTTCGTACGAAAGGTTTTTTTCCAACCAATTTTTGTAAAGTCTAAGTTCGTGC
131 TTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGC
* * * ** * *
411040 CTCGAA-TGAGACAGACATGAATTCTAGTTTTGATCTTCGTTCATTTTGTGATTAGGCACTATAA
196 CTC-AATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAA
* * * * * * * * * *
411104 ACGCATAATC-CAT-ATCACGATAAA-GTTTATTGATGATTTTCTCTTACATGGACATTTTTTCA
260 A--CATATTCTCCTCATTAGGATAAATG-ATATTGATGATTTTCTTTTGCATGGAAATCTTTTCT
* * ** * * *
411166 TTG-CCTTTTTTCCTTAAAATCAAATTTCATCCCTTAAATTTGACAAGCATCGATTCTCATAATA
322 TTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACA
* * *
411230 GTCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCTTTTCATTATGATACATGACATTGA
387 GTCTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGA
* * * *
411295 TGCTTTAGTGTTGCAAGAAAAGCTT
452 CGCTTTGGTGTCGCAAGAAAAGCAT
* * * **
411320 TTCTTTCTACCATTTTTGATAGAATCAAAGTTTGTCGCTTAAATATGGTAAACACT-AATAGTCA
1 TTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACA-TGAATAGTCA
* * *
411384 TACTAATCCCCAATCGTTTCAGGATAAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGAT
65 TACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGAT
* * * ** * *
411449 ATTGAAGCATTGGTTTCGTAAGAAAGGCTTTCTTCCTACCAATTTTCATAAAGCCT-AGATTTGT
130 ATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAG-TTCGT
* * * *
411513 GCCTCAATTGTGACAAACATGGATTCAAGTCATGATCGTCATTCACTTTGTGATTCGGCACTATA
194 GCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATA
** * * * * *
411578 AACATATTCTCCTCCGTAGGACAAATGATATTGATGATTTTCTTTTGCGTGTAAATCCTTTGTTT
259 AACATATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTT
* * * *
411643 GCCTTATTTTCCATAAAATCAAAGTTCATCCTTTAAATAAGGCAAGCATTGATTCTCATAACAGC
324 GCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGT
* * * *
411708 CTCTATTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTCGTTAGGATACATGACATTGATG
389 CTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACG
* **
411773 CAATT-GTGTCATAAGAAAAGCAT
454 C-TTTGGTGTCGCAAGAAAAGCAT
* *
411796 TTCTTTCAGA-CATTTTTCATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACAAGAATAGTCA
1 TTCTTTCA-ACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCA
* * ** * * *
411860 TACTAATCTCCATTCTTTTCAGGATTACGCATTATAAACTTAGTCTTCTCATAAGCATACATGAT
65 TACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGAT
* * * * *
411925 ATTGATGCTTTTGTTGCGTAAGAAAAGCTTTCTTCCCACCAATTTTTGCAAAGTCTAAGTTTGTG
130 ATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTG
* * * * * * *
411990 TCTCAATTATGGA-AAATATGGATTCTAGTAATGAACTTCTTTCACTTTATGATTTGGCACTATA
195 CCTCAATTGT-GACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATA
* * * * * *
412054 AACATATACTCCTCATTAAGATAAATGATATTGATGATTTTCTTCTGCGTGAAAATCATTTCTTT
259 AACATATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTT
* * * * * *
412119 GCCCTAGTTTCCTTAAAATTAAAATTCATCCATTAAATAAGGCAAGCATTTATTCTCGTAACAGT
324 GCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGT
* * * * * *
412184 CTCCATTCTTTTCAAGATTAGGAACTAGAAACACATTCCTTTCATTAGGATACTTGACATGGATG
389 CTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACG
412249 CTTTGGTGT-GCAAGAAAAGCAT
454 CTTTGGTGTCGCAAGAAAAGCAT
* * *
412271 TTCTTTCAACCAGTTTT-AGTGGAATCAAAGTTTGCCTCTTAAATAAGACAAACATGAATAGTCA
1 TTCTTTCAACCATTTTTGA-TAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCA
* *
412335 TATTATTCCCCATTCTT
65 TACTAATCCCCATTCTT
412352 CTAATAAGGA
Statistics
Matches: 867, Mismatches: 150, Indels: 30
0.83 0.14 0.03
Matches are distributed among these distances:
473 6 0.01
474 8 0.01
475 332 0.38
476 514 0.59
477 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (476 bp):
TTCTTTCAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCAT
ACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGATA
TTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGC
CTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAA
CATATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGC
CCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCATAACAGTCT
CCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTCATTAGGATACATGACATTGACGCT
TTGGTGTCGCAAGAAAAGCAT
Found at i:413480 original size:476 final size:475
Alignment explanation
Indices: 412348--418381 Score: 6749
Period size: 476 Copynumber: 12.7 Consensus size: 475
412338 TATTCCCCAT
* * *
412348 TCTTCTAATAAGGATACACGATATTGATGCATTGCTTTCATAAGAAAGGCTTTCTTCCCACCAAT
1 TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* * *
412413 TTTTGTAAAGTCTAAGTTTGTGCCTTATTTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * * *
412478 A-CTTGTGATTAGGCACTATAAACATATTCTCCTCATTAGGTTAAATGATATTGATGACTTTCTT
131 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
* *
412542 TTACATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCATAAATAAGGCA
196 TTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTT-AAATCAAAGTTCATCCCTTAAATAAGGCA
* * * * ** * * * *
412607 AGTATTCAATCTCATAACAGTCT-CATTTCTTTTCATGGCTGGGAA-CTAAAACAAAATCCTTTC
260 AGCATTGATTCTCGTAACAGTCTCCA-TTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTC
* * * * *
412670 ATTATGATACATAACATTAACGCTTTGGTGTTGCAAGAAAAGC-TTTGCTCTTC-ACCATTTTTG
324 ATTAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATTT-CT-TTCAACCATTTTTG
* * * * *
412733 ATAGAATCAAAGTTTGTCTCTTAAACAAGACAAA-ATAAATAGCCATACTAATCCACATTCATTT
387 ATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTT
412797 CAGGATTAGGCACCAT-AACTTAG
452 CAGGATTAGGCACCATAAACTTAG
* * * * * * *
412820 TCTTCTAATAAGGATACAAGATATTGAAGCATTGGTTTTGTAAGAAAGGTTTTTTTTCCACCAAT
1 TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* * *
412885 TTTTGTAAAGTCTAAGTCCGTGCCTCAATTATGACAAACATGGATTCTAGAAATGATCTTCATTC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * * * * *
412950 ACTTTGTGATTAGGCACTACAAATATATTCTCCTCTTTAGGTTAAATGATATTGATGATTTTCTT
131 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
* * * * *
413015 TTGCATGGAAATCTTTTCTTTGCCATATTTTCCATAAATTCAAAGTTCATTCCATAAATAAGGGA
196 TTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAA-TCAAAGTTCATCCCTTAAATAAGGCA
* * * *
413080 AGCATTGATTCTTGTAACAGTCTCCATTCTTTTCATGAGTGGGAACCAAAAATACATTCCTTTCA
260 AGCATTGATTCTCGTAACAGTCTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTCA
* * * * *
413145 TTAGGATACGTGACATTGACATTTTGCG-GTCGCAAGAAAAGCATTTGTTTTAGCCATTTTTGAT
325 TTAGGATACATGACATTGACACTTTG-GTGTCGCAAGAAAAGCATTTCTTTCAACCATTTTTGAT
** * * *
413209 AGAATTGAAGTCTGTCACTTAAATAAGACAAACATGAATTGTCATACTAATCCCCATTCTTTTCA
389 AGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCA
* * *
413274 GAATCAGGCACCATAAGCTTAG
454 GGATTAGGCACCATAAACTTAG
* * * ** *
413296 TCTTCTCATAAGGTTACACGATATTGATGCTTTTGTTTCGTAAGAAAGGCTTTCTTCCTGCTAAT
1 TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* ** * *
413361 TTTTGTAAAGTCTATGTTCGCACCGCAATTGTGACAAACATGGATTCTAGTAATGATCTTTATTC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * *
413426 ATTTTGTGATTAGGCACTATAAACACATTATCTTCATTAGGATAAATAATATTGATGATTTTCTT
131 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
* * * * * * *
413491 TTGCATGTAAATCTTTTCTTTACCGTATTTTCCTTAAAATCAAGGTTCATCCCATAAAAAATGCA
196 TTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTT-AAATCAAAGTTCATCCCTTAAATAAGGCA
* * * * * * * *
413556 AGCGTTGATTATCATAACTGTTTCCATTCTATTCATGATTAGGAACTAGAAACACATTCCTTTCA
260 AGCATTGATTCTCGTAACAGTCTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTCA
* * * *
413621 TTAGGATACATGACATTGACACTTTGGTGT-ACAAGAAAAGCATATCTTTCAACCATTTTTAAGA
325 TTAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCATTTTTGATA
* ** *
413685 AAATCAAAGTTTGTCTCACAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTTAG
390 GAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAG
*
413750 GATTAGGCACCAAAAACTTAG
455 GATTAGGCACCATAAACTTAG
* * * *
413771 TCTTCTAATAAGGATACACGATATTGAAGCATTGGTTTCGGAAGAAAGGCTTTCTTTCCACCAAT
1 TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* * * * * * * *
413836 TTATGTAATGCCTAAATTCATGCCTCAATTGTGATAAACATAGATTCTAGTAATGATCTTCAATC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * * *
413901 ATTTTGTGATTAGGTACTATAAATACATTATACTCATTAGGATAAATGATATTGATGATTTTCTT
131 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
* * *
413966 TTGCATGAAAATCTTTT-TGTTGCCCTATTTTCCTTAAAATCGAGGTTCATCCCTTAAATAAGGC
196 TTGCATGGAAATCTTTTCT-TTGCCCTATTTTCCTT-AAATCAAAGTTCATCCCTTAAATAAGGC
* * * *
414030 AAGCATTGATTCTCGTAACAGTTTCCATTCTATTCATGATTAGGAATCAAAAACACATTCCATTC
259 AAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTC
* *
414095 ATTAGGATACATGACATTAACACTTTGGTGTC-CATGAAAAGCATTTCTTTCAACCATTTTTGAT
324 ATTAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCATTTTTGAT
* * *** *
414159 AAAATCAAAGTTTGTCTCTTAAATAAGACAAACATAAATAGTCATACTAATCTTTATTCCTTTCA
389 AGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCA
*
414224 GGATTAGGCACCAAAAACTTAG
454 GGATTAGGCACCATAAACTTAG
* * * * * * ** *
414246 TCTTCTAATAAAGATACATGATATTGAAGCATTGCTTTCGTAAAAAAGGCTTTCTTTGCACTAAT
1 TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* * * * *
414311 TTTT-TAAAGCCTAAGTTCATGCCTCAGTTGTGACAAATATAGATTCTAGTAATGATCTTCATTC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * * * * * * *
414375 CTTTTATGGTTCGGCACTATAAACACATTCTCCAT-ATTACGAAAAATGTTATTGATGATTTTAT
131 ATTTTGTGATTAGGCACTATAAACACATTCTCC-TCATTAGGATAAATGATATTGATGATTTTCT
* * * * * * ** **
414439 TTTGCGTGGAATTTTTTTCTTTACCCTACTTTCCTTAAAATCAAAATTCATCCCTTAAATTTGAT
195 TTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTT-AAATCAAAGTTCATCCCTTAAATAAGGC
* * * ** * *
414504 AAGCGTTGATTCTCGTAATAGTCTCTATTCTTTTCCGGATTGGGAACCAATAACACATT-CTCTT
259 AAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCT-TT
* * * ** * *
414568 CAGTT-GGATACATGACAATGATACCTTGGTGTCATAAGAAAAGC-TTCTCTCTCCACCATTTTT
323 CA-TTAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATT-TCTTTCAACCATTTTT
* * * * * * *
414631 GCTATAATCAAAGCTTGTCTCCTAAATAAGACCAACTTGAATAGTCATACTGATCCCCATTCTTT
386 GATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTT
* * *
414696 TCAGAATTAGGCAGCATAAACATAG
451 TCAGGATTAGGCACCATAAACTTAG
* * * * *
414721 TCTTCTCATAAGGATACATGATATTGATGCTTTTGTTTCATAAGAAAGGCTTTTTTCCCACCAAT
1 TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* ** * * * *
414786 TTTTGTAAATTCTAAGTTCGCACCCCAATTGTCACAAACATGGATTCTAGTAACGATCTGCATTC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * * * * * *
414851 ACTTTGCGATTAAGCAATATAAACATATTTTCCTCATTAGGATAAATGATATTGGTGATTTTCTT
131 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
* * * *
414916 TTGCATGGAAAAT-TTTTCTTTGCCCTATTTTCCTTAAAATCAAGGTTAATCCCTTAAGTAAAGC
196 TTGCATGG-AAATCTTTTCTTTGCCCTATTTTCCTT-AAATCAAAGTTCATCCCTTAAATAAGGC
* * ** * *
414980 AAGCATTAATTCTCGCAACAACCTCTATTCTTTTCATGATTGGGAACCAAAAACACATTCCTTTC
259 AAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTC
** * * * * * * * * *
415045 ATTAAAATACATGACATTGACGCTTTGGGGTCACAATAAATGCTTTTCTTTTAGCCATTTTTTAT
324 ATTAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCATTTTTGAT
* * * * *
415110 AGAATTAAAGTTTGTCTATTACATAAGACAAACATGAATAGTTATACTAATCCCCA-TCCTTTCT
389 AGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTC-
* *
415174 AGGTTTATGCACCATAAACTTAG
453 AGGATTAGGCACCATAAACTTAG
* * * *
415197 TCTTCTATTAAGGATACACGATATTGATTCTTTGGTTTTGTAAGAAAGGCTTTCTTCCCACCATT
1 TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* * * * *
415262 TTTTGTAAAATCTAAGTTCGTGGCTGAATTGGGACAAACATGGATTCCAGTAATGATCTTCATTC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * * *
415327 ATTTTGTGATTAGGCACTATAAACACATTTTCCCCGTTAGGAT-AATGATATTGGTGATTTTCTT
131 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
* * * * * * * *
415391 TTTCATGGAAATCTTTTCTTTGCCCTATTTTACTTAAAATTAATGTT-GTCCCCATAAAAAAGAC
196 TTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTT-AAATCAAAGTTCAT-CCCTTAAATAAGGC
* * * * *
415455 AAGTATTGATTCTCATAACAATCTCCATTCTTTTCATGACTAGGAACCAAAAACACATTCCTTTT
259 AAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTC
* * * * * *
415520 GTTAGGATACATGACATTGACGCATTGGTGTCGCATGAAAAGCATTTTTTTCAACCGTTTTTGAT
324 ATTAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCATTTTTGAT
* * *
415585 AGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGACTAGTCATACTAATCTCCATTCTTTTCA
389 AGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCA
*
415650 GGATTGGGCACCATAAACTTAG
454 GGATTAGGCACCATAAACTTAG
* * * *
415672 TC-TCTTATAAGAATACACGATATTGATGCTTTGGTTTCGTAAGGAAA-TCTTTCTTCCCACTAA
1 TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGTAA-GAAAGGCTTTCTTCCCACCAA
** * * * * *
415735 TTTTTGTGTAGTCTAAGTTCATGCCTCATTTGTGAGAAACATCGATTGTAGTAATGATCTTCATT
65 TTTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATT
* * * * *
415800 CACTTTGTGATTAGGCACTATAAATATATGCTCCTCATTAGGATAAATAATATTGATGATTTTCT
130 CATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCT
* * *
415865 TTTGTATAGAAATCATTTCTTTGCCCTATTTTCCTTTAAATCAAAGTTCATCCCTTAAATAAGGC
195 TTTGCATGGAAATCTTTTCTTTGCCCTATTTTCC-TTAAATCAAAGTTCATCCCTTAAATAAGGC
* * * * *
415930 AAGCATTAATTCTCATATCAATCTCCATTCTTTTCATGATCT-GGAACCAAAAATACATTCCTTT
259 AAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCATGAT-TAGGAACCAAAAACACATTCCTTT
* * * * * * ** *
415994 CAATAGGATACATGACATTGACACTTTGGAGTTGTAATAAAAGCATTTCATTT-AATCGCTCTTG
323 CATTAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATTTC-TTTCAACCATTTTTG
* *
416058 ATAGAATCAAAGTTTGTCTTTTAAATAAGACAAACATGAATAGTCATTCTAAT-CCCATTCTTTT
387 ATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTT
* *
416122 TAGCATTAGGCACCATAAACTTAG
452 CAGGATTAGGCACCATAAACTTAG
* * * * *
416146 TCTTCTAATAAATGATACATGATATTGAAGCTTTGGTTTCGCAAGAAAGGTTTTCTTCCCACCAA
1 TCTTCTAAT-AAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAA
* * *
416211 TTTTTGTAAAGTCTAAGTTCATGCCTCAATTAG-GACAAACATGGAATCTGGTAATGATCTTCAT
65 TTTTTGTAAAGTCTAAGTTCGTGCCTCAATT-GTGACAAACATGGATTCTAGTAATGATCTTCAT
* *
416275 TCATTTTGTGATTAGGCACTATAAACACAATTTATCCT--TTAGGATAAATGATATTGGTGATTT
129 TCATTTTGTGATTAGGCACTATAAACAC-A-TTCTCCTCATTAGGATAAATGATATTGATGATTT
* * * * * *
416338 TCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTACTTAAAATTAATGTTTATCCGTTAAAAAA
192 TCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTT-AAATCAAAGTTCATCCCTTAAATAA
* * * * * *
416403 GCCAAGCACTGATTCTCATAATAGTCTCTATTCTTTTCATGATTAGGAACCAAAAACACATTCTT
256 GGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCT
* * * *
416468 TTCATTAGGATATATGACATTGACGCATTAGTGTCGCAAGAAAAGCATTTCTTTCAACCATTTTT
321 TTCATTAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCATTTTT
* * *
416533 G-CAGAATCAAAGTTTGTCTCTTAAATAAGAGAAACATAAATAGTCATACTAATCCCCATTCTTT
386 GATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTT
416597 TCAGGATTAGGCACCATAAACTTAG
451 TCAGGATTAGGCACCATAAACTTAG
* * * *
416622 TCTTCTTATAAGGATACACGATATTGATGCTTTGGTTTCGTGAA-AAAGTCTTTCCTCCAACCAA
1 TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGT-AAGAAAGGCTTTCTTCCCACCAA
* * * * * * * * * *
416686 TTATTGTATAGTCCAAGTTTGTGCCCCATTTCTGTCAAACATTGATTGTAGTAATGATCTTCATT
65 TTTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATT
* * * * * * * *
416751 TACTTTGTGATTAGGTACTATAAACATATTCTTCTCATTAGGATAAACGATATTGAAGATTTTTT
130 CATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGA-TTTTC
* * * *
416816 TTTTGCATAGAAATCATTTCTTTGCCTTATTTTTCTTTAAATCAAAGTTCATCCCTTAAATAAGG
194 TTTTGCATGGAAATCTTTTCTTTGCCCTA-TTTTCCTTAAATCAAAGTTCATCCCTTAAATAAGG
* * * *
416881 CAAGCATTGATTCTCGTACCAATCTCCATTCTTTTCCTGA-TCGAGAACCAAAAACACATTCCTT
258 CAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCATGATTAG-GAACCAAAAACACATTCCTT
* * *
416945 TCAATAGGATACATGACATTGACGCTTTGGTGTCGCAATG-AAAGCATTTCTTTCAATCGA-TTT
322 TCATTAGGATACATGACATTGACACTTTGGTGTCGCAA-GAAAAGCATTTCTTTCAA-CCATTTT
* * * * *
417008 TGATGGAATCAAAGTTTGTCTTTTAAATAAGACAAACATGAAAAGTCATTCTCAT-CCCATTCTT
385 TGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTT
* *
417072 TTTAGGATTAGGCACCCTAAACTTAG
450 TTCAGGATTAGGCACCATAAACTTAG
* * * * * **
417098 TCTTCTAATAAATGATACATGATATTGATGCTTTGCTTTTGTAAGAAAGGTTTTCTTCCTGCCAA
1 TCTTCTAAT-AAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAA
* * ** * * * *
417163 TTTTTGTAAAGTCTAAGTTCCTACCTCGAA-TAAGACAGACATGAATTCT-GGAATTGATATTCA
65 TTTTTGTAAAGTCTAAGTTCGTGCCTC-AATTGTGACAAACATGGATTCTAGTAA-TGATCTTCA
* * * * *
417226 TTCATTTTGTGATTAGGCACTGTAAACACATTCT-CT-ATCATGATAAAGGTTATTGATGATTTT
128 TTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTT
* * ** * * * * **
417289 CTTTTGCATGGACATTTTTTCTTCACCCT-TGTTTTCTTAGAATCAAATTTCATCTCTTATATTT
193 CTTTTGCATGGAAATCTTTTCTTTGCCCTAT-TTTCCTTA-AATCAAAGTTCATCCCTTAAATAA
* * * * *
417353 GACAAGCGTTGATTCTTGTAACAGTCTCCATTCTTTAC-TGGATTAGGAACCAAAAACTCATTCC
256 GGCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCAT-GATTAGGAACCAAAAACACATTCC
* * ** * * * * *
417417 TTTTATTAGGATATATGACATTGATGCTTTAGTGTCGCATGGAAAGCTTTTCTTTCCACCATTTT
320 TTTCATTAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCATTTT
* * * *
417482 TGGTAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATAGTCACACTAATCCCCACTCTT
385 TGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTT
** *
417547 TTCAGGGCTAGGCACCATAAACTTTG
450 TTCAGGATTAGGCACCATAAACTTAG
* * * * * **
417573 TCTTTTCATAAGGATACACGATATTAATGCTTTGGTTTAGTAAGAAAGTCTTTCTTCTGACCAAT
1 TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* * * * *
417638 TTTTGTATAGTCTAAGTTCGTGCCTCATTTGTGATAAACATTGATTATAGTAATGATCTTCATTC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* *
417703 ACTTTGTGATTAGGCACTATAAACATATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
131 ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
* * * **
417768 TTACATAGAAATCATTTCTTTGCCCTATTTTTGTTTAAATCAAAGTTCATCCCTTAAATAAGGCA
196 TTGCATGGAAATCTTTTCTTTGCCCTA-TTTTCCTTAAATCAAAGTTCATCCCTTAAATAAGGCA
* * * * * **
417833 AGCATTGATTCTCAT-ACTAGTGTCCATTCTTTTCATGAATAGGAACTAAAAACACTTTATTTTC
260 AGCATTGATTCTCGTAAC-AGTCTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTC
* * * * * * * *
417897 AATAGGATACATGACAATAACGCTTTGGTGTCGCAATAAAAGCATTTCTTTTAATCGTTTTTGAT
324 ATTAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCATTTTTGAT
* * * * *
417962 AGAATCATAGCTTGTCTCCTAAATAAGACAAACATGAATAGTTATACTAAT-CTCATTCTTTTCA
389 AGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCA
418026 GGATTAGGCACCATAAACTTAG
454 GGATTAGGCACCATAAACTTAG
* * *
418048 TCTTCTAATAAATGATACACGATATTGATGCTTTGTTTTCGTAAGAAAGGCTTTCTGCCCACCAA
1 TCTTCTAAT-AAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAA
* * * * * *
418113 TTTTTGTAAAGTCTAAGTTCTTGCCTCGAA-TGAGACAGACATGAATTCGAGTATTGATCTTCAT
65 TTTTTGTAAAGTCTAAGTTCGTGCCTC-AATTGTGACAAACATGGATTCTAGTAATGATCTTCAT
** * * * * * * *
418177 TCATTTTGAAATTAGGTACTATAAACACATTCTCCAT-ATCACGATAAAGGTTATTAATTATTTT
129 TCATTTTGTGATTAGGCACTATAAACACATTCTCC-TCATTAGGATAAATGATATTGATGATTTT
* * * *** * * **
418241 CTTTTGTATGGATATTTTTTCTTTGTTGTTTTTTCCTTGAAATCAAATTTCATCCCTTAAATTTG
193 CTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTT-AAATCAAAGTTCATCCCTTAAATAAG
* * * * *
418306 ACAAGCGTTGATTCTTGTAACAGTCTCCATTCTTTACA-GAATTAGGAACCAAAAACTCATTCCT
257 GCAAGCATTGATTCTCGTAACAGTCTCCATTCTTTTCATG-ATTAGGAACCAAAAACACATTCCT
*
418370 TTTATTAGGATA
321 TTCATTAGGATA
418382 TGTTAGGATC
Statistics
Matches: 4631, Mismatches: 851, Indels: 156
0.82 0.15 0.03
Matches are distributed among these distances:
472 121 0.03
473 168 0.04
474 813 0.18
475 1563 0.34
476 1771 0.38
477 188 0.04
478 7 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (475 bp):
TCTTCTAATAAGGATACACGATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
ATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTT
TTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAATCAAAGTTCATCCCTTAAATAAGGCAA
GCATTGATTCTCGTAACAGTCTCCATTCTTTTCATGATTAGGAACCAAAAACACATTCCTTTCAT
TAGGATACATGACATTGACACTTTGGTGTCGCAAGAAAAGCATTTCTTTCAACCATTTTTGATAG
AATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGG
ATTAGGCACCATAAACTTAG
Found at i:414746 original size:950 final size:949
Alignment explanation
Indices: 412348--418381 Score: 6907
Period size: 950 Copynumber: 6.3 Consensus size: 949
412338 TATTCCCCAT
* * *
412348 TCTTCTAATAAGGATACACGATATTGATGCATTGCTTTCATAAGAAAGGCTTTCTTCCCACCAAT
1 TCTTCTAATAAAGATACACGATATTGATGCTTTGCTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* * *
412413 TTTTGTAAAGTCTAAGTTTGTGCCTTATTTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * * *
412478 A-CTTGTGATTAGGCACTATAAACATATTCTCCTCATTAGGTTAAATGATATTGATGACTTTCTT
131 ATTTTGTGATTAGGCACTATAAACACATTCTCCT-ATTAGGATAAATGATATTGATGATTTTCTT
* * * *
412542 TTACATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCATAAATAAGGCA
195 TTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATATGACA
** * * * * * * *
412607 AGTATTCAATCTCATAACAGTCT-CATTTCTTTTCATGG-CTGGGAA-CTAAAACAAAATCCTTT
260 AGCGTTGATTCTCATAACAGTCTCCA-TTCTTTTCA-GGATTAGGAACCAAAAACACATTCCTTT
* * * * * *
412669 CATTATGATACATAACATTAACGCTTTGGTGTTGCAAGAAAAGCTTTGCTCTTC-ACCATTTTTG
323 CATTAGGATACATGACATTGACACATTGGTGTCGCAAGAAAAGCTTT-CT-TTCAACCATTTTTG
* * * * *
412733 ATAGAATCAAAGTTTGTCTCTTAAACAAGACAAA-ATAAATAGCCATACTAATCCACATTCATTT
386 ATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTT
* * *
412797 CAGGATTAGGCACCAT-AACTTAGTCTTCTAATAAGGATACAAGATATTGAAGCATTGGTTTTGT
451 CAGGATTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGATATTGAAGCTTTGGTTTCGT
* * * * * *
412861 AAGAAAGGTTTTTTTTCCACCAATTTTTGTAAAGTCTAAGTCCGTGCCTCAATTATGACAAACAT
516 AAGAAAGGCTTTCTTTCCACCAATTTTTGTATAGTCTAAGTTCGTGCCTCAATTGTGATAAACAT
* * * *
412926 GGATTCTAGAAATGATCTTCATTCACTTTGTGATTAGGCACTACAAATATATTCTCCTCTTTAGG
581 GGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACATATTCTCCTCATTAGG
* * * * * *
412991 TTAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCATATTTTCCATAAATTC
646 ATAAATGATATTGATGATTTTCTTTTGCATAGAAATCATTTCTTTGCCCTATTTTCCTTAAAATC
* * * * * * *
413056 AAAGTTCATTCCATAAATAAGGGAAGCATTGATTCTTGTAACAGTCTCCATTCTTTTCATGAGTG
711 AAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTCTTTTCATGATTA
* * * * *
413121 GGAACCAAAAATACATTCCTTTCATTAGGATACGTGACATTGACATTTTGCG-GTCGCAAGAAAA
776 GGAACCAAAAACACATTCCTTTCAATAGGATACATGACATTGACACTTTG-GTGTCGCAATAAAA
* * ** * * *
413185 GCATTTGTTTTAGCCATTTTTGATAGAATTGAAGTCTGTCACTTAAATAAGACAAACATGAATTG
840 GCATTTCTTTTAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAG
* * *
413250 TCATACTAATCCCCATTCTTTTCAGAATCAGGCACCATAAGCTTAG
905 TCATACTAAT-CCCATTCTTTTCAGGATTAGGCACCATAAACTTAG
* * * ** *
413296 TCTTCTCATAAGGTTACACGATATTGATGCTTTTG-TTTCGTAAGAAAGGCTTTCTTCCTGCTAA
1 TCTTCTAATAAAGATACACGATATTGATGC-TTTGCTTTCGTAAGAAAGGCTTTCTTCCCACCAA
* ** * *
413360 TTTTTGTAAAGTCTATGTTCGCACCGCAATTGTGACAAACATGGATTCTAGTAATGATCTTTATT
65 TTTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATT
* * *
413425 CATTTTGTGATTAGGCACTATAAACACATTATCTTCATTAGGATAAATAATATTGATGATTTTCT
130 CATTTTGTGATTAGGCACTATAAACACATTCTCCT-ATTAGGATAAATGATATTGATGATTTTCT
* * * * * *
413490 TTTGCATGTAAATCTTTTCTTTACCGTATTTTCCTTAAAATCAAGGTTCATCCCATAAAAAATG-
194 TTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCC-TTAAATATGA
* * * * * * *
413554 CAAGCGTTGATTATCATAACTGTTTCCATTCTATTCATGATTAGGAACTAGAAACACATTCCTTT
258 CAAGCGTTGATTCTCATAACAGTCTCCATTCTTTTCAGGATTAGGAACCAAAAACACATTCCTTT
* * * *
413619 CATTAGGATACATGACATTGACACTTTGGTGT-ACAAGAAAAGCATATCTTTCAACCATTTTTAA
323 CATTAGGATACATGACATTGACACATTGGTGTCGCAAGAAAAGC-TTTCTTTCAACCATTTTTGA
* * ** *
413683 GAAAATCAAAGTTTGTCTCACAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTT
387 TAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTC
* * *
413748 AGGATTAGGCACCAAAAACTTAGTCTTCTAATAAGGATACACGATATTGAAGCATTGGTTTCGGA
452 AGGATTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGATATTGAAGCTTTGGTTTCGTA
* * * *
413813 AGAAAGGCTTTCTTTCCACCAATTTATGTA-ATGCCTAAATTCATGCCTCAATTGTGATAAACAT
517 AGAAAGGCTTTCTTTCCACCAATTTTTGTATA-GTCTAAGTTCGTGCCTCAATTGTGATAAACAT
* * * * * * * *
413877 AGATTCTAGTAATGATCTTCAATCATTTTGTGATTAGGTACTATAAATACATTATACTCATTAGG
581 GGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACATATTCTCCTCATTAGG
*
413942 ATAAATGATATTGATGATTTTCTTTTGCAT-GAAAATC-TTTTTGTTGCCCTATTTTCCTTAAAA
646 ATAAATGATATTGATGATTTTCTTTTGCATAG-AAATCATTTCT-TTGCCCTATTTTCCTTAAAA
* * * * *
414005 TCGAGGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAGTTTCCATTCTATTCATGAT
709 TCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTCTTTTCATGAT
* * * *
414070 TAGGAATCAAAAACACATTCCATTCATTAGGATACATGACATTAACACTTTGGTGTC-C-ATGAA
774 TAGGAACCAAAAACACATTCCTTTCAATAGGATACATGACATTGACACTTTGGTGTCGCAAT-AA
* * *
414133 AAGCATTTCTTTCAACCATTTTTGATAAAATCAAAGTTTGTCTCTTAAATAAGACAAACATAAAT
838 AAGCATTTCTTTTAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAAT
** * *
414198 AGTCATACTAATCTTTATTCCTTTCAGGATTAGGCACCAAAAACTTAG
903 AGTCATACTAATC-CCATTCTTTTCAGGATTAGGCACCATAAACTTAG
* * * * ** *
414246 TCTTCTAATAAAGATACATGATATTGAAGCATTGCTTTCGTAAAAAAGGCTTTCTTTGCACTAAT
1 TCTTCTAATAAAGATACACGATATTGATGCTTTGCTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* * * * *
414311 TTTT-TAAAGCCTAAGTTCATGCCTCAGTTGTGACAAATATAGATTCTAGTAATGATCTTCATTC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* * * * * * * *
414375 CTTTTATGGTTCGGCACTATAAACACATTCTCCATATTACGAAAAATGTTATTGATGATTTTATT
131 ATTTTGTGATTAGGCACTATAAACACATTCTCC-TATTAGGATAAATGATATTGATGATTTTCTT
* * * * * * * *
414440 TTGCGTGGAATTTTTTTCTTTACCCTACTTTCCTTAAAATCAAAATTCATCCCTTAAATTTGATA
195 TTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATATGACA
* * * * * *
414505 AGCGTTGATTCTCGTAATAGTCTCTATTCTTTTCCGGATTGGGAACCAATAACACATT-CTCTTC
260 AGCGTTGATTCTCATAACAGTCTCCATTCTTTTCAGGATTAGGAACCAAAAACACATTCCT-TTC
* * * ** * * *
414569 AGTT-GGATACATGACAATGATACCTTGGTGTCATAAGAAAAGCTTCTCTCTCCACCATTTTTGC
324 A-TTAGGATACATGACATTGACACATTGGTGTCGCAAGAAAAGCTT-TCTTTCAACCATTTTTGA
* * * * * *
414633 TATAATCAAAGCTTGTCTCCTAAATAAGACCAACTTGAATAGTCATACTGATCCCCATTCTTTTC
387 TAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTC
* * * * * * * *
414698 AGAATTAGGCAGCATAAACATAGTCTTCTCATAAGGATACATGATATTGATGCTTTTGTTTCATA
452 AGGATTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGATATTGAAGCTTTGGTTTCGTA
* * ** * * *
414763 AGAAAGGCTTT-TTTCCCACCAATTTTTGTAAATTCTAAGTTCGCACCCCAATTGTCACAAACAT
517 AGAAAGGCTTTCTTT-CCACCAATTTTTGTATAGTCTAAGTTCGTGCCTCAATTGTGATAAACAT
* * * * * *
414827 GGATTCTAGTAACGATCTGCATTCACTTTGCGATTAAGCAATATAAACATATTTTCCTCATTAGG
581 GGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACATATTCTCCTCATTAGG
* * *
414892 ATAAATGATATTGGTGATTTTCTTTTGCATGGAAAAT-TTTTCTTTGCCCTATTTTCCTTAAAAT
646 ATAAATGATATTGATGATTTTCTTTTGCATAG-AAATCATTTCTTTGCCCTATTTTCCTTAAAAT
* * * * * * * *
414956 CAAGGTTAATCCCTTAAGTAAAGCAAGCATTAATTCTCGCAACAACCTCTATTCTTTTCATGATT
710 CAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTCTTTTCATGATT
* * ** * * * *
415021 GGGAACCAAAAACACATTCCTTTCATTAAAATACATGACATTGACGCTTTGGGGTCACAATAAAT
775 AGGAACCAAAAACACATTCCTTTCAATAGGATACATGACATTGACACTTTGGTGTCGCAATAAAA
* * * * * *
415086 GCTTTTCTTTTAGCCATTTTTTATAGAATTAAAGTTTGTCTATTACATAAGACAAACATGAATAG
840 GCATTTCTTTTAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAG
* * * *
415151 TTATACTAATCCCCA-TCCTTTCTAGGTTTATGCACCATAAACTTAG
905 TCATACTAAT-CCCATTCTTTTC-AGGATTAGGCACCATAAACTTAG
* * * * * *
415197 TCTTCTATTAAGGATACACGATATTGATTCTTTGGTTTTGTAAGAAAGGCTTTCTTCCCACCATT
1 TCTTCTAATAAAGATACACGATATTGATGCTTTGCTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
* * * * *
415262 TTTTGTAAAATCTAAGTTCGTGGCTGAATTGGGACAAACATGGATTCCAGTAATGATCTTCATTC
66 TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
* ** *
415327 ATTTTGTGATTAGGCACTATAAACACATTTTCCCCGTTAGGAT-AATGATATTGGTGATTTTCTT
131 ATTTTGTGATTAGGCACTATAAACACATTCT-CCTATTAGGATAAATGATATTGATGATTTTCTT
* * * * * * * *
415391 TTTCATGGAAATCTTTTCTTTGCCCTATTTTACTTAAAATTAATGTT-GTCCCCATAAAAAAGAC
195 TTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCAT-CCCTTAAATATGAC
** * * * *
415455 AAGTATTGATTCTCATAACAATCTCCATTCTTTTCATGACTAGGAACCAAAAACACATTCCTTTT
259 AAGCGTTGATTCTCATAACAGTCTCCATTCTTTTCAGGATTAGGAACCAAAAACACATTCCTTTC
* * * * *
415520 GTTAGGATACATGACATTGACGCATTGGTGTCGCATGAAAAGCATTTTTTTCAACCGTTTTTGAT
324 ATTAGGATACATGACATTGACACATTGGTGTCGCAAGAAAAGC-TTTCTTTCAACCATTTTTGAT
* * *
415585 AGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGACTAGTCATACTAATCTCCATTCTTTTCA
388 AGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCA
* * * *
415650 GGATTGGGCACCATAAACTTAGTC-TCTTATAAGAATACACGATATTGATGCTTTGGTTTCGTAA
453 GGATTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGATATTGAAGCTTTGGTTTCGTAA
* * * * * * * *
415714 GGAAA-TCTTTCTTCCCACTAATTTTTGTGTAGTCTAAGTTCATGCCTCATTTGTGAGAAACATC
518 -GAAAGGCTTTCTTTCCACCAATTTTTGTATAGTCTAAGTTCGTGCCTCAATTGTGATAAACATG
* * *
415778 GATTGTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAATATATGCTCCTCATTAGGA
582 GATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACATATTCTCCTCATTAGGA
* * *
415843 TAAATAATATTGATGATTTTCTTTTGTATAGAAATCATTTCTTTGCCCTATTTTCCTTTAAATCA
647 TAAATGATATTGATGATTTTCTTTTGCATAGAAATCATTTCTTTGCCCTATTTTCCTTAAAATCA
* * *
415908 AAGTTCATCCCTTAAATAAGGCAAGCATTAATTCTCATATCAATCTCCATTCTTTTCATGATCT-
712 AAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTCTTTTCATGAT-TA
* * * *
415972 GGAACCAAAAATACATTCCTTTCAATAGGATACATGACATTGACACTTTGGAGTTGTAATAAAAG
776 GGAACCAAAAACACATTCCTTTCAATAGGATACATGACATTGACACTTTGGTGTCGCAATAAAAG
* * ** * *
416037 CATTTCATTTAATCGCTCTTGATAGAATCAAAGTTTGTCTTTTAAATAAGACAAACATGAATAGT
841 CATTTCTTTTAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGT
* * *
416102 CATTCTAATCCCATTCTTTTTAGCATTAGGCACCATAAACTTAG
906 CATACTAATCCCATTCTTTTCAGGATTAGGCACCATAAACTTAG
* * * * *
416146 TCTTCTAATAAATGATACATGATATTGAAGCTTTGGTTTCGCAAGAAAGGTTTTCTTCCCACCAA
1 TCTTCTAATAAA-GATACACGATATTGATGCTTTGCTTTCGTAAGAAAGGCTTTCTTCCCACCAA
* * *
416211 TTTTTGTAAAGTCTAAGTTCATGCCTCAATTAG-GACAAACATGGAATCTGGTAATGATCTTCAT
65 TTTTTGTAAAGTCTAAGTTCGTGCCTCAATT-GTGACAAACATGGATTCTAGTAATGATCTTCAT
* *
416275 TCATTTTGTGATTAGGCACTATAAACACAATTTATCCT-TTAGGATAAATGATATTGGTGATTTT
129 TCATTTTGTGATTAGGCACTATAAACAC-A-TTCTCCTATTAGGATAAATGATATTGATGATTTT
* * * * * * *
416339 CTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTACTTAAAATTAATGTTTATCCGTTAAAAAAG
192 CTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATATG
* ** * * * *
416404 CCAAGCACTGATTCTCATAATAGTCTCTATTCTTTTCATGATTAGGAACCAAAAACACATTCTTT
257 ACAAGCGTTGATTCTCATAACAGTCTCCATTCTTTTCAGGATTAGGAACCAAAAACACATTCCTT
* * *
416469 TCATTAGGATATATGACATTGACGCATTAGTGTCGCAAGAAAAGCATTTCTTTCAACCATTTTTG
322 TCATTAGGATACATGACATTGACACATTGGTGTCGCAAGAAAAGC-TTTCTTTCAACCATTTTTG
* * *
416534 -CAGAATCAAAGTTTGTCTCTTAAATAAGAGAAACATAAATAGTCATACTAATCCCCATTCTTTT
386 ATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTT
* *
416598 CAGGATTAGGCACCATAAACTTAGTCTTCTTATAAGGATACACGATATTGATGCTTTGGTTTCGT
451 CAGGATTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGATATTGAAGCTTTGGTTTCGT
* * * * * * * *
416663 GAA-AAAGTCTTTC-CTCCAACCAATTATTGTATAGTCCAAGTTTGTGCCCCATTTCTG-TCAAA
516 -AAGAAAGGCTTTCTTTCC-ACCAATTTTTGTATAGTCTAAGTTCGTGCCTCAATTGTGAT-AAA
* * * * *
416725 CATTGATTGTAGTAATGATCTTCATTTACTTTGTGATTAGGTACTATAAACATATTCTTCTCATT
578 CATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACATATTCTCCTCATT
* * * * * *
416790 AGGATAAACGATATTGAAGATTTTTTTTTTGCATAGAAATCATTTCTTTGCCTTATTTTTCTTTA
643 AGGATAAATGATATTGATGA-TTTTCTTTTGCATAGAAATCATTTCTTTGCCCTATTTTCCTTAA
* *
416855 AATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTACCAATCTCCATTCTTTTCCTG
707 AATCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTCTTTTCATG
* *
416920 A-TCGAGAACCAAAAACACATTCCTTTCAATAGGATACATGACATTGACGCTTTGGTGTCGCAAT
772 ATTAG-GAACCAAAAACACATTCCTTTCAATAGGATACATGACATTGACACTTTGGTGTCGCAAT
* * * * *
416984 GAAAGCATTTCTTTCAATCGA-TTTTGATGGAATCAAAGTTTGTCTTTTAAATAAGACAAACATG
836 AAAAGCATTTCTTTTAA-CCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
* * * * *
417048 AAAAGTCATTCTCATCCCATTCTTTTTAGGATTAGGCACCCTAAACTTAG
900 AATAGTCATACTAATCCCATTCTTTTCAGGATTAGGCACCATAAACTTAG
* * * **
417098 TCTTCTAATAAATGATACATGATATTGATGCTTTGCTTTTGTAAGAAAGGTTTTCTTCCTGCCAA
1 TCTTCTAATAAA-GATACACGATATTGATGCTTTGCTTTCGTAAGAAAGGCTTTCTTCCCACCAA
* * ** * * * *
417163 TTTTTGTAAAGTCTAAGTTCCTACCTCGAA-TAAGACAGACATGAATTCT-GGAATTGATATTCA
65 TTTTTGTAAAGTCTAAGTTCGTGCCTC-AATTGTGACAAACATGGATTCTAGTAA-TGATCTTCA
* * * * *
417226 TTCATTTTGTGATTAGGCACTGTAAACACATTCT-CTATCATGATAAAGGTTATTGATGATTTTC
128 TTCATTTTGTGATTAGGCACTATAAACACATTCTCCTATTAGGATAAATGATATTGATGATTTTC
* * ** * * * * * *
417290 TTTTGCATGGACATTTTTTCTTCACCCT-TGTTTTCTTAGAATCAAATTTCATCTCTTATATTTG
193 TTTTGCATGGAAATCTTTTCTTTGCCCTAT-TTTCCTTAAAATCAAAGTTCATCCCTTAAATATG
** * * *
417354 ACAAGCGTTGATTCTTGTAACAGTCTCCATTCTTTACTGGATTAGGAACCAAAAACTCATTCCTT
257 ACAAGCGTTGATTCTCATAACAGTCTCCATTCTTTTCAGGATTAGGAACCAAAAACACATTCCTT
* * ** * * * * *
417419 TTATTAGGATATATGACATTGATGCTTTAGTGTCGCATGGAAAGCTTTTCTTTCCACCATTTTTG
322 TCATTAGGATACATGACATTGACACATTGGTGTCGCAAGAAAAGC-TTTCTTTCAACCATTTTTG
* * * *
417484 GTAGAATCAAAGTTTGTCTCTTAAATAAGATAAACATGAATAGTCACACTAATCCCCACTCTTTT
386 ATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTT
** * * * *
417549 CAGGGCTAGGCACCATAAACTTTGTCTTTTCATAAGGATACACGATATT-AATGCTTTGGTTTAG
451 CAGGATTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGATATTGAA-GCTTTGGTTTCG
* * *
417613 TAAGAAAGTCTTTC-TTCTGACCAATTTTTGTATAGTCTAAGTTCGTGCCTCATTTGTGATAAAC
515 TAAGAAAGGCTTTCTTTC-CACCAATTTTTGTATAGTCTAAGTTCGTGCCTCAATTGTGATAAAC
* *
417677 ATTGATTATAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACATATTCTCCTCATTA
579 ATGGATTCTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACATATTCTCCTCATTA
* ** *
417742 GGATAAATGATATTGATGATTTTCTTTTACATAGAAATCATTTCTTTGCCCTATTTTTGTTTAAA
644 GGATAAATGATATTGATGATTTTCTTTTGCATAGAAATCATTTCTTTGCCCTATTTTCCTTAAAA
* * *
417807 TCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCAT-ACTAGTGTCCATTCTTTTCATGA
709 TCAAAGTTCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAAC-AATCTCCATTCTTTTCATGA
* * * ** * * *
417871 ATAGGAACTAAAAACACTTTATTTTCAATAGGATACATGACAATAACGCTTTGGTGTCGCAATAA
773 TTAGGAACCAAAAACACATTCCTTTCAATAGGATACATGACATTGACACTTTGGTGTCGCAATAA
* * * * *
417936 AAGCATTTCTTTTAATCGTTTTTGATAGAATCATAGCTTGTCTCCTAAATAAGACAAACATGAAT
838 AAGCATTTCTTTTAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAAT
* *
418001 AGTTATACTAATCTCATTCTTTTCAGGATTAGGCACCATAAACTTAG
903 AGTCATACTAATCCCATTCTTTTCAGGATTAGGCACCATAAACTTAG
* *
418048 TCTTCTAATAAATGATACACGATATTGATGCTTTGTTTTCGTAAGAAAGGCTTTCTGCCCACCAA
1 TCTTCTAATAAA-GATACACGATATTGATGCTTTGCTTTCGTAAGAAAGGCTTTCTTCCCACCAA
* * * * * *
418113 TTTTTGTAAAGTCTAAGTTCTTGCCTCGAA-TGAGACAGACATGAATTCGAGTATTGATCTTCAT
65 TTTTTGTAAAGTCTAAGTTCGTGCCTC-AATTGTGACAAACATGGATTCTAGTAATGATCTTCAT
** * * * * * * *
418177 TCATTTTGAAATTAGGTACTATAAACACATTCTCCATATCACGATAAAGGTTATTAATTATTTTC
129 TCATTTTGTGATTAGGCACTATAAACACATTCTCC-TATTAGGATAAATGATATTGATGATTTTC
* * * *** * * * *
418242 TTTTGTATGGATATTTTTTCTTTGTTGTTTTTTCCTTGAAATCAAATTTCATCCCTTAAATTTGA
193 TTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATATGA
** * * *
418307 CAAGCGTTGATTCTTGTAACAGTCTCCATTCTTTACAGAATTAGGAACCAAAAACTCATTCCTTT
258 CAAGCGTTGATTCTCATAACAGTCTCCATTCTTTTCAGGATTAGGAACCAAAAACACATTCCTTT
*
418372 TATTAGGATA
323 CATTAGGATA
418382 TGTTAGGATC
Statistics
Matches: 4342, Mismatches: 670, Indels: 144
0.84 0.13 0.03
Matches are distributed among these distances:
948 124 0.03
949 460 0.11
950 1806 0.42
951 1311 0.30
952 636 0.15
953 5 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (949 bp):
TCTTCTAATAAAGATACACGATATTGATGCTTTGCTTTCGTAAGAAAGGCTTTCTTCCCACCAAT
TTTTGTAAAGTCTAAGTTCGTGCCTCAATTGTGACAAACATGGATTCTAGTAATGATCTTCATTC
ATTTTGTGATTAGGCACTATAAACACATTCTCCTATTAGGATAAATGATATTGATGATTTTCTTT
TGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATATGACAA
GCGTTGATTCTCATAACAGTCTCCATTCTTTTCAGGATTAGGAACCAAAAACACATTCCTTTCAT
TAGGATACATGACATTGACACATTGGTGTCGCAAGAAAAGCTTTCTTTCAACCATTTTTGATAGA
ATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATACTAATCCCCATTCTTTTCAGGA
TTAGGCACCATAAACTTAGTCTTCTAATAAGGATACACGATATTGAAGCTTTGGTTTCGTAAGAA
AGGCTTTCTTTCCACCAATTTTTGTATAGTCTAAGTTCGTGCCTCAATTGTGATAAACATGGATT
CTAGTAATGATCTTCATTCACTTTGTGATTAGGCACTATAAACATATTCTCCTCATTAGGATAAA
TGATATTGATGATTTTCTTTTGCATAGAAATCATTTCTTTGCCCTATTTTCCTTAAAATCAAAGT
TCATCCCTTAAATAAGGCAAGCATTGATTCTCGTAACAATCTCCATTCTTTTCATGATTAGGAAC
CAAAAACACATTCCTTTCAATAGGATACATGACATTGACACTTTGGTGTCGCAATAAAAGCATTT
CTTTTAACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAATAGTCATAC
TAATCCCATTCTTTTCAGGATTAGGCACCATAAACTTAG
Found at i:418712 original size:13 final size:13
Alignment explanation
Indices: 418694--418718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
418684 AGCTTGCACA
418694 GTATCGATACATT
1 GTATCGATACATT
418707 GTATCGATACAT
1 GTATCGATACAT
418719 GACAAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:418835 original size:20 final size:20
Alignment explanation
Indices: 418792--418843 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
418782 TAGCCAAATT
*
418792 TGTATCGATACA-CACAATA
1 TGTATCGATACATCACAAAA
*
418811 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
418831 TGTATCGATACAT
1 TGTATCGATACAT
418844 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Done.