Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008270.1 Hibiscus syriacus cultivar Beakdansim tig00110927_pilon, whole genome shotgun sequence
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: 726180
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:808 original size:19 final size:18
Alignment explanation
Indices: 761--801 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
751 TGATTAAATA
761 TTTAATAAAATTTTATTT
1 TTTAATAAAATTTTATTT
779 TTTAAATTAAAATATTTATTT
1 TTT-AA-TAAAAT-TTTATTT
800 TT
1 TT
802 ACATAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 3 0.15
19 2 0.10
20 6 0.30
21 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATAAAATTTTATTT
Found at i:813 original size:24 final size:21
Alignment explanation
Indices: 766--816 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 21
756 AAATATTTAA
*
766 TAAAAT-TTTATTTTTTAAAT
1 TAAAATATTTATTTTTTAAAC
786 TAAAATATTTATTTTTACATAAAC
1 TAAAATATTTATTTTT---TAAAC
810 TAAAATA
1 TAAAATA
817 CTATTAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
24 11 0.42
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAAATATTTATTTTTTAAAC
Found at i:8586 original size:25 final size:25
Alignment explanation
Indices: 8558--8616 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
8548 GCAAGGTACA
8558 GGTTATATTTGTAAATATGTACCAG
1 GGTTATATTTGTAAATATGTACCAG
* * *
8583 GGTTATATTTGTAACTATGTATCAT
1 GGTTATATTTGTAAATATGTACCAG
8608 GGTT-TATTT
1 GGTTATATTT
8617 ATTATAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (25 bp):
GGTTATATTTGTAAATATGTACCAG
Found at i:9263 original size:3 final size:3
Alignment explanation
Indices: 9255--9327 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
9245 CGTCCCACCT
9255 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
9303 CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC C
9328 CCTAAAATCG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Found at i:17098 original size:81 final size:81
Alignment explanation
Indices: 16958--17113 Score: 267
Period size: 81 Copynumber: 1.9 Consensus size: 81
16948 GTCTCTTGCA
* * *
16958 CAACTGGCTCAGTAGCTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTG
1 CAACCGGCTCAATAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTG
17023 CGAACCATTCTCGGTG
66 CGAACCATTCTCGGTG
* *
17039 CAACCGGCTCAATAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTTGCTCCGCCATTTCGTGTG
1 CAACCGGCTCAATAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTG
17104 CGAACCATTC
66 CGAACCATTC
17114 CTTGTAACTC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.17, C:0.32, G:0.21, T:0.29
Consensus pattern (81 bp):
CAACCGGCTCAATAACTTCCTGCTCTACACCTCTGTGAGAGCTTGTCGATCCGCCATTTCGTGTG
CGAACCATTCTCGGTG
Found at i:17290 original size:55 final size:54
Alignment explanation
Indices: 17231--17531 Score: 284
Period size: 55 Copynumber: 5.5 Consensus size: 54
17221 TAGAATTAAC
*
17231 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAA-T
* **
17286 GATTGAGCACCTCTGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAATAAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAG---CCA-AAAT
* * ** * * * * * *
17344 GACTGAGCACCTCTATGCTTCAGCCGGGTGCTGACACCTCTGTGTAGCTAAGAC
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAAT
*
17398 GATTCAGCACCTCTGTGCTTCAATCGAG-GACTGACACCTCTGTGCAGCCAAATAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAG-CTGACACCTCTGTGCAGCCAAA-AT
* * * * ****
17453 GACTGAGCACCTCTGTGCTTCAATCTAAATTCTGGA-ACCTCTGTGCA-TTGGAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGA-GCT-GACACCTCTGTGCAGCCAAAAT
*
17507 GATTGAGCACCTCTGTGCTACAATC
1 GATTGAGCACCTCTGTGCTTCAATC
17532 TAAAATCAAG
Statistics
Matches: 200, Mismatches: 37, Indels: 19
0.78 0.14 0.07
Matches are distributed among these distances:
53 1 0.00
54 68 0.34
55 72 0.36
56 13 0.06
57 2 0.01
58 41 0.20
59 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (54 bp):
GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAAT
Found at i:17435 original size:27 final size:28
Alignment explanation
Indices: 17234--17477 Score: 111
Period size: 27 Copynumber: 8.8 Consensus size: 28
17224 AATTAACGAT
17234 TGAGCACCTCTGTGCTTCAATCGA-GAGC
1 TGAGCACCTCTGTGCTTCAATCGAGGA-C
* * *
17262 TGA-CACCTCTGTG-TAGCCAA--AAGTGAT
1 TGAGCACCTCTGTGCT--TCAATCGAG-GAC
*
17289 TGAGCACCTCTGTGCTTCAATCGAGAAC
1 TGAGCACCTCTGTGCTTCAATCGAGGAC
* ** *
17317 TGA-CACCTCTGTGCAGTTAAAATAAATGAC
1 TGAGCACCTCTGTGC--TT-CAATCGAGGAC
* ** *
17347 TGAGCACCTCTATGCTTCAGCCG-GGTGC
1 TGAGCACCTCTGTGCTTCAATCGAGG-AC
* * *
17375 TGA-CACCTCTGTG-TAGCTAA--GACGAT
1 TGAGCACCTCTGTGCT-TC-AATCGAGGAC
*
17401 TCAGCACCTCTGTGCTTCAATCGAGGAC
1 TGAGCACCTCTGTGCTTCAATCGAGGAC
** *
17429 TGA-CACCTCTGTGCAGCCAAAT--ATGAC
1 TGAGCACCTCTGTGC-TTC-AATCGAGGAC
17456 TGAGCACCTCTGTGCTTCAATC
1 TGAGCACCTCTGTGCTTCAATC
17478 TAAATTCTGG
Statistics
Matches: 156, Mismatches: 36, Indels: 49
0.65 0.15 0.20
Matches are distributed among these distances:
26 11 0.07
27 69 0.44
28 47 0.30
29 10 0.06
30 9 0.06
31 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (28 bp):
TGAGCACCTCTGTGCTTCAATCGAGGAC
Found at i:17531 original size:109 final size:111
Alignment explanation
Indices: 17234--17531 Score: 293
Period size: 112 Copynumber: 2.7 Consensus size: 111
17224 AATTAACGAT
* * * * * * *
17234 TGAGCACCTCTGTGCTTCAATCGAGA-GCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCT
1 TGAGCACCTCTATGCTTC-AGCCAAATGCTGACACCTCTGTGCAGCTAAGA-TGATTGAGCACCT
*
17298 CTGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAATAAATGAC
64 CTGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTCAAAAT-AATGAC
*** * * *
17347 TGAGCACCTCTATGCTTCAGCCGGGTGCTGACACCTCTGTGTAGCTAAGACGATTCAGCACCTCT
1 TGAGCACCTCTATGCTTCAGCCAAATGCTGACACCTCTGTGCAGCTAAGATGATTGAGCACCTCT
* *
17412 GTGCTTCAATCGAGGACTGACACCTCTGTGCAG-CCAAAT-ATGAC
66 GTGCTTCAATCGAGAACTGACACCTCTGTGCAGTCAAAATAATGAC
* * * * **
17456 TGAGCACCTCTGTGCTTCAATCTAAATTCTGGA-ACCTCTGTGCA--TTGGAATGATTGAGCACC
1 TGAGCACCTCTATGCTTC-AGCCAAATGCT-GACACCTCTGTGCAGCTAAG-ATGATTGAGCACC
*
17518 TCTGTGCTACAATC
63 TCTGTGCTTCAATC
17532 TAAAATCAAG
Statistics
Matches: 156, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
108 2 0.01
109 46 0.29
110 15 0.10
111 6 0.04
112 48 0.31
113 39 0.25
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (111 bp):
TGAGCACCTCTATGCTTCAGCCAAATGCTGACACCTCTGTGCAGCTAAGATGATTGAGCACCTCT
GTGCTTCAATCGAGAACTGACACCTCTGTGCAGTCAAAATAATGAC
Found at i:18263 original size:23 final size:23
Alignment explanation
Indices: 18245--18303 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
18235 CTCGTATAAA
18245 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
18268 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
18290 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
18304 ATATAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:18645 original size:29 final size:29
Alignment explanation
Indices: 18575--18646 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
18565 TTTTCTGCAT
* * *
18575 ATTCATGTCATGCAATACATATCATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
18604 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
18633 ATTCATGTCATGTA
1 ATTCATGTCATGTA
18647 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:19095 original size:66 final size:67
Alignment explanation
Indices: 18948--19097 Score: 221
Period size: 67 Copynumber: 2.2 Consensus size: 67
18938 TTTTTCTCAT
* *
18948 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
19013 TGA
65 TGA
** * * *
19016 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTTGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
19080 GA
66 GA
19082 GGGGGTATCGGTTCCC
1 GGGGGTATCGGTTCCC
19098 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
66 22 0.29
67 41 0.55
68 12 0.16
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.29
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:21628 original size:13 final size:13
Alignment explanation
Indices: 21610--21672 Score: 74
Period size: 13 Copynumber: 4.8 Consensus size: 13
21600 TGACGTGCAT
21610 TGAGCGTCATAAA
1 TGAGCGTCATAAA
21623 TGAGCGTCATAAA
1 TGAGCGTCATAAA
* *
21636 TGTGTGTCATAAA
1 TGAGCGTCATAAA
* *
21649 TGCGTGTCATAAA
1 TGAGCGTCATAAA
21662 T-ACGCGTCATA
1 TGA-GCGTCATA
21673 GATTTATGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (13 bp):
TGAGCGTCATAAA
Found at i:21918 original size:28 final size:28
Alignment explanation
Indices: 21885--21953 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
21875 CTTTGTTTAT
*
21885 ATTATGTCGTCAAACCAGTGCTTTAAAC
1 ATTATGTCGTCAAACAAGTGCTTTAAAC
**
21913 ATTATGTCGTCAAGTAAGTGCTTTAAAC
1 ATTATGTCGTCAAACAAGTGCTTTAAAC
* *
21941 ATTACGTCATCAA
1 ATTATGTCGTCAA
21954 GCCAATGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (28 bp):
ATTATGTCGTCAAACAAGTGCTTTAAAC
Found at i:27087 original size:2 final size:2
Alignment explanation
Indices: 27080--27111 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27070 AACTATCCAA
27080 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27112 TCTTTCCAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31210 original size:12 final size:11
Alignment explanation
Indices: 31185--31209 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31175 TAACCAGAAA
31185 TTTAATTTTTT
1 TTTAATTTTTT
31196 TTTAATTTTTT
1 TTTAATTTTTT
31207 TTT
1 TTT
31210 TTGCTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTAATTTTTT
Found at i:31416 original size:15 final size:15
Alignment explanation
Indices: 31396--31428 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
31386 TAAGAATTGG
31396 TATTATTT-TATTATT
1 TATTATTTAT-TTATT
31411 TATTATTTATTTATT
1 TATTATTTATTTATT
31426 TAT
1 TAT
31429 GTTTTGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTATTTATTTATT
Found at i:36619 original size:3 final size:3
Alignment explanation
Indices: 36611--36721 Score: 215
Period size: 3 Copynumber: 37.3 Consensus size: 3
36601 GATTAAAACT
36611 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36658 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36706 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
36722 GGCGTGCTCT
Statistics
Matches: 107, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 105 0.98
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:46692 original size:31 final size:29
Alignment explanation
Indices: 46655--46725 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 29
46645 GGATTTTCTA
* *
46655 AAAAAATTACCGAAAACATTCTTAGGTGCTT
1 AAAAAATGACCGAAAACATTATTA-G-GCTT
*
46686 AAAAAATGACCGTAAACATTATTAGGCTT
1 AAAAAATGACCGAAAACATTATTAGGCTT
46715 -AAAAATGACCG
1 AAAAAATGACCG
46726 GATTAACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.30
29 4 0.11
30 1 0.03
31 21 0.57
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.25
Consensus pattern (29 bp):
AAAAAATGACCGAAAACATTATTAGGCTT
Found at i:51492 original size:18 final size:18
Alignment explanation
Indices: 51452--51493 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
51442 TTTCAGTTCA
51452 GAATCAAAATTCGAATGC
1 GAATCAAAATTCGAATGC
* *
51470 CAATCAAAA-TCTGAATGT
1 GAATCAAAATTC-GAATGC
51488 GAATCA
1 GAATCA
51494 CTCGATAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (18 bp):
GAATCAAAATTCGAATGC
Found at i:54275 original size:20 final size:21
Alignment explanation
Indices: 54245--54289 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
54235 ATCAGACCCT
54245 AATCTTAAACCTTC-AATCCCA
1 AATCTTAAACC-TCAAATCCCA
*
54266 AATC-TAAACCTCAAATCTCA
1 AATCTTAAACCTCAAATCCCA
54286 AATC
1 AATC
54290 ATCAATGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 16 0.73
21 4 0.18
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (21 bp):
AATCTTAAACCTCAAATCCCA
Found at i:55371 original size:20 final size:20
Alignment explanation
Indices: 55348--55417 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
55338 ACCCTATTTT
**
55348 AGTATCGATATTCTTGAATT
1 AGTATCGATATTCTTGAAGG
55368 AGTATCGATATTCTTGAAGG
1 AGTATCGATATTCTTGAAGG
55388 AGTATCGATATTCTTGAAGG
1 AGTATCGATATTCTTGAAGG
55408 AGTATCGATA
1 AGTATCGATA
55418 CTCAAGGTAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (20 bp):
AGTATCGATATTCTTGAAGG
Found at i:56233 original size:23 final size:23
Alignment explanation
Indices: 56207--56335 Score: 96
Period size: 23 Copynumber: 5.5 Consensus size: 23
56197 ACATATAATC
*
56207 GAACAATAAACGAACATGTTCAT
1 GAACAATAAATGAACATGTTCAT
** * **
56230 GAACGTTAAATGAACACGTTTGT
1 GAACAATAAATGAACATGTTCAT
* * * **
56253 GAACAATTAAACGAAAACTTTTGGT
1 GAACAA-TAAATGAACA-TGTTCAT
* * *
56278 GAACATATAAATTAACACGTTCAC
1 GAACA-ATAAATGAACATGTTCAT
*
56302 GAACATTAAATGAACATGTTCAT
1 GAACAATAAATGAACATGTTCAT
56325 GAACAATAAAT
1 GAACAATAAAT
56336 AAACGAACAC
Statistics
Matches: 77, Mismatches: 26, Indels: 6
0.71 0.24 0.06
Matches are distributed among these distances:
23 45 0.58
24 15 0.19
25 16 0.21
26 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (23 bp):
GAACAATAAATGAACATGTTCAT
Found at i:58334 original size:18 final size:18
Alignment explanation
Indices: 58313--58347 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
58303 TTTCTATTAT
58313 TATTATA-TATATATATGG
1 TATTATATTAT-TATATGG
58331 TATTATATTATTATATG
1 TATTATATTATTATATG
58348 TTTTATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
TATTATATTATTATATGG
Found at i:58517 original size:43 final size:43
Alignment explanation
Indices: 58470--58562 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
58460 TTTATTATGC
* * *
58470 TTTATTTATTTA-TTCTTTTC-TTTTTCCATTTATTTGTCTTATT
1 TTTATTTATTTATTTC-TTTCATTTTTACATTT-TTTATCATATT
*
58513 TTTATTTCTTTATTTCTTTCATTTTTACATTTTTTATCATATT
1 TTTATTTATTTATTTCTTTCATTTTTACATTTTTTATCATATT
*
58556 TTCATTT
1 TTTATTT
58563 GTCATACATC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
43 30 0.70
44 13 0.30
ACGTcount: A:0.16, C:0.12, G:0.01, T:0.71
Consensus pattern (43 bp):
TTTATTTATTTATTTCTTTCATTTTTACATTTTTTATCATATT
Found at i:69152 original size:12 final size:13
Alignment explanation
Indices: 69130--69158 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
69120 CTAAATTGAA
69130 AAAAGAAAAAGAG
1 AAAAGAAAAAGAG
69143 AAAA-AAAAAGAG
1 AAAAGAAAAAGAG
69155 AAAA
1 AAAA
69159 TAAGGTGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAGAG
Found at i:70081 original size:105 final size:105
Alignment explanation
Indices: 69899--70666 Score: 1286
Period size: 105 Copynumber: 7.3 Consensus size: 105
69889 GGTTTTACCT
69899 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
69964 CGAAGGGACCGCTGGTTGTCAATGAACATTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTC
*
70004 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
70069 CGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTC
*
70109 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
70174 CGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTC
* **
70214 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCATTA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
70279 CGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTC
**
70319 AGAGCCAATTTCTGCTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
70384 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTTAATTTC
66 CGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTC
*
70424 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
70489 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTT
66 CGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTC
* * * * *
70529 AGAGCCAATTTTAACTTCACACCGAAGGATGTTGGACTCGAGACAACGCAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
70594 CGAAGGGGCCGCTGGTTGTCAACAAACACTTTC-CAAGTTTT
66 CGAAGGGACCGCTGGTTGTCAACGAACA-TTTCTCAA-TTTC
* * * *
70635 AAAGTCAATTTCAACTTCACACCGAATGATAT
1 AGAGCCAATTTCAACTTCACAACGAAGGATAT
70667 CGGCCTTGAA
Statistics
Matches: 633, Mismatches: 28, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
105 598 0.94
106 35 0.06
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (105 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTTC
Found at i:72487 original size:8 final size:8
Alignment explanation
Indices: 72462--72501 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
72452 TTATTTCACC
72462 TATATGT-
1 TATATGTA
72469 TATAT-TA
1 TATATGTA
*
72476 TATATATA
1 TATATGTA
72484 TATATGTA
1 TATATGTA
72492 TATATGTA
1 TATATGTA
72500 TA
1 TA
72502 CATTTTGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 1 0.03
7 10 0.33
8 19 0.63
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (8 bp):
TATATGTA
Found at i:72744 original size:139 final size:138
Alignment explanation
Indices: 72569--72832 Score: 458
Period size: 139 Copynumber: 1.9 Consensus size: 138
72559 TTATTTTTTC
* *
72569 TATTATTATTATATATTTTTCTTCCCTCTTATATTTAGCTATTATATATATATGGTATTAATATT
1 TATTATTATTATATATTTTTCTTCCCTCTCATATTTAGCTATCATATATATATGGTATTAATATT
* *
72634 ATTATATGTTTTTATTAACTTTATTTGTTTTACTTTATACGCTATTATTTTACAATTTTTTTTAG
66 ATTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTTAC-ATTTTTTTTAG
72699 TTTTTCTAT
130 TTTTTCTAT
*
72708 TATTATTATATATATATTTTTC-TCCCTCTCATATTTAGCTATCATATATATATGGTATTGATAT
1 TATTATTAT-TATATATTTTTCTTCCCTCTCATATTTAGCTATCATATATATATGGTATTAATAT
72772 TATTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTTACATTTTTT
65 TATTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTTACATTTTTT
72833 ATACATATGT
Statistics
Matches: 119, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
138 7 0.06
139 100 0.84
140 12 0.10
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.59
Consensus pattern (138 bp):
TATTATTATTATATATTTTTCTTCCCTCTCATATTTAGCTATCATATATATATGGTATTAATATT
ATTATATGTTTTTATTAACTTTATTTATTTCACTTTATACGCTATTATTTTACATTTTTTTTAGT
TTTTCTAT
Found at i:73774 original size:2 final size:2
Alignment explanation
Indices: 73767--73793 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
73757 GGTAAAAATA
73767 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
73794 ATTTCTAAAT
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:76843 original size:22 final size:22
Alignment explanation
Indices: 76815--76856 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
76805 AACCTAGATC
76815 TAGGGTTTTCCTGTCA-ATAAGA
1 TAGGGTTTTCCT-TCACATAAGA
76837 TAGGGTTTTCCTTCACATAA
1 TAGGGTTTTCCTTCACATAA
76857 CACCTTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (22 bp):
TAGGGTTTTCCTTCACATAAGA
Found at i:77335 original size:19 final size:19
Alignment explanation
Indices: 77311--77353 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
77301 AAATATCCGA
*
77311 TATCCAGCTAGCACCGGAG
1 TATCCAACTAGCACCGGAG
* *
77330 TATCCAACTAGCATCGGGG
1 TATCCAACTAGCACCGGAG
77349 TATCC
1 TATCC
77354 TTCAAGAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (19 bp):
TATCCAACTAGCACCGGAG
Found at i:79470 original size:23 final size:23
Alignment explanation
Indices: 79440--79493 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
79430 GTGGAGTTAT
79440 GATGCTCTGCTGGTTCTAAGCTC
1 GATGCTCTGCTGGTTCTAAGCTC
79463 GATGCTCTGCTGGTTCTAAGCTC
1 GATGCTCTGCTGGTTCTAAGCTC
*
79486 GATCCTCT
1 GATGCTCT
79494 TGCTTATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.13, C:0.28, G:0.24, T:0.35
Consensus pattern (23 bp):
GATGCTCTGCTGGTTCTAAGCTC
Found at i:80297 original size:14 final size:14
Alignment explanation
Indices: 80268--80312 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
80258 CTTGGAGTCC
*
80268 CATATCTTCTTATCA
1 CATATC-TCATATCA
80283 CATATCTCATATCA
1 CATATCTCATATCA
80297 CATATCTCATATCA
1 CATATCTCATATCA
80311 CA
1 CA
80313 AGTTCTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 23 0.79
15 6 0.21
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (14 bp):
CATATCTCATATCA
Found at i:80997 original size:21 final size:22
Alignment explanation
Indices: 80958--81004 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
80948 ATTTCCCCTT
80958 TATCGATACCCTCCACATA-GG
1 TATCGATACCCTCCACATAGGG
*
80979 TATCGATACCTCTTC-CATAGGG
1 TATCGATACC-CTCCACATAGGG
81001 TATC
1 TATC
81005 AATATTGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (22 bp):
TATCGATACCCTCCACATAGGG
Found at i:82357 original size:12 final size:12
Alignment explanation
Indices: 82340--82387 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
82330 CCACGTCAGT
**
82340 GCTTTCATGAGC
1 GCTTTCATGCCC
82352 GCTTTCATGCCC
1 GCTTTCATGCCC
* *
82364 GCTTTCAGGCTC
1 GCTTTCATGCCC
82376 GCTTTCATGCCC
1 GCTTTCATGCCC
82388 ACTAGGTCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.10, C:0.35, G:0.21, T:0.33
Consensus pattern (12 bp):
GCTTTCATGCCC
Found at i:83687 original size:31 final size:31
Alignment explanation
Indices: 83651--83709 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
83641 AACTTAAAAG
* * *
83651 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATAATGAAATTTAAATAATTTT
83682 AGTTTTACAATAATGAAATTTAAATAAT
1 AGTTTTACAATAATGAAATTTAAATAAT
83710 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATAATGAAATTTAAATAATTTT
Found at i:83762 original size:22 final size:22
Alignment explanation
Indices: 83734--83776 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
83724 TAATAAATTA
83734 TTTAAAATAAATAAATCCATAT
1 TTTAAAATAAATAAATCCATAT
*
83756 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATAAATCCATA
83777 CTAATACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATAAATCCATAT
Found at i:83861 original size:18 final size:18
Alignment explanation
Indices: 83840--83897 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
83830 CTGTATTTTA
83840 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
83858 AAATAAAT-TAT--TTA-
1 AAATAAATCAATCCATAC
83872 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
*
83890 TAATAAAT
1 AAATAAAT
83898 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
17 4 0.13
18 15 0.48
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:83875 original size:32 final size:32
Alignment explanation
Indices: 83836--83977 Score: 178
Period size: 32 Copynumber: 4.8 Consensus size: 32
83826 CAATCTGTAT
83836 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
83868 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
83900 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
83922 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
83954 TTTAAAATAAATCAACCCATACAA
1 TTTAAAATAAATCAATCCATACAA
83978 CTACAATAAT
Statistics
Matches: 96, Mismatches: 4, Indels: 20
0.80 0.03 0.17
Matches are distributed among these distances:
22 16 0.17
23 2 0.02
24 1 0.01
26 3 0.03
28 3 0.03
30 1 0.01
31 2 0.02
32 68 0.71
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:83911 original size:166 final size:165
Alignment explanation
Indices: 83724--84216 Score: 682
Period size: 166 Copynumber: 3.0 Consensus size: 165
83714 ACAACTACAA
*
83724 TAATAAATTATTTAAAATAAATAAATCCATATTTTAAAATAAATCAATCCATACTAATACATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA-ATTAT
**
83789 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCTGTATTTTAAAATAAATCAATCC
65 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
83854 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
130 ATAAAAATAAATTATTTAAAATAAATCAATCCATAC
*
83890 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTAT
* * *
83955 TTAAAATAAATCAACCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCTATTC
65 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
84020 ATAAAAATAAATTATTTAAAATAAATCAATCCATAC
130 ATAAAAATAAATTATTTAAAATAAATCAATCCATAC
* * * * * *
84056 TAATAAATTATTTAAAATAAATCCATACA-A--CTACAAT-AATAAATCAAT-CT-AT-A-T-TT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTATT
*
84112 TAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT
66 TAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAAT
**
84176 CAATCCATATTAATAAATTATTTAAAATAAATCAATCCATA
124 CAATCCATAAAAATAAATTATTTAAAATAAATCAATCCATA
84217 TTTTAAAATA
Statistics
Matches: 298, Mismatches: 21, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
156 24 0.08
157 3 0.01
158 2 0.01
160 3 0.01
161 2 0.01
162 74 0.25
163 5 0.02
165 1 0.00
166 183 0.61
167 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (165 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTATT
TAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCA
TAAAAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:83926 original size:22 final size:22
Alignment explanation
Indices: 83900--83942 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
83890 TAATAAATTA
83900 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
83922 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
83943 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:83951 original size:22 final size:22
Alignment explanation
Indices: 83902--83950 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
83892 ATAAATTATT
**
83902 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
83924 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
83947 TAAA
1 TAAA
83951 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:84038 original size:32 final size:32
Alignment explanation
Indices: 84002--84270 Score: 144
Period size: 32 Copynumber: 7.7 Consensus size: 32
83992 CAATCCATAT
* *
84002 TTTAAAATAAATCTATTCATAAAAATAAATTA
1 TTTAAAATAAATCAATCCATAAAAATAAATTA
**
84034 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATAAAAATAAATTA
* *
84066 TTTAAAATAAATCCATACAACTACAATAATAAATCAATCTATA
1 TTTAAAAT-AA---AT-CAA-T-CCATAA-AAAT-AA-AT-TA
**
84109 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATAAAAATAAATTA
*
84142 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATA----AAAATAAAT-TA
* * * ** * *
84179 TCCATATTAATAAAT-TATTTAAAATAAATCAATCCATA
1 T--TTA-AAATAAATCAATCCATAA-AAATAAAT---TA
**
84217 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATAAAAATAAATTA
84250 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
84271 TTTTAAAATA
Statistics
Matches: 179, Mismatches: 33, Indels: 50
0.68 0.13 0.19
Matches are distributed among these distances:
32 78 0.44
33 6 0.03
34 1 0.01
35 3 0.02
36 32 0.18
37 15 0.08
38 3 0.02
39 14 0.08
40 12 0.07
41 2 0.01
42 1 0.01
43 4 0.02
44 8 0.04
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATAAAAATAAATTA
Found at i:84040 original size:14 final size:15
Alignment explanation
Indices: 84002--84078 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 15
83992 CAATCCATAT
84002 TTTAAAATAAATCTA
1 TTTAAAATAAATCTA
84017 TTCATAAAAATAAAT-TA
1 TT--T-AAAATAAATCTA
*
84034 TTTAAAATAAATCAA
1 TTTAAAATAAATCTA
* *
84049 TCCATACTAATAAAT-TA
1 T--TTA-AAATAAATCTA
84066 TTTAAAATAAATC
1 TTTAAAATAAATC
84079 CATACAACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
14 16 0.33
15 7 0.15
17 9 0.19
18 16 0.33
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
TTTAAAATAAATCTA
Found at i:84097 original size:54 final size:53
Alignment explanation
Indices: 83724--84104 Score: 215
Period size: 54 Copynumber: 6.9 Consensus size: 53
83714 ACAACTACAA
** * * **
83724 TAATAAATTATTTAAAATAAATAAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCCATACA-ACTACAAAATAAATCAATCCATAC
* **
83778 TAATACATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCTGTA-
1 TAATAAATTATTTAAAAT--A--AATCCATACAACTACAA-AATAAATCAATCCATAC
** * * *
83835 TTTTAAA--A--T-AAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCCATAC-----AACTA--CAAAATAAATCAATCCATAC
* * * ** *
83890 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCCATACA-ACTACAAAATAAATCAATCCATAC
*
83944 TAATAAATTATTTAAAATAAATCAACCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAAT----CCATACAACTACAA-AATAAATCAATCCATA--C
* * * ** **
84004 TAAAATAAATCTATTCATAA-AAAT--AAATTA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCCATACAACTACAAAATAAATCAATCCATAC
84056 TAATAAATTATTTAAAATAAATCCATACAACTACAATAATAAATCAATC
1 TAATAAATTATTTAAAATAAATCCATACAACTACAA-AATAAATCAATC
84105 TATATTTTAA
Statistics
Matches: 247, Mismatches: 46, Indels: 68
0.68 0.13 0.19
Matches are distributed among these distances:
48 9 0.04
49 7 0.03
50 11 0.04
52 8 0.03
53 8 0.03
54 100 0.40
55 12 0.05
56 7 0.03
57 13 0.05
58 41 0.17
59 1 0.00
60 12 0.05
62 11 0.04
63 7 0.03
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (53 bp):
TAATAAATTATTTAAAATAAATCCATACAACTACAAAATAAATCAATCCATAC
Found at i:84122 original size:108 final size:108
Alignment explanation
Indices: 83922--84270 Score: 451
Period size: 108 Copynumber: 3.2 Consensus size: 108
83912 CAATCCATAT
*
83922 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAACCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT----CCATACAACTACAATAA
* * **
83987 TAAATCAATCCATATTTTAAAATAAATCTATTCATAAAAATAAATTA
62 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
84034 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCCATACAACTACAATAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCCATACAACTACAATAATAAA
*
84099 TCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTA
66 TCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
** * * *
84142 TTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATATTAA-TAAATTATTTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCCATA-CAACTACA--A--T-
84200 AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
60 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
84250 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
84271 TTTTAAAATA
Statistics
Matches: 218, Mismatches: 12, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
102 15 0.07
103 3 0.01
104 1 0.00
105 1 0.00
106 1 0.00
107 5 0.02
108 149 0.68
112 43 0.20
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (108 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCCATACAACTACAATAATAAA
TCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:84151 original size:54 final size:54
Alignment explanation
Indices: 83985--84315 Score: 442
Period size: 54 Copynumber: 6.1 Consensus size: 54
83975 CAACTACAAT
* * **
83985 AATAAATCAATCCATATTTTAAAATAAATCTATTCATAAAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * *
84039 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCCATAC-AACTACA--A--T--
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACTAA-TAAATTATTTAA
*
84093 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
84147 AATAAATCAATCCATATTTTAAAATAAATCAATCCATATTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
84201 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
84255 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAAATATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
84309 AATAAAT
1 AATAAAT
84316 TATTTTAAAA
Statistics
Matches: 246, Mismatches: 17, Indels: 28
0.85 0.06 0.10
Matches are distributed among these distances:
48 16 0.07
49 3 0.01
50 1 0.00
51 1 0.00
52 1 0.00
53 5 0.02
54 195 0.79
55 5 0.02
56 1 0.00
57 1 0.00
58 1 0.00
59 3 0.01
60 13 0.05
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:84168 original size:22 final size:22
Alignment explanation
Indices: 84142--84186 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
84132 TAATAAATTA
84142 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
84164 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
84186 T
1 T
84187 AATAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:84173 original size:76 final size:76
Alignment explanation
Indices: 84034--84315 Score: 239
Period size: 76 Copynumber: 3.6 Consensus size: 76
84024 AAATAAATTA
*
84034 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCCATACAACTACAATAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACAACTACAATAATAAA
*
84099 TCAATCTATAT
66 TCAATCCATAT
* * **
84110 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAA-AATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACA-ACTACAATAATAA
84174 ATCAATCCATAT
65 ATCAATCCATAT
* * ** * ** ** * *
84186 TAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAAT
1 T-TTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAATACA-AC---TACA-
84248 TATTTAAAATAAATCAATCCATAT
58 -A--T--AATAAATCAATCCATAT
* *
84272 TTTAAAATAAATCAATCTATACTAATAAAATATTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
84316 TATTTTAAAA
Statistics
Matches: 162, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
75 2 0.01
76 91 0.56
77 12 0.07
78 5 0.03
79 2 0.01
81 1 0.01
84 5 0.03
85 8 0.05
86 34 0.21
87 2 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (76 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACAACTACAATAATAAA
TCAATCCATAT
Found at i:84193 original size:22 final size:22
Alignment explanation
Indices: 84140--84192 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
84130 ACTAATAAAT
84140 TATT-TAAAATAAATCAATCCA
1 TATTATAAAATAAATCAATCCA
*
84161 TATTTTAAAATAAATCAATCCA
1 TATTATAAAATAAATCAATCCA
84183 TATTAATAAA
1 TATT-ATAAA
84193 TTATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 4 0.14
22 21 0.72
23 4 0.14
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (22 bp):
TATTATAAAATAAATCAATCCA
Found at i:84222 original size:22 final size:22
Alignment explanation
Indices: 84196--84238 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
84186 TAATAAATTA
84196 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
84218 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
84239 CTAATAAATT
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:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:84247 original size:22 final size:22
Alignment explanation
Indices: 84198--84246 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
84188 ATAAATTATT
**
84198 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
84220 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
84243 TAAA
1 TAAA
84247 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:84276 original size:22 final size:22
Alignment explanation
Indices: 84250--84350 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
84240 TAATAAATTA
84250 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
84272 TTTAAAATAAATCAATCTATACT
1 TTTAAAATAAATCAATCCATA-T
** ** * **
84295 AATAAAATATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
84319 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
84341 TTTATAATAA
1 TTTAAAATAA
84351 TTTATTTTAA
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
22 32 0.53
23 13 0.22
24 13 0.22
25 2 0.03
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:84324 original size:15 final size:15
Alignment explanation
Indices: 84295--84457 Score: 193
Period size: 15 Copynumber: 10.5 Consensus size: 15
84285 AATCTATACT
*
84295 AATAAAATA-TTTAA
1 AATAAATTATTTTAA
84309 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
84324 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
84346 AATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
84361 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
*
84376 AATAAATTATTTTAT
1 AATAAATTATTTTAA
84391 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
84406 AATAAATTATTTTAT
1 AATAAATTATTTTAA
84421 AATAAATTATTTTAA
1 AATAAATTATTTTAA
84436 AATAAATTATTTTAA
1 AATAAATTATTTTAA
84451 AATAAAT
1 AATAAAT
84458 AACCTTATTA
Statistics
Matches: 130, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.06
15 105 0.81
17 1 0.01
18 2 0.02
19 3 0.02
20 1 0.01
22 10 0.08
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:84389 original size:45 final size:45
Alignment explanation
Indices: 84338--84457 Score: 213
Period size: 45 Copynumber: 2.7 Consensus size: 45
84328 AATCAATCCA
* *
84338 TATTTTATAATAATTTATTTTAAAGTAAATTATTTTATAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
84383 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
*
84428 TATTTTAAAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
84458 AACCTTATTA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (45 bp):
TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
Found at i:88231 original size:16 final size:18
Alignment explanation
Indices: 88199--88233 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
88189 ATATAAAAAC
88199 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
88217 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
88233 A
1 A
88234 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:88269 original size:20 final size:20
Alignment explanation
Indices: 88244--88281 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88234 AATGAGTAAA
88244 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
88264 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
88282 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:88395 original size:35 final size:33
Alignment explanation
Indices: 88349--88425 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 33
88339 AAATATATAA
* *
88349 ATATATATATATAATAACACTAATAAAAAAAACAT
1 ATATACATATATAATAAAACTAAT--AAAAAACAT
* **
88384 ATATACATATATAATAAAATTAATAGGAAACAT
1 ATATACATATATAATAAAACTAATAAAAAACAT
88417 ATATACATA
1 ATATACATA
88426 CAAGAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 16 0.43
35 21 0.57
ACGTcount: A:0.60, C:0.08, G:0.03, T:0.30
Consensus pattern (33 bp):
ATATACATATATAATAAAACTAATAAAAAACAT
Found at i:89771 original size:43 final size:43
Alignment explanation
Indices: 89710--89864 Score: 121
Period size: 43 Copynumber: 3.4 Consensus size: 43
89700 ACCAACGGTC
89710 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * * ** ***
89753 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTTGCG---TTG--TCTGGA-GTCCA-ATAT
* *
89803 CCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCTAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
89847 CCTTCGTTGTGAAGTTGA
1 CCTTCGTCGTGAAGTTGA
89865 GATTGGCTCT
Statistics
Matches: 82, Mismatches: 22, Indels: 16
0.68 0.18 0.13
Matches are distributed among these distances:
43 39 0.48
44 1 0.01
45 2 0.02
46 7 0.09
48 7 0.09
49 3 0.04
50 1 0.01
51 22 0.27
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:89953 original size:105 final size:105
Alignment explanation
Indices: 89771--90505 Score: 1346
Period size: 105 Copynumber: 7.0 Consensus size: 105
89761 GTGAAGTTGA
** *
89771 AATTGG-GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
1 AATTGGAGAAA-TGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
89835 GGAGTCTAATATCCTTCGTTGTGAAGTTGAGATTGGCTCTG
65 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
89876 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
89941 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
66 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
89981 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
90046 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTG
66 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
90086 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
90151 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
66 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
*
90191 AATTGGAGAAATATTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
90256 GAGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCTCTG
66 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
90296 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
90361 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTG
66 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
90401 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1 AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
90466 GAGTCCAGTATCCTTCATTGTGAAGTTGAAATTGACTCTG
66 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
90506 GGTAAAACAT
Statistics
Matches: 613, Mismatches: 16, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
105 609 0.99
106 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
AATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
Found at i:90256 original size:315 final size:315
Alignment explanation
Indices: 89636--90505 Score: 1449
Period size: 315 Copynumber: 2.8 Consensus size: 315
89626 GTATCGTTCC
* * * * ** **
89636 GAGTCCAACATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAGCTGGA-AAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAATTGGAGAAA-TGTTTGGTGACA
*
89700 ACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
* * **
89765 AGTTGAAA-----T-TG----GGA-AATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
129 AGTTAAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * *
89819 TGAACTTGTGTTGTCTGGAGTCTAATATCCTTCGTTGTGAAGTTGAGATTGGCTCTGAATTGGAG
194 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAG
*
89884 AAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
259 AAATATTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
89941 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAAC
90006 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
90071 TTAAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
131 TTAAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
90136 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAGAA
196 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAGAA
90201 ATATTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
261 ATATTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
90256 GAGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAAC
90321 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
90386 TTAAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
131 TTAAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * *
90451 AACTTGCGTTGTCTGGAGTCCAGTATCCTTCATTGTGAAGTTGAAATTGACTCTG
196 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
90506 GGTAAAACAT
Statistics
Matches: 532, Mismatches: 21, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
304 87 0.16
305 38 0.07
309 1 0.00
310 2 0.00
314 3 0.01
315 401 0.75
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (315 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTAAAATTGGCTCTGAATTGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAGAA
ATATTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:91188 original size:16 final size:18
Alignment explanation
Indices: 91150--91190 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
91140 AACCCACCTT
*
91150 ATTTTTCTTCTTTTATTC
1 ATTTTTCCTCTTTTATTC
*
91168 TTTTTTCCTC-TTT-TTC
1 ATTTTTCCTCTTTTATTC
91184 ATTTTTC
1 ATTTTTC
91191 TTTTCTCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 8 0.40
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTCCTCTTTTATTC
Found at i:101855 original size:16 final size:18
Alignment explanation
Indices: 101823--101857 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
101813 ATATAAAAAC
101823 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
101841 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
101857 A
1 A
101858 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:102012 original size:35 final size:33
Alignment explanation
Indices: 101966--102042 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 33
101956 AAATATATAA
* *
101966 ATATATATATATAATAACACTAATAAAAAAAACAT
1 ATATACATATATAATAAAACTAAT--AAAAAACAT
* **
102001 ATATACATATATAATAAAATTAATAGGAAACAT
1 ATATACATATATAATAAAACTAATAAAAAACAT
102034 ATATACATA
1 ATATACATA
102043 CAAGAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 16 0.43
35 21 0.57
ACGTcount: A:0.60, C:0.08, G:0.03, T:0.30
Consensus pattern (33 bp):
ATATACATATATAATAAAACTAATAAAAAACAT
Found at i:102832 original size:19 final size:20
Alignment explanation
Indices: 102788--102852 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 20
102778 CTGCAAAACA
* *
102788 AATATATATATATGTAAATACG
1 AATATAT-TATAT-AAAATAAG
102810 -ATATATGTA-ATAAAATAA-
1 AATATAT-TATATAAAATAAG
*
102828 AATATATTATATAATATAAG
1 AATATATTATATAAAATAAG
102848 AATAT
1 AATAT
102853 TATATAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.06
19 19 0.53
20 7 0.19
21 8 0.22
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (20 bp):
AATATATTATATAAAATAAG
Found at i:109791 original size:22 final size:21
Alignment explanation
Indices: 109742--109791 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
109732 ATTCAATTAT
*
109742 TTTAATGATCATTTTGTAACA
1 TTTAATGATCATTTTATAACA
109763 TTGTAATGA-CTATTTTATAACAA
1 TT-TAATGATC-ATTTTATAAC-A
109786 TTTAAT
1 TTTAAT
109792 AAATTTAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (21 bp):
TTTAATGATCATTTTATAACA
Found at i:114216 original size:21 final size:21
Alignment explanation
Indices: 114192--114246 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
114182 TATTTTAATT
* *
114192 AATTAATATATCCCAAACATA
1 AATTAATAAATACCAAACATA
* *
114213 AATTTATAAATATCAAACATA
1 AATTAATAAATACCAAACATA
*
114234 ATATCAATAAATA
1 A-ATTAATAAATA
114247 TATATATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTAATAAATACCAAACATA
Found at i:114246 original size:22 final size:21
Alignment explanation
Indices: 114205--114247 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
114195 TAATATATCC
**
114205 CAAACATAAATTTATAAATAT
1 CAAACATAAATCAATAAATAT
114226 CAAACATAATATCAATAAATAT
1 CAAACATAA-ATCAATAAATAT
114248 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
CAAACATAAATCAATAAATAT
Found at i:125712 original size:20 final size:20
Alignment explanation
Indices: 125674--125712 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
125664 TTATTGAGCA
* *
125674 GGTTTTTATGTTCTGTGTTT
1 GGTTTTTAAGTTCTATGTTT
*
125694 GGTTTTTAAGTTTTATGTT
1 GGTTTTTAAGTTCTATGTT
125713 GTAACAGAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.10, C:0.03, G:0.23, T:0.64
Consensus pattern (20 bp):
GGTTTTTAAGTTCTATGTTT
Found at i:127550 original size:215 final size:215
Alignment explanation
Indices: 127139--127567 Score: 774
Period size: 215 Copynumber: 2.0 Consensus size: 215
127129 CAATTTTAAT
*
127139 AGCCCTATCAAATGTAGCTGAAAAAGTTTTAAACAATGTCTTGTTACCAATCATGTGATCTGAAG
1 AGCCCTATCAAATGTAGCTGAAAAAGTTTTAAACAATGTCTTGTTACCAATCA-GTGATCTGAAA
127204 CCCCGGAGTCAAGAACCCAAGTGGGGTTCAACTGTTGAGAAGTAAGGGCTGTAGGAAAAGTTTAC
65 CCCCGGAGTCAAGAACCCAAGTGGGGTTCAACTGTTGAGAAGTAAGGGCTGTAGGAAAAGTTTAC
*
127269 CTTCTGGTTCAGCCATGGCTAGATTACTTGCTCGAGGCCCTGCTAATTGACTAAACATCCTCTGA
130 CTTCTGATTCAGCCATGGCTAGATTACTTGCTCGAGGCCCTGCTAATTGACTAAACATCCTCTGA
127334 AGATCTGCAATTTGTTCCTAC
195 AGATCTGCAATTTGTTCCTAC
*
127355 AGCCCTATCAAATGTAGCTGAAAAAGTTTTAAACAATGT-TCTGTTACCAGTC-GTGATCTGAAA
1 AGCCCTATCAAATGTAGCTGAAAAAGTTTTAAACAATGTCT-TGTTACCAATCAGTGATCTGAAA
127418 CCCCGGAGTCAAGAACCCAAGTGGGGTTCAACTGTTGAGAAAG-AAGGGCTGTAGGAAAAGTTTT
65 CCCCGGAGTCAAGAACCCAAGTGGGGTTCAACTGTTGAG-AAGTAAGGGCTGTAGGAAAAG-TTT
127482 ACCTTCTGATTCAGCCATGGCTAGATTACTTGCTCGAGGCCCTGCTAATTGACTAAACATCCTCT
128 ACCTTCTGATTCAGCCATGGCTAGATTACTTGCTCGAGGCCCTGCTAATTGACTAAACATCCTCT
127547 GAAGATCTGCAATTTGTTCCT
193 GAAGATCTGCAATTTGTTCCT
127568 TGGTGAAAGT
Statistics
Matches: 207, Mismatches: 3, Indels: 7
0.95 0.01 0.03
Matches are distributed among these distances:
214 66 0.32
215 92 0.44
216 49 0.24
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (215 bp):
AGCCCTATCAAATGTAGCTGAAAAAGTTTTAAACAATGTCTTGTTACCAATCAGTGATCTGAAAC
CCCGGAGTCAAGAACCCAAGTGGGGTTCAACTGTTGAGAAGTAAGGGCTGTAGGAAAAGTTTACC
TTCTGATTCAGCCATGGCTAGATTACTTGCTCGAGGCCCTGCTAATTGACTAAACATCCTCTGAA
GATCTGCAATTTGTTCCTAC
Found at i:128459 original size:488 final size:487
Alignment explanation
Indices: 127543--128522 Score: 1951
Period size: 488 Copynumber: 2.0 Consensus size: 487
127533 ACTAAACATC
127543 CTCTGAAGATCTGCAATTTGTTCCTTGGTGAAAGTAGAAACAGTAGTGGCAGAAGCTAATCTGAT
1 CTCTGAAGATCTGCAATTTGTTCCTTGGTGAAAGTAGAAACAGTAGTGGCAGAAGCTAATCTGAT
127608 ACCATGTGAGAAATCAGAGTAATTCTCTCTTATTTTATATTATATAACCAATAGGATTTGTTACA
66 ACCATGTGAGAAATCAGAGTAATTCTCTCTTATTTTATATTATATAACCAATAGGATTTGTTACA
127673 TACTTATGTACAAGCTATATCTCTATCTTAGGAAACTTTAAGTTAGGAAAGAAACTAATTCTAGG
131 TACTTATGTACAAGCTATATCTCTATCTTAGGAAACTTTAAGTTAGGAAAGAAACTAATTCTAGG
127738 GAAAGATATAATCCCTTAAAGGGATTGTAACTACAAAAAAATTCACAGAATCCTATTAAGAGCAT
196 GAAAGATATAATCCCTTAAAGGGATTGTAACTACAAAAAAATTCACAGAATCCTATTAAGAGCAT
127803 TCCTAATTTAATCTATTTCCTGGCACGTATATTCCTACGGCTAGAGAAATGCCAATTGAAATAAT
261 TCCTAATTTAATCTATTTCCTGGCACGTATATTCCTACGGCTAGAGAAATGCCAATTGAAATAAT
127868 TTGTAGCTCAAGAAGATGCTTGTTTAAGAGAAAAATGAGTGTTTTATTGGGAAGATTTTAATAAA
326 TTGTAGCTCAAGAAGATGCTTGTTTAAGAGAAAAATGAGTGTTTTATTGGGAAGATTTTAATAAA
127933 TACAGGGATAGGAATGCCTATGATTCTTTCTTTCATTATTCTCCTTTCACAGTATATCTGGTTTC
391 TACAGGGATAGGAATGCCTATGATTCTTTCTTTCATTATTCTCCTTTCACAGTATATCTGGTTTC
127998 TTCCTTTTTCTTTCTTCGCACTGTTCTTGATTA
456 TTCC-TTTTCTTTCTTCGCACTGTTCTTGATTA
128031 CTCTGAAGATCTGCAATTTGTTCCTTGGTGAAAGTAGAAACAGTAGTGGCAGAAGCTAATCTGAT
1 CTCTGAAGATCTGCAATTTGTTCCTTGGTGAAAGTAGAAACAGTAGTGGCAGAAGCTAATCTGAT
128096 ACCATGTGAGAAATCAGAGTAATTCTCTCTTATTTTATATTATATAACCAATAGGATTTGTTACA
66 ACCATGTGAGAAATCAGAGTAATTCTCTCTTATTTTATATTATATAACCAATAGGATTTGTTACA
128161 TACTTATGTACAAGCTATATCTCTATCTTAGGAAACTTTAAGTTAGGAAAGAAACTAATTCTAGG
131 TACTTATGTACAAGCTATATCTCTATCTTAGGAAACTTTAAGTTAGGAAAGAAACTAATTCTAGG
128226 GAAAGATATAATCCCTTAAAGGGATTGTAACTACAAAAAAATTCACAGAATCCTATTAAGAGCAT
196 GAAAGATATAATCCCTTAAAGGGATTGTAACTACAAAAAAATTCACAGAATCCTATTAAGAGCAT
128291 TCCTAATTTAATCTATTTCCTGGCACGTATATTCCTACGGCTAGAGAAATGCCAATTGAAATAAT
261 TCCTAATTTAATCTATTTCCTGGCACGTATATTCCTACGGCTAGAGAAATGCCAATTGAAATAAT
128356 TTGTAGCTCAAGAAGATGCTTGTTTAAGAGAAAAATGAGTGTTTTATTGGGAAGATTTTAATAAA
326 TTGTAGCTCAAGAAGATGCTTGTTTAAGAGAAAAATGAGTGTTTTATTGGGAAGATTTTAATAAA
128421 TACAGGGATAGGAATGCCTATGATTCTTTCTTTCATTATTCTCCTTTCACAGTATATCTGGTTTC
391 TACAGGGATAGGAATGCCTATGATTCTTTCTTTCATTATTCTCCTTTCACAGTATATCTGGTTTC
128486 TTCCTTTTCTTTCTTCGCACTGTTCTTGATTA
456 TTCCTTTTCTTTCTTCGCACTGTTCTTGATTA
128518 CTCTG
1 CTCTG
128523 TCATTCCTCT
Statistics
Matches: 492, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
487 33 0.07
488 459 0.93
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (487 bp):
CTCTGAAGATCTGCAATTTGTTCCTTGGTGAAAGTAGAAACAGTAGTGGCAGAAGCTAATCTGAT
ACCATGTGAGAAATCAGAGTAATTCTCTCTTATTTTATATTATATAACCAATAGGATTTGTTACA
TACTTATGTACAAGCTATATCTCTATCTTAGGAAACTTTAAGTTAGGAAAGAAACTAATTCTAGG
GAAAGATATAATCCCTTAAAGGGATTGTAACTACAAAAAAATTCACAGAATCCTATTAAGAGCAT
TCCTAATTTAATCTATTTCCTGGCACGTATATTCCTACGGCTAGAGAAATGCCAATTGAAATAAT
TTGTAGCTCAAGAAGATGCTTGTTTAAGAGAAAAATGAGTGTTTTATTGGGAAGATTTTAATAAA
TACAGGGATAGGAATGCCTATGATTCTTTCTTTCATTATTCTCCTTTCACAGTATATCTGGTTTC
TTCCTTTTCTTTCTTCGCACTGTTCTTGATTA
Found at i:132054 original size:20 final size:20
Alignment explanation
Indices: 132031--132114 Score: 58
Period size: 20 Copynumber: 4.5 Consensus size: 20
132021 TAGTGAGTAC
*
132031 TAATTAGTTTTGGTATGTTT
1 TAATTAGTTTTAGTATGTTT
132051 TAATT-G-TTTAGT-T-TTT
1 TAATTAGTTTTAGTATGTTT
* *
132067 T-TTTCA-TTTTAGTGA-GTTC
1 TAATT-AGTTTTAGT-ATGTTT
*
132086 TAATTAGTTTTGGTATGTTT
1 TAATTAGTTTTAGTATGTTT
132106 TAATT-GTTT
1 TAATTAGTTT
132115 AGTTTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 19
0.66 0.08 0.26
Matches are distributed among these distances:
15 2 0.04
16 4 0.08
17 7 0.14
18 5 0.10
19 10 0.20
20 21 0.43
ACGTcount: A:0.19, C:0.02, G:0.17, T:0.62
Consensus pattern (20 bp):
TAATTAGTTTTAGTATGTTT
Found at i:132061 original size:24 final size:24
Alignment explanation
Indices: 132034--132120 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 24
132024 TGAGTACTAA
132034 TTAGTTTTGGTATGTTTTAATTGT
1 TTAGTTTTGGTATGTTTTAATTGT
** * * *
132058 TTAGTTTTTTTTTCATTTTAGTGAGTTCT
1 TTAGTTTTGGTAT-GTTTTA---A-TTGT
132087 AATTAGTTTTGGTATGTTTTAATTGT
1 --TTAGTTTTGGTATGTTTTAATTGT
132113 TTAGTTTT
1 TTAGTTTT
132121 TTTTCTCTCA
Statistics
Matches: 46, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
24 18 0.39
25 5 0.11
26 3 0.07
27 1 0.02
28 1 0.02
29 3 0.07
30 5 0.11
31 10 0.22
ACGTcount: A:0.17, C:0.02, G:0.17, T:0.63
Consensus pattern (24 bp):
TTAGTTTTGGTATGTTTTAATTGT
Found at i:132066 original size:56 final size:56
Alignment explanation
Indices: 131977--132138 Score: 281
Period size: 55 Copynumber: 2.9 Consensus size: 56
131967 ATCATTAATT
*
131977 ATTAGTTTTGGTATGTTTTAATTGTTTAATTTTTTTTTTCATTTTAGTGAGTACTA
1 ATTAGTTTTGGTATGTTTTAATTGTTTAGTTTTTTTTTTCATTTTAGTGAGTACTA
*
132033 ATTAGTTTTGGTATGTTTTAATTGTTTAG-TTTTTTTTTCATTTTAGTGAGTTCTA
1 ATTAGTTTTGGTATGTTTTAATTGTTTAGTTTTTTTTTTCATTTTAGTGAGTACTA
132088 ATTAGTTTTGGTATGTTTTAATTGTTTAGTTTTTTTTCTCTCATTTTAGTG
1 ATTAGTTTTGGTATGTTTTAATTGTTTAGTTTTTTTT-T-TCATTTTAGTG
132139 GGTATTTTTA
Statistics
Matches: 101, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
55 54 0.53
56 35 0.35
57 1 0.01
58 11 0.11
ACGTcount: A:0.19, C:0.04, G:0.15, T:0.62
Consensus pattern (56 bp):
ATTAGTTTTGGTATGTTTTAATTGTTTAGTTTTTTTTTTCATTTTAGTGAGTACTA
Found at i:132180 original size:111 final size:111
Alignment explanation
Indices: 131977--132181 Score: 245
Period size: 111 Copynumber: 1.8 Consensus size: 111
131967 ATCATTAATT
** *
131977 ATTAGTTTTGGTATGTTTTAATTGTTTAATTTTTTTTTTCATTTTAGTGAGTACTAATTAGTTTT
1 ATTAGTTTTGGTATGTTTTAATTGTTTAATTTTTTTTTTCATTTTAGTGAGTACTAATTAGCATC
** * * * *
132042 GGTATGTTTTAATTGTTTAGTTTTTTTTTCATTTTAGTGAGTTCTA
66 CATATGTTTAAAATGTTAAGTTATTTTTTCATTTTAGTGAGTTCTA
* * **
132088 ATTAGTTTTGGTATGTTTTAATTGTTTAGTTTTTTTTCTCTCATTTTAGTGGGTA-TTTTTAGCA
1 ATTAGTTTTGGTATGTTTTAATTGTTTAATTTTTTTT-T-TCATTTTAGTGAGTACTAATTAGCA
132152 TCCAT-TGTTTAAAAT-TTAACGTTATTTTTT
64 TCCATATGTTTAAAATGTTAA-GTTATTTTTT
132182 TACTGTTTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
110 3 0.04
111 53 0.68
112 8 0.10
113 14 0.18
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (111 bp):
ATTAGTTTTGGTATGTTTTAATTGTTTAATTTTTTTTTTCATTTTAGTGAGTACTAATTAGCATC
CATATGTTTAAAATGTTAAGTTATTTTTTCATTTTAGTGAGTTCTA
Found at i:132620 original size:22 final size:24
Alignment explanation
Indices: 132576--132627 Score: 81
Period size: 22 Copynumber: 2.2 Consensus size: 24
132566 AAAAACCCAG
*
132576 ACCGGTTTTTTTACCGAATAAAAA
1 ACCGGTTTTTATACCGAATAAAAA
132600 ACCGGTTTTTAT-CCGAA-AAAAA
1 ACCGGTTTTTATACCGAATAAAAA
132622 ACCGGT
1 ACCGGT
132628 CTGGGTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 11 0.41
23 5 0.19
24 11 0.41
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (24 bp):
ACCGGTTTTTATACCGAATAAAAA
Found at i:134905 original size:21 final size:21
Alignment explanation
Indices: 134881--134920 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
134871 TTTATTTTAT
134881 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
134902 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
134921 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:134968 original size:33 final size:33
Alignment explanation
Indices: 134915--135013 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
134905 TTTGTTTCAA
134915 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
134947 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
134980 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
135013 T
1 T
135014 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:135042 original size:13 final size:13
Alignment explanation
Indices: 134999--135053 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
134989 TTGGAAGTAT
134999 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
135012 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
135026 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
135039 TTAAGTATTTGAA
1 TTAAGTATTTCAA
135052 TT
1 TT
135054 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:135475 original size:15 final size:15
Alignment explanation
Indices: 135450--135505 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
135440 ATCTGGAATA
*
135450 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
135465 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
135480 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
135497 TTAAAACCG
1 TTAAAACCG
135506 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:135514 original size:21 final size:18
Alignment explanation
Indices: 135469--135502 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
135459 GTTTTTTTAT
135469 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
135486 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
135503 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:154925 original size:38 final size:38
Alignment explanation
Indices: 154807--154935 Score: 111
Period size: 38 Copynumber: 3.3 Consensus size: 38
154797 TTTAGGTTGG
* * * *
154807 AACATTTTCAGTTGAACCTAAAATGTTACG-AAGAATTT
1 AACATTTTCGGTTCAACCGAAAATGTTA-GAAAGAATAT
* * *
154845 AATATATTCGGTTGTCAACCGAAAATGTTA-AGAA-TATAAT
1 AACATTTTCGG-T-TCAACCGAAAATGTTAGA-AAGAAT-AT
*
154885 AACATTTTCGGTTCAACCGAAAATATTAGAAAGAATAT
1 AACATTTTCGGTTCAACCGAAAATGTTAGAAAGAATAT
*
154923 AACATTTTAGGTT
1 AACATTTTCGGTT
154936 GTGTCCAACC
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
38 39 0.54
39 7 0.10
40 26 0.36
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (38 bp):
AACATTTTCGGTTCAACCGAAAATGTTAGAAAGAATAT
Found at i:155353 original size:23 final size:23
Alignment explanation
Indices: 155327--155374 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
155317 ATAAAGTACA
* *
155327 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
**
155350 ATAATGTAATAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
155373 AT
1 AT
155375 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:155779 original size:21 final size:22
Alignment explanation
Indices: 155754--155805 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
155744 ACACTTTACA
*
155754 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
155777 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
155800 ATATAA
1 ATATAA
155806 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:155790 original size:23 final size:23
Alignment explanation
Indices: 155764--155826 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
155754 ATATAACCAC
155764 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
155787 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
155810 TACCTATTACATCATAT
1 TACCTATTACATTATAT
155827 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:156211 original size:36 final size:38
Alignment explanation
Indices: 156154--156230 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 38
156144 AGTTGTAGAT
*
156154 TTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGGA
1 TTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGGA
*
156192 TTTGA-TTCC-TTTGCTTGGCACCATATGAGCTTTGGA
1 TTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGGA
156228 TTT
1 TTT
156231 TGATGAGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 28 0.76
37 4 0.11
38 5 0.14
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.47
Consensus pattern (38 bp):
TTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGGA
Found at i:156513 original size:18 final size:18
Alignment explanation
Indices: 156490--156526 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
156480 GCCGAAATAT
156490 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
156508 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
156526 A
1 A
156527 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:156802 original size:25 final size:25
Alignment explanation
Indices: 156774--156824 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
156764 ATTAATCCAA
*
156774 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
156799 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
156824 T
1 T
156825 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:157117 original size:21 final size:22
Alignment explanation
Indices: 157092--157143 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
157082 ACACTTTACA
*
157092 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
157115 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
157138 ATATAA
1 ATATAA
157144 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:157128 original size:23 final size:23
Alignment explanation
Indices: 157102--157164 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
157092 ATATAACCAC
157102 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
157125 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
157148 TACCTATTACATCATAT
1 TACCTATTACATTATAT
157165 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:157577 original size:23 final size:23
Alignment explanation
Indices: 157519--157590 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
157509 ACACTTTACA
* *
157519 ATATAACCACTACCTA-TACATT
1 ATATAAACGCTACCTATTACATT
* *
157541 ATATAAACGATACCTATTTCATT
1 ATATAAACGCTACCTATTACATT
** *
157564 ATATAAGGGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
157587 ATAT
1 ATAT
157591 GTTTACCTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
22 13 0.32
23 27 0.68
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:157984 original size:23 final size:23
Alignment explanation
Indices: 157958--158020 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
157948 ATATAACCAC
157958 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
157981 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
158004 TACCTATTACATCATAT
1 TACCTATTACATTATAT
158021 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:158068 original size:430 final size:430
Alignment explanation
Indices: 156859--158119 Score: 2354
Period size: 430 Copynumber: 2.9 Consensus size: 430
156849 GAATTATTTA
* *
156859 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
* *
156924 GAATTTTTAATTTAATAATAATATATATCGCAACGTAAAAATAAATCATTAGACGCCTATAATTA
66 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTA
156989 CTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
131 CTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
157054 AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT
196 AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT
157119 AAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTA-T-TATTGAA
261 AAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
157182 AGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTATGTAATTTATGTTTCAA
326 AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
*
157246 TTTTTTTAACATTGTTTCATGTTTTCCACCTACAATATTG
391 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
157286 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
157351 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTA
66 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTA
*
157416 CTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAAA
131 CTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
157481 AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTA-TACATTATAT
196 AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT
*
157545 AAACGATACCTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
261 AAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
*
157610 AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAATTATGTAATTTATGTTTCAA
326 AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
157675 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
391 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
*
157715 ATTTAATAATTTCATTTGCAGAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
157780 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
66 GAATTTTTAATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATT
**
157845 ACTAAATTAATATCTTAAAACTCACTCAAAA-ATTAATATTAAATTAATGTTTTCCACAGTGAAA
130 ACTAAATTAATATCTTAAAACTCACTCAAAAGA-TAACCTTAAATTAATGTTTTCCACAGTGAAA
*
157909 AAAGTATGGACACTTTTAT-AAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTAT
194 AAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTAT
157973 ATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTG
259 ATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTG
158038 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
324 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
158103 AATTTTTTTAACAGTGT
389 AATTTTTTTAACAGTGT
158120 ACTGCGAATT
Statistics
Matches: 813, Mismatches: 15, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
426 64 0.08
427 245 0.30
428 40 0.05
429 205 0.25
430 259 0.32
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (430 bp):
ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTA
CTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT
AAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
Found at i:161009 original size:183 final size:184
Alignment explanation
Indices: 160591--161117 Score: 932
Period size: 183 Copynumber: 2.9 Consensus size: 184
160581 CTTCAAATTA
*
160591 TCGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAA
1 TCGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAA
160656 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
66 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
160721 TATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATG
131 TATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATG
160775 TCGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAA
1 TCGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAA
160840 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATA-CGGT
66 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
160904 TATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATG
131 TATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATG
* * *
160958 TCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAC
1 TCGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAA
* * *
161023 TATTA-AAAGTGTCGATATAGGTTGTAGACCTATTCACGCATAAGACCGGTATATTTATACCGGT
66 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
* * * **
161087 TATATTGCAAATTTACCTATTTTATTATAAT
131 TATATTACAAAATTATCTATTACATTATAAT
161118 ATGTTGAAAG
Statistics
Matches: 330, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
182 51 0.15
183 155 0.47
184 124 0.38
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (184 bp):
TCGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAA
TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
TATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATG
Found at i:162588 original size:3 final size:3
Alignment explanation
Indices: 162580--162666 Score: 93
Period size: 3 Copynumber: 29.0 Consensus size: 3
162570 ACTTGTTTGG
* * * **
162580 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * *
162628 AAC TTC ATC GTC ATC ATC ATC ATC ATC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
162667 GTCAGCTTCA
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:164991 original size:198 final size:198
Alignment explanation
Indices: 164130--165806 Score: 3148
Period size: 198 Copynumber: 8.5 Consensus size: 198
164120 TTTAAATTAG
164130 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
164195 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
164260 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
164322 AAA
196 AAA
164325 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
164390 ATTGTACCGGTTAGATTG-AAAATTACATA-TACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
164452 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
164517 AAA
196 AAA
164520 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
164584 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
164649 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
164712 AAA
196 AAA
*
164715 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
164780 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
164845 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
164910 AAAA
195 AAAA
164914 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
164978 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
165043 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
165108 AAAA
195 AAAA
*
165112 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
165177 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
165242 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCA-CCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
165305 AAA
196 AAA
*
165308 TATTGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTAT-
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
165372 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
165436 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
165501 AAA
196 AAA
* *
165504 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGTTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
165569 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
165634 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
165699 AAA
196 AAA
165702 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
165767 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
165807 TGGATCGACA
Statistics
Matches: 1449, Mismatches: 18, Indels: 27
0.97 0.01 0.02
Matches are distributed among these distances:
192 14 0.01
193 29 0.02
194 183 0.13
195 223 0.15
196 311 0.21
197 56 0.04
198 492 0.34
199 141 0.10
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAA
Found at i:165495 original size:789 final size:783
Alignment explanation
Indices: 164130--165806 Score: 3166
Period size: 789 Copynumber: 2.1 Consensus size: 783
164120 TTTAAATTAG
164130 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
164195 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
164260 CGACACTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAAA
131 CGACACTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAAA
164325 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
196 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
164390 ATTGTACCGGTTAGATTGAAAATTACATATACATTATACTTTTGGGTTCGATGATTTGGGATCGA
261 ATTGTACCGGTTAGATTGAAAATTACATATACATTATACTTTTGGGTTCGATGATTTGGGATCGA
164455 CACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGGAAAAAAA
326 CACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGGAAAAAAA
164520 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAA
391 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAA
164585 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
456 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
164650 GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAA
521 GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAA
164715 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
586 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
164780 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
651 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
164845 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
716 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGG-AAA
164910 AAAA
780 AAAA
164914 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
164978 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
165043 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG--AA
*
165108 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
192 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
165173 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
257 TATAATTGTACCGGTTAGATTG-AAAATTACATA-TACATTATACTTTTGGGTTCGATGA-TTTG
*
165238 GGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCA-CCTGTTTTCCATTCATTCTGG
319 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGG
*
165301 AAAAAAATATTGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAAC
384 AAAAAAATATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAAC
165366 CGGTAT-ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATT
448 CGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATT
*
165429 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTC
513 TTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTC
165494 TGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
576 TGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
*
165559 AACCGTTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG
641 AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG
165624 ATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAA
706 ATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAA
165689 TTCTGGAAAAAAA
771 TTCTGGAAAAAAA
165702 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
165767 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
165807 TGGATCGACA
Statistics
Matches: 876, Mismatches: 6, Indels: 17
0.97 0.01 0.02
Matches are distributed among these distances:
783 101 0.12
784 38 0.04
785 49 0.06
787 140 0.16
788 109 0.12
789 425 0.49
790 14 0.02
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (783 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAAA
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAATTACATATACATTATACTTTTGGGTTCGATGATTTGGGATCGA
CACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGGAAAAAAA
TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATAA
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAA
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGGAAAA
AAA
Found at i:166001 original size:19 final size:19
Alignment explanation
Indices: 165955--166003 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
165945 TTATATTCAC
*
165955 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
165974 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
165993 ATACAAAATTA
1 ATACAAAATTA
166004 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:167815 original size:33 final size:33
Alignment explanation
Indices: 167778--167843 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
167768 CATCTTAATA
*
167778 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
167811 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
167844 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:170326 original size:20 final size:20
Alignment explanation
Indices: 170297--170341 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
170287 CACTTTTAAA
170297 TTTA-CGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
170315 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
170336 TTTACC
1 TTTACC
170342 TGGTATATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 17 0.71
21 3 0.12
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.56
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:170962 original size:227 final size:228
Alignment explanation
Indices: 170405--171075 Score: 1194
Period size: 224 Copynumber: 3.0 Consensus size: 228
170395 TTAAAACTGC
170405 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
170470 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
170535 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAATATGTTTTCAACAGTG-AATAAG
131 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAATATGTTTTCAACAGTGAAATAAG
170599 TATGGACACTTTTAT-AAAATG--ATATACTTT
196 TATGGACACTTTTATAAAAATGATATATACTTT
170629 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCC-CACTACAAT
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCAC-CTACAAT
170693 ATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTA
170758 TTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAA-ATGTTTTCAACAGTGAAATAA
130 TTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAATATGTTTTCAACAGTGAAATAA
170822 GTATGGACACTTTTATAAAAATGATATATACTTT
195 GTATGGACACTTTTATAAAAATGATATATACTTT
*
170856 TTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
* **
170921 TTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
* * * *
170986 TTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATAA
131 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAAT-AATATGTTTTCAACAGTGAAATAA
*
171050 GTATGGACACTTTTATAAAAAGGATA
195 GTATGGACACTTTTATAAAAATGATA
171076 GATAATTTAC
Statistics
Matches: 430, Mismatches: 9, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
223 16 0.04
224 191 0.44
225 6 0.01
227 170 0.40
228 40 0.09
229 7 0.02
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (228 bp):
TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAATATGTTTTCAACAGTGAAATAAG
TATGGACACTTTTATAAAAATGATATATACTTT
Found at i:173546 original size:32 final size:32
Alignment explanation
Indices: 173509--173573 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
173499 ATTAAGAGTT
173509 TTGTTTTATCAGTTGTGTTACTTATTTACAAC
1 TTGTTTTATCAGTTGTGTTACTTATTTACAAC
*
173541 TTGTTTTATCAGTTGTGTTACTTATTTGCAAC
1 TTGTTTTATCAGTTGTGTTACTTATTTACAAC
173573 T
1 T
173574 CCTTACCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.20, C:0.12, G:0.14, T:0.54
Consensus pattern (32 bp):
TTGTTTTATCAGTTGTGTTACTTATTTACAAC
Found at i:177419 original size:17 final size:17
Alignment explanation
Indices: 177397--177430 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
177387 CACGAAGTGT
177397 AAGATTACCAATGGGAA
1 AAGATTACCAATGGGAA
*
177414 AAGATTACCAGTGGGAA
1 AAGATTACCAATGGGAA
177431 TAAAAGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (17 bp):
AAGATTACCAATGGGAA
Found at i:177449 original size:18 final size:19
Alignment explanation
Indices: 177412--177450 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
177402 TACCAATGGG
177412 AAAAGATTACCAGTGGGAAT
1 AAAAGATTACCAG-GGGAAT
177432 AAAAGATTACCA-GGGAAT
1 AAAAGATTACCAGGGGAAT
177450 A
1 A
177451 GGATTACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.18
Consensus pattern (19 bp):
AAAAGATTACCAGGGGAAT
Found at i:181115 original size:25 final size:25
Alignment explanation
Indices: 181098--181152 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
181088 TTTAATATTT
*
181098 ATATTAATAGGATAATTTGATTTGA
1 ATATTAATAGGATAATTTAATTTGA
181123 ATATTAATAGGATAA-TTACACTTTGA
1 ATATTAATAGGATAATTTA-A-TTTGA
181149 ATAT
1 ATAT
181153 GTTAATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 2 0.07
25 16 0.59
26 9 0.33
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.42
Consensus pattern (25 bp):
ATATTAATAGGATAATTTAATTTGA
Found at i:181459 original size:20 final size:18
Alignment explanation
Indices: 181420--181470 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
181410 AGAATTTAAG
181420 AATATTTTTTTCTTGAAA
1 AATATTTTTTTCTTGAAA
181438 AATATTTTCTCTTCTT-AGAA
1 AATATTTT-T-TTCTTGA-AA
181458 AATATTCTTTTTC
1 AATATT-TTTTTC
181471 CTCCTTAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.28
19 5 0.17
20 14 0.48
21 2 0.07
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.55
Consensus pattern (18 bp):
AATATTTTTTTCTTGAAA
Found at i:181901 original size:88 final size:88
Alignment explanation
Indices: 181741--181909 Score: 202
Period size: 88 Copynumber: 1.9 Consensus size: 88
181731 AACGGAAAGA
* *
181741 TAATAATTTAGAAAATTAATTTAATAGTTTAGGATCATTATTTAAATAGTCTAAAATAATACATT
1 TAATAATTTAGAAAATTAATTTAATAATTTAGGATCATTATTTAAATAGTATAAAATAATACATT
* *
181806 AACTTAATTAATTATTTGACATT
66 AAATTAATAAATTATTTGACATT
** *
181829 TAATAATTTA-AAAATTAATTTAATAAATTT-TTATCATTATTT-TATGGAGTATAAAAT-ATAA
1 TAATAATTTAGAAAATTAATTTAAT-AATTTAGGATCATTATTTAAAT--AGTATAAAATAAT-A
*
181890 TATTAAATTAATAAATTATT
62 CATTAAATTAATAAATTATT
181910 ATTCACGTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
86 2 0.03
87 26 0.38
88 41 0.59
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (88 bp):
TAATAATTTAGAAAATTAATTTAATAATTTAGGATCATTATTTAAATAGTATAAAATAATACATT
AAATTAATAAATTATTTGACATT
Found at i:182440 original size:23 final size:23
Alignment explanation
Indices: 182414--182458 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
182404 CTTTTCTTGA
*
182414 AAAATATT-TTTTCTCCTTCTTAG
1 AAAATATTCTTTT-TCCTCCTTAG
182437 AAAATATTCTTTTTCCTCCTTA
1 AAAATATTCTTTTTCCTCCTTA
182459 TTTTTTTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (23 bp):
AAAATATTCTTTTTCCTCCTTAG
Found at i:183382 original size:19 final size:19
Alignment explanation
Indices: 183358--183400 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
183348 TTAATTAAAA
*
183358 TAAATAAAGTGAATCAAAT
1 TAAATAAAGTGAACCAAAT
* *
183377 TAAATAAATTGAACCTAAT
1 TAAATAAAGTGAACCAAAT
183396 TAAAT
1 TAAAT
183401 TTATAACATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (19 bp):
TAAATAAAGTGAACCAAAT
Found at i:185999 original size:16 final size:15
Alignment explanation
Indices: 185973--186003 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
185963 GGTTCATCCC
185973 GGTCATCCCGGGATA
1 GGTCATCCCGGGATA
185988 GGTCAGTCCCGGGATA
1 GGTCA-TCCCGGGATA
186004 ACGGCCGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.19
Consensus pattern (15 bp):
GGTCATCCCGGGATA
Found at i:186204 original size:22 final size:22
Alignment explanation
Indices: 186174--186221 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
186164 AAAGAAAAAA
*
186174 AAAACAAAAGAAAATAAATAAAT
1 AAAACAAAACAAAATAAAT-AAT
*
186197 AAAA-AAAACCAAATAAATAAT
1 AAAACAAAACAAAATAAATAAT
186218 AAAA
1 AAAA
186222 TAAATTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 12 0.52
23 4 0.17
ACGTcount: A:0.79, C:0.06, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAACAAAACAAAATAAATAAT
Found at i:186331 original size:38 final size:36
Alignment explanation
Indices: 186286--186675 Score: 282
Period size: 38 Copynumber: 10.6 Consensus size: 36
186276 AAACATTTTC
186286 AAACTATATATTATATATA-TTTAAAAATGTTTTTCAAA
1 AAACTATATATTATATATATTTTAAAAATG-TTTT--AA
* * *
186324 AAACTATATATTATATA-CTTTAAAAAATATTTTTAA
1 AAACTATATATTATATATATTTTAAAAAT-GTTTTAA
*
186360 AAACTATATATTATATATATGTTTTTAAAAATGTTTTCA
1 AAACTATATATTATATATA---TTTTAAAAATGTTTTAA
* *
186399 AAACTATATATTATTTA-AGTTTTCAAAATGATTTTAAA
1 AAACTATATATTATATATA-TTTTAAAAATG-TTTT-AA
*
186437 AAACTATATATTATATACATATTTTCAAAATGTTTTAA
1 AAACTATATATTATAT--ATATTTTAAAAATGTTTTAA
* * *
186475 AAATTATATATTATATATATATTTTTTCAAAAT-TTTAAA
1 AAACTATATA-T-TATATATA--TTTTAAAAATGTTTTAA
* * *
186514 AAACTATATATTATATA-GTTTTAAAAACTATATATTAT
1 AAACTATATATTATATATATTTTAAAAA-TGT-T-TTAA
* * * * *
186552 ATAC-ATATTTTCA-AAATATTTTAAAAACTATATT--
1 AAACTATATATT-ATATATATTTTAAAAA-TGTTTTAA
* *
186586 ATA-TATATATATATATATATTCT--AAATGTTTTAA
1 AAACTATATAT-TATATATATTTTAAAAATGTTTTAA
* * * *
186620 AAACTATATATTATATAAATTTTCAAAATCTTTCAA
1 AAACTATATATTATATATATTTTAAAAATGTTTTAA
186656 AAACTATATATTATATATAT
1 AAACTATATATTATATATAT
186676 ATTTCTAAAA
Statistics
Matches: 288, Mismatches: 35, Indels: 60
0.75 0.09 0.16
Matches are distributed among these distances:
32 4 0.01
33 3 0.01
34 29 0.10
35 16 0.06
36 60 0.21
37 19 0.07
38 80 0.28
39 40 0.14
40 36 0.12
41 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (36 bp):
AAACTATATATTATATATATTTTAAAAATGTTTTAA
Found at i:186544 original size:24 final size:25
Alignment explanation
Indices: 186507--186554 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
186497 TTTTTCAAAA
186507 TTTTAAAAAACTATATATTATATAG
1 TTTTAAAAAACTATATATTATATAG
186532 TTTT-AAAAACTATATATTATATA
1 TTTTAAAAAACTATATATTATATA
186555 CATATTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTTAAAAAACTATATATTATATAG
Found at i:186546 original size:63 final size:64
Alignment explanation
Indices: 186468--186594 Score: 188
Period size: 63 Copynumber: 2.0 Consensus size: 64
186458 TTTTCAAAAT
* *
186468 GTTTTAAAAATTATATATTATATATATATTTTTTCAAAAT-TTTAAAAAACTATA-TAT-TATAT
1 GTTTTAAAAACTATATATTATATACATA--TTTTCAAAATATTTAAAAAACTATATTATATATAT
186530 A
64 A
*
186531 GTTTTAAAAACTATATATTATATACATATTTTCAAAATATTTTAAAAACTATATTATATATATA
1 GTTTTAAAAACTATATATTATATACATATTTTCAAAATATTTAAAAAACTATATTATATATATA
186595 TATATATATA
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
61 10 0.17
62 13 0.22
63 29 0.50
64 6 0.10
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (64 bp):
GTTTTAAAAACTATATATTATATACATATTTTCAAAATATTTAAAAAACTATATTATATATATA
Found at i:186551 original size:101 final size:107
Alignment explanation
Indices: 186430--186636 Score: 327
Period size: 101 Copynumber: 2.0 Consensus size: 107
186420 TTCAAAATGA
*
186430 TTTTAAAAAACTATATATTATATACATATTTTCAAAATGTTTTAAAAA-T-TA-TATAT-TATAT
1 TTTTAAAAAACTATATATTATATACATATTTTCAAAATATTTTAAAAACTATATTATATATATAT
* *
186491 ATATATTTTTTCAAAAT-TTTAAAAAACTATATATTATATAG
66 ATATATATATTCAAAATGTTTAAAAAACTATATATTATATAG
186532 TTTT-AAAAACTATATATTATATACATATTTTCAAAATATTTTAAAAACTATATTATATATATAT
1 TTTTAAAAAACTATATATTATATACATATTTTCAAAATATTTTAAAAACTATATTATATATATAT
* *
186596 ATATATATATTCTAAATGTTTTAAAAACTATATATTATATA
66 ATATATATATTCAAAATGTTTAAAAAACTATATATTATATA
186637 AATTTTCAAA
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
101 42 0.44
102 5 0.05
103 2 0.02
104 5 0.05
105 19 0.20
106 22 0.23
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.47
Consensus pattern (107 bp):
TTTTAAAAAACTATATATTATATACATATTTTCAAAATATTTTAAAAACTATATTATATATATAT
ATATATATATTCAAAATGTTTAAAAAACTATATATTATATAG
Found at i:186618 original size:44 final size:43
Alignment explanation
Indices: 186542--186677 Score: 144
Period size: 44 Copynumber: 3.3 Consensus size: 43
186532 TTTTAAAAAC
*
186542 TATATAT-TATATACATATTTTCAAAATATTTTAAAAACTATA
1 TATATATATATATACATATATTCAAAATATTTTAAAAACTATA
* * *
186584 TTATATATATATATATATATATTCTAAATGTTTTAAAAAC--TA
1 -TATATATATATATACATATATTCAAAATATTTTAAAAACTATA
* *
186626 TATAT-TATATA-A-AT-T-TTCAAAATCTTTCAAAAACTATA
1 TATATATATATATACATATATTCAAAATATTTTAAAAACTATA
186664 TATTATATATATAT
1 TA-TATATATATAT
186678 TTCTAAAATC
Statistics
Matches: 80, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
36 16 0.20
37 1 0.01
38 6 0.08
39 4 0.05
40 12 0.15
41 5 0.06
42 2 0.03
43 7 0.09
44 27 0.34
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (43 bp):
TATATATATATATACATATATTCAAAATATTTTAAAAACTATA
Found at i:186658 original size:36 final size:36
Alignment explanation
Indices: 186587--186686 Score: 112
Period size: 36 Copynumber: 2.7 Consensus size: 36
186577 AACTATATTA
* * *
186587 TATATATATATATATATATTCTAAATGTTTT-AAAAAC
1 TATATAT-TATATAAATTTTCAAAAT-TTTTCAAAAAC
*
186624 TATATATTATATAAATTTTCAAAATCTTTCAAAAAC
1 TATATATTATATAAATTTTCAAAATTTTTCAAAAAC
*
186660 TATATATTATATATATATTTCTAAAAT
1 TATATATTATATAAAT-TTTC-AAAAT
186687 CATTTGCAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
35 3 0.05
36 36 0.65
37 11 0.20
38 5 0.09
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (36 bp):
TATATATTATATAAATTTTCAAAATTTTTCAAAAAC
Found at i:186661 original size:80 final size:79
Alignment explanation
Indices: 186518--186677 Score: 243
Period size: 80 Copynumber: 2.0 Consensus size: 79
186508 TTTAAAAAAC
* *
186518 TATATATTATATAGTTTTAAAAACTATATATTATATACATATTTTCAAAATATTTTAAAAACTAT
1 TATATATTATAAAGTTTTAAAAACTATATATTATATACATATTTTCAAAATATTTCAAAAACTAT
186583 ATTATATATATATATA
66 A-TAT-TATATATATA
* *
186599 TATATATTCTAAATGTTTTAAAAACTATATATTATATA-A-ATTTTCAAAATCTTTCAAAAACTA
1 TATATATTATAAA-GTTTTAAAAACTATATATTATATACATATTTTCAAAATATTTCAAAAACTA
186662 TATATTATATATATA
65 TATATTATATATATA
186677 T
1 T
186678 TTCTAAAATC
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
78 11 0.15
79 3 0.04
80 24 0.32
81 12 0.16
82 24 0.32
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (79 bp):
TATATATTATAAAGTTTTAAAAACTATATATTATATACATATTTTCAAAATATTTCAAAAACTAT
ATATTATATATATA
Found at i:189097 original size:42 final size:42
Alignment explanation
Indices: 189038--189121 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
189028 GTACTGTCCA
*
189038 CTTTTTGATCGGATTCGTCTCCATCCAGGGTTTTCTTCATCG
1 CTTTGTGATCGGATTCGTCTCCATCCAGGGTTTTCTTCATCG
*
189080 CTTTGTGATCGGGTTCGTCTCCATCCAGGGTTTTCTTCATCG
1 CTTTGTGATCGGATTCGTCTCCATCCAGGGTTTTCTTCATCG
189122 AAGTTGCCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.42
Consensus pattern (42 bp):
CTTTGTGATCGGATTCGTCTCCATCCAGGGTTTTCTTCATCG
Found at i:190769 original size:27 final size:27
Alignment explanation
Indices: 190731--190785 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
190721 CAAATCAACA
*
190731 ATATCAAAGAATCAACAAGGACTAATT
1 ATATCAAAGAATCAACAAGGAATAATT
*
190758 ATATCAAGGAATCAACAAGGAATAATT
1 ATATCAAAGAATCAACAAGGAATAATT
190785 A
1 A
190786 ACAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.22
Consensus pattern (27 bp):
ATATCAAAGAATCAACAAGGAATAATT
Done.