Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1200
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: 192638
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:4378 original size:157 final size:153
Alignment explanation
Indices: 4124--4489 Score: 344
Period size: 155 Copynumber: 2.4 Consensus size: 153
4114 ACCGAGTCAC
* * * * * *
4124 TTTTATGTCAAAGGTGTGCATTTAGGATAGGTTTGT-TCTTTTATTTATCCATTTTCGTGTCTTT
1 TTTTATGCCAAATGTATACATTTAGGATAGGTTTGTCT-TTTTACTTATCC-TTTTTGTGTCTTT
** * * ** * *** * **
4188 TAGGGTTATGGGTTACTTTCACATTGAAGGTATATCCA-AAGGGTATTTTGGTAATTTTTTTTAT
64 TAAAGTTATAGGATACTTTCACACCGAAAGTATA--CAGAA-CAAATTTTCGTAA-TTTCCTTAT
* *
4252 AATCAAGTCCTAAGTCATCACT-GAGTTGA
125 AACCAAGTCCTAAGTCATCACTAG-GTCGA
* *
4281 TTTTATGCTAAATGTATACATTTAGGATAGGTTTGTCTTTTTACTTATCCTTTTTGTGTTTTTTA
1 TTTTATGCCAAATGTATACATTTAGGATAGGTTTGTCTTTTTACTTATCCTTTTTGTGTCTTTTA
*
4346 AAGTTATTAGGATACTTTCACGCCGAAAGTATACATGAACAAATTTTCGTAATTTCCTTATAACC
66 AAGTTA-TAGGATACTTTCACACCGAAAGTATACA-GAACAAATTTTCGTAATTTCCTTATAACC
* *
4411 AAGTTCTAAGTCATCACTAGGTCGT
129 AAGTCCTAAGTCATCACTAGGTCGA
* ** * *
4436 TTTTATGCCAAATGTATGCATTTACTATAGGTTTATCCTTTTACTTAT-CTTTTT
1 TTTTATGCCAAATGTATACATTTAGGATAGGTTTGTCTTTTTACTTATCCTTTTT
4490 CATGCCTGTA
Statistics
Matches: 172, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
154 6 0.03
155 74 0.43
156 27 0.16
157 64 0.37
158 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (153 bp):
TTTTATGCCAAATGTATACATTTAGGATAGGTTTGTCTTTTTACTTATCCTTTTTGTGTCTTTTA
AAGTTATAGGATACTTTCACACCGAAAGTATACAGAACAAATTTTCGTAATTTCCTTATAACCAA
GTCCTAAGTCATCACTAGGTCGA
Found at i:5445 original size:16 final size:15
Alignment explanation
Indices: 5412--5442 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5402 TAATAATTTT
5412 ATTTAATTTTCAAAA
1 ATTTAATTTTCAAAA
*
5427 ATTTTATTTTCAAAA
1 ATTTAATTTTCAAAA
5442 A
1 A
5443 ATTCATTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAATTTTCAAAA
Found at i:5451 original size:14 final size:15
Alignment explanation
Indices: 5417--5450 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5407 ATTTTATTTA
* *
5417 ATTTTCAAAAATTTT
1 ATTTTCAAAAAATTC
5432 ATTTTCAAAAAATTC
1 ATTTTCAAAAAATTC
5447 ATTT
1 ATTT
5451 CGTACCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTCAAAAAATTC
Found at i:7783 original size:166 final size:166
Alignment explanation
Indices: 7230--7994 Score: 812
Period size: 166 Copynumber: 4.7 Consensus size: 166
7220 TCTACACGAG
* ** * * *
7230 AAAAATCCCC-CTAAAAAAATTTAC-AAATAAGAAAATTCAATTTTTCGAAAA-AGGATAATTTC
1 AAAAATCCCCTC-AAAAAAA-TTACAAAAT-AGAAAACTCCGTATTTCAAAAACAGGAAAATTTC
* * * * *
7292 AA-GAAAAAAATC-AAAA-TGAATGAAAATGAATGAATTTTTTAAAATTAATTTAATATGGAATA
63 AAGGAAAAAATTCAAAAACT-AATGAAAATGAAGGAATTTTTAAAAACTAATTTAATATGAAATA
* * *
7354 AATAATAATATTTTATGAATTTTGAAAATTAAAAACCAAG
127 AATAATAATATTTTATGAATTTTAAAAATTAAAAACAAAA
* *** * *** * *
7394 AAAAATCCCCT----GAAA--AGGGAATAGAAAGCTTTATATTTTAAAAACATGAAAATTTCAAG
1 AAAAATCCCCTCAAAAAAATTACAAAATAGAAAACTCCGTATTTCAAAAACAGGAAAATTTCAAG
* * *
7453 GAAAAAATTCAAAAACTAATGAAAATGAAGGAAATTTTAAAAACTGATTTACTATGAAATAAATA
66 GAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTAAAAACTAATTTAATATGAAATAAATA
*
7518 ATAATATTTTATAAATTTTAAAAATTAAAAACAAAA
131 ATAATATTTTATGAATTTTAAAAATTAAAAACAAAA
* * * *
7554 AAAAAT-CCCTCCAAAAAATTTACAGAAA-AGAAAACTCCGTATCTCAAAAATATGG-AGATTTC
1 AAAAATCCCCT-CAAAAAAATTACA-AAATAGAAAACTCCGTATTTCAAAAACA-GGAAAATTTC
* * * *
7616 AA-GAAAAAATTCAAAAACTAATGAAAATGAAGTAATTTTTGAAAACTAATTCAATAGGAAATAA
63 AAGGAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTAAAAACTAATTTAATATGAAATAA
7680 ATAATAATATTTTATGAATTTTAAAAATTAAAAACAAAA
128 ATAATAATATTTTATGAATTTTAAAAATTAAAAACAAAA
* * *
7719 AAAAATCACCCT-AAAAAAATTAACAAAATAAAAAACTCTGTATTTCAAAAATAGGAAAATTTCA
1 AAAAATC-CCCTCAAAAAAATT-ACAAAATAGAAAACTCCGTATTTCAAAAACAGGAAAATTTCA
* * *
7783 AGGAAAAAATT-AAAAACTAAAGAAAATGAAGGGATTTTTTAAAACTAATTTAATATGAAATAAA
64 AGGAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTAAAAACTAATTTAATATGAAATAAA
* * * *
7847 TAATAAAATTTGATGAATTTTAAAAATAAAAAACCAAGA
129 TAATAATATTTTATGAATTTTAAAAATTAAAAA-CAAAA
* * * * ** * * *
7886 AAAATTCCCTTGAAAAAAGTTACGGAATTGAAAACTCCGTATTTCGAAAACAAGAAAATTTCAA-
1 AAAAATCCCCTCAAAAAAATTACAAAATAGAAAACTCCGTATTTCAAAAACAGGAAAATTTCAAG
7950 GAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTAAAAACT
66 GAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTAAAAACT
7995 GATCTGATGA
Statistics
Matches: 502, Mismatches: 75, Indels: 46
0.81 0.12 0.07
Matches are distributed among these distances:
157 16 0.03
158 14 0.03
159 13 0.03
160 86 0.17
161 1 0.00
164 12 0.02
165 121 0.24
166 205 0.41
167 34 0.07
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (166 bp):
AAAAATCCCCTCAAAAAAATTACAAAATAGAAAACTCCGTATTTCAAAAACAGGAAAATTTCAAG
GAAAAAATTCAAAAACTAATGAAAATGAAGGAATTTTTAAAAACTAATTTAATATGAAATAAATA
ATAATATTTTATGAATTTTAAAAATTAAAAACAAAA
Found at i:12331 original size:156 final size:155
Alignment explanation
Indices: 11865--12318 Score: 581
Period size: 156 Copynumber: 2.9 Consensus size: 155
11855 AAAATCATCT
* ** *
11865 TAAGTAATAGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGTGGACTCAATGACAACC
1 TAAGTAATAGGATGAACCTATTCTAAATACCCA-CTTTGGCATAAAA-TGGACTCGATGACAACC
* * * * * *
11930 TAGGACTCGATTCTGATAAAATTACAAAAATGCCCTTATGGGTAGACCTTCGACTTGAAAGTAT-
64 TAGGACTCGGTTCT-AAAAAATTATAAAAATGCCCTTATAGGTATACCTTCGACATGAAAGTATC
*
11994 TTGGTAACCTTAATGGACACTAAAATGA
128 TCGGTAACCTTAATGGACACTAAAATGA
* * * * * * **
12022 TAAGTAATAGGATGAAACTATTCTATATACCCACATTTGGCATAACA-GCAGACCCGGTGATAGT
1 TAAGTAATAGGATGAACCTATTCTAAATACCCAC-TTTGGCATAAAATG--GACTCGATGACAAC
* * *
12086 CTATGACTCGGTTCTAAAAAATTATGAAAATGCCCCTATAGGTATACCTTCGACATGAAAGTATC
63 CTAGGACTCGGTTCTAAAAAATTATAAAAATGCCCTTATAGGTATACCTTCGACATGAAAGTATC
*
12151 -CGGTAACCTTAGTGGACACTAAAATGA
128 TCGGTAACCTTAATGGACACTAAAATGA
* *
12178 TAAGTTATAGGATGAACCTATTCTAAATACCCATCTTTGGCATAAAATGGACTTGATGACAACCT
1 TAAGTAATAGGATGAACCTATTCTAAATACCCA-CTTTGGCATAAAATGGACTCGATGACAACCT
* *
12243 AGGACTCGGTTCTTAAAAATTATAAAAATGCCCTTGTAGGTATACCTTCGACATGAAAGTATCTC
65 AGGACTCGGTTCTAAAAAATTATAAAAATGCCCTTATAGGTATACCTTCGACATGAAAGTATCTC
12308 GGTAACCTTAA
130 GGTAACCTTAA
12319 AGGATAAAAA
Statistics
Matches: 251, Mismatches: 39, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
155 69 0.27
156 120 0.48
157 62 0.25
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (155 bp):
TAAGTAATAGGATGAACCTATTCTAAATACCCACTTTGGCATAAAATGGACTCGATGACAACCTA
GGACTCGGTTCTAAAAAATTATAAAAATGCCCTTATAGGTATACCTTCGACATGAAAGTATCTCG
GTAACCTTAATGGACACTAAAATGA
Found at i:13426 original size:10 final size:10
Alignment explanation
Indices: 13411--13445 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
13401 CCAAATATCC
13411 TTTTTTCTTT
1 TTTTTTCTTT
13421 TTTTTTCTTT
1 TTTTTTCTTT
13431 TTTTCTTCTTCT
1 TTTT-TTCTT-T
13443 TTT
1 TTT
13446 CATCATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.61
11 5 0.22
12 4 0.17
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:14234 original size:165 final size:166
Alignment explanation
Indices: 13890--14533 Score: 566
Period size: 165 Copynumber: 3.9 Consensus size: 166
13880 ATTATATGTA
* * * * ** * *
13890 AAAAAATTAAAAA-TCAT-AAAATAGATTGAATTTTTCAAAATTGTTTTAATTTGAATTTAATGA
1 AAAAAATGAAAAACTTATGAAAATA-AATGAATTTTTCAAAAATAATTTAATATGAATTAAATGA
* * * * *
13953 CAAT-TTTAGATGAATTTTAAAAATTTTAAACCGAGAAAAATTTCTCACGAAAACATTTATGGAA
65 TAATATTT-GATGAATTTTAAAAATTATAAACCAAGAAAAA-TTCTCACGAAAACATTCACGGAA
* * * * * *
14017 TAGAAAACTCTGTTTTTCGAAAATAGAAGATTTTCAAAG
128 TAGAAAACTCCGTATTTCAAAAACAGAAAAATTTCAAAG
*
14056 -AAAAATGAAAAACTTATGAAAATAAATGAATTTTTCAAAAATAATTTACTATGAATTAAATGAT
1 AAAAAATGAAAAACTTATGAAAATAAATGAATTTTTCAAAAATAATTTAATATGAATTAAATGAT
* * * * *
14120 GATATTTGATGAATTCT-AAAATTATAAACCAAGAAAAATTC-CCCTGAAAATATTCACGGATTA
66 AATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATTCTCAC-GAAAACATTCACGGAATA
14183 GAAAACTCCGTATTTCAAAAACAGAAAAATTTCAAAG
130 GAAAACTCCGTATTTCAAAAACAGAAAAATTTCAAAG
* * * *
14220 AAAAAATGAAAAACTTATGAAAATAAATAAATTGTTCAAAACTAATTTAATGTGAATTAAATGAT
1 AAAAAATGAAAAACTTATGAAAATAAATGAATTTTTCAAAAATAATTTAATATGAATTAAATGAT
* * *
14285 AATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAA-TCT--CGAAAACTTTTACGGAGTAG
66 AATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATTCTCACGAAAACATTCACGGAATAG
* ** * *
14347 AAAACTTCGTATTTTGGAAAATA-AAAGAACTTT-AAGG
131 AAAACTCCGTA-TTTCAAAAACAGAAA-AA-TTTCAAAG
* * * * * *
14384 AAAAAAATGAAAAACTCATGAAACA-AAAGGGA-TTTTCTAAAACTGATTTAATGGTG-ATTAAA
1 -AAAAAATGAAAAACTTATGAAA-ATAAATGAATTTTTC-AAAAATAATTTAAT-ATGAATTAAA
* * * * * * * * *
14446 TAATAATATTTAATAAATTTTAAAAATTTTAAACTGATG-AAAATCCT-ATCGAAAAAAAT-ACG
62 TGATAATATTTGATGAATTTTAAAAATTATAAAC-CAAGAAAAATTCTCA-CGAAAACATTCACG
* *
14508 AAAAAGAAAACTCCGTATTTCAAAAA
125 GAATAGAAAACTCCGTATTTCAAAAA
14534 TAAGGGGAAT
Statistics
Matches: 397, Mismatches: 63, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
163 30 0.08
164 66 0.17
165 187 0.47
166 82 0.21
167 25 0.06
168 7 0.02
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.31
Consensus pattern (166 bp):
AAAAAATGAAAAACTTATGAAAATAAATGAATTTTTCAAAAATAATTTAATATGAATTAAATGAT
AATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATTCTCACGAAAACATTCACGGAATAG
AAAACTCCGTATTTCAAAAACAGAAAAATTTCAAAG
Found at i:16247 original size:13 final size:13
Alignment explanation
Indices: 16229--16261 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
16219 GCCGTTGGGC
16229 ACAATGTATCGAT
1 ACAATGTATCGAT
16242 ACAATGTATCGAT
1 ACAATGTATCGAT
16255 ACAATGT
1 ACAATGT
16262 CCCATGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:17005 original size:22 final size:20
Alignment explanation
Indices: 16979--17030 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
16969 CAAATTATAA
16979 CTCCCTTTTAATTAAAAATTTT
1 CTCCCTTTTAA-TAAAAA-TTT
**
17001 CTCCCCCTTAATAAAAATTT
1 CTCCCTTTTAATAAAAATTT
17021 CTCCCATTTT
1 CTCCC-TTTT
17031 TTGTTTCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 8 0.32
21 8 0.32
22 9 0.36
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (20 bp):
CTCCCTTTTAATAAAAATTT
Found at i:17021 original size:20 final size:22
Alignment explanation
Indices: 16986--17025 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
16976 TAACTCCCTT
16986 TTAATTAAAAATTTTCTCCCCC
1 TTAATTAAAAATTTTCTCCCCC
17008 TTAA-TAAAAA-TTTCTCCC
1 TTAATTAAAAATTTTCTCCC
17026 ATTTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAATTAAAAATTTTCTCCCCC
Found at i:18978 original size:13 final size:13
Alignment explanation
Indices: 18960--19016 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
18950 CATAAAGTGT
18960 TGTATCGATACAA
1 TGTATCGATACAA
18973 TGTATCGATACATAA
1 TGTATCGATAC--AA
18988 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
19005 TGTATCGATACA
1 TGTATCGATACA
19017 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:18995 original size:32 final size:32
Alignment explanation
Indices: 18940--19037 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
18930 TTCAATGATT
18940 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
18973 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
19005 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
19037 T
1 T
19038 TTAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:18997 original size:19 final size:18
Alignment explanation
Indices: 18938--19035 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
18928 AATTCAATGA
18938 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
18957 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
18973 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
18989 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
19005 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
19021 TTTTGTATCGATACA
1 -TTTGTATCGATACA
19036 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:26063 original size:14 final size:14
Alignment explanation
Indices: 26032--26074 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
26022 AGTCAAAAGT
**
26032 AAACACAAAAAATG
1 AAACACAAAAAAAA
26046 AAACACAAAAAAAA
1 AAACACAAAAAAAA
26060 AAACA-AAACAAAAA
1 AAACACAAA-AAAAA
26074 A
1 A
26075 GGTGCAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 3 0.12
14 23 0.88
ACGTcount: A:0.81, C:0.14, G:0.02, T:0.02
Consensus pattern (14 bp):
AAACACAAAAAAAA
Found at i:26340 original size:17 final size:15
Alignment explanation
Indices: 26313--26372 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
26303 TGTTCTTTTC
26313 CAAAAAAGAAACAAAA
1 CAAAAAAGAAA-AAAA
*
26329 CAAAAAAGGAAAAAA
1 CAAAAAAGAAAAAAA
* *
26344 -AAAGAAGAAACAAA
1 CAAAAAAGAAAAAAA
26358 CAAACAAA-AAAAAAA
1 CAAA-AAAGAAAAAAA
26373 GAAGAGAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
14 11 0.31
15 13 0.36
16 12 0.33
ACGTcount: A:0.82, C:0.10, G:0.08, T:0.00
Consensus pattern (15 bp):
CAAAAAAGAAAAAAA
Found at i:26354 original size:30 final size:26
Alignment explanation
Indices: 26314--26377 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 26
26304 GTTCTTTTCC
26314 AAAA-AAGAAACAAAACAAAAAAGGAAAAA
1 AAAAGAAGAAAC-AAAC-AAAAA--AAAAA
*
26343 AAAAGAAGAAACAAACAAACAAAAAA
1 AAAAGAAGAAACAAACAAAAAAAAAA
26369 AAAAGAAGA
1 AAAAGAAGA
26378 GAAAGGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 14 0.42
28 4 0.12
29 8 0.24
30 7 0.21
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (26 bp):
AAAAGAAGAAACAAACAAAAAAAAAA
Found at i:27368 original size:31 final size:30
Alignment explanation
Indices: 27323--27573 Score: 265
Period size: 31 Copynumber: 8.0 Consensus size: 30
27313 GTCAAATACC
* *
27323 TTCTTAAAGTCCACGACTCAGTGGCAATCTC
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTT
*
27354 TTCTCAAAGCCCACGACTCAGTGGCAT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
27383 TGTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 T-TCTCAAAGTCCACGACTCAGTGGCAT-CTT
*
27415 TTCTTTAAAG-CCACGACTCAGTGGCAT-TT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCTT
*
27444 TGTCTCAAAGTCCACGACTCAGTGGCATTTT
1 T-TCTCAAAGTCCACGACTCAGTGGCATCTT
27475 TTCTTCAAAGTCCACGACTCAGTGGCATCCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAT-CTT
* * *
27507 TTCTTCAAAGCCCACAACTCCGTGGCACTCTTT
1 TTC-TCAAAGTCCACGACTCAGTGGCA-TC-TT
* * *
27540 TTCCTTCTAAGTCCACAACTCCGTGGCACTCTT
1 TT-C-TCAAAGTCCACGACTCAGTGGCA-TCTT
27573 T
1 T
27574 GTTCCGTTTA
Statistics
Matches: 196, Mismatches: 12, Indels: 22
0.85 0.05 0.10
Matches are distributed among these distances:
29 10 0.05
30 48 0.24
31 69 0.35
32 35 0.18
33 8 0.04
34 26 0.13
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:27429 original size:61 final size:61
Alignment explanation
Indices: 27328--27567 Score: 288
Period size: 61 Copynumber: 3.9 Consensus size: 61
27318 ATACCTTCTT
*
27328 AAAGTCCACGACTCAGTGGCAATCTCTTC-TCAAAGCCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTTCAAAGCCCACGACTCAGTGGCATTTTGTCTC
*
27389 AAAGTCCACGACTCAGTGGCATCCTTTTCTTTAAAG-CCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGCAT-CTTTTCTTCAAAGCCCACGACTCAGTGGCATTTTGTCTC
* *
27450 AAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGTCCACGACTCAGTGGCATCCTTT-TCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGCCCACGACTCAGTGGCAT--TTTGTC-TC
* * * * * * *
27513 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA-TC-TTTT-CTTCAAAGCCCACGACTCAGTGGCA
27568 CTCTTTGTTC
Statistics
Matches: 159, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
60 13 0.08
61 89 0.56
62 7 0.04
63 23 0.14
64 1 0.01
65 4 0.03
66 22 0.14
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGCCCACGACTCAGTGGCATTTTGTCTC
Found at i:27485 original size:92 final size:92
Alignment explanation
Indices: 27326--27538 Score: 315
Period size: 92 Copynumber: 2.3 Consensus size: 92
27316 AAATACCTTC
*
27326 TTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCTCAA
1 TTAAAGCCCACGACTCAGTGGC-ATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCTCAA
27391 AGTCCACGACTCAGTGGCATCCTTTTCT
65 AGTCCACGACTCAGTGGCATCCTTTTCT
* * *
27419 TTAAAG-CCACGACTCAGTGGCAT-TTTGTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTCA
1 TTAAAGCCCACGACTCAGTGGCATCTCT-TCTCAAAGCCCACGACTCAGTGGCATTTTGTC-TCA
27482 AAGTCCACGACTCAGTGGCATCCTTTTCT
64 AAGTCCACGACTCAGTGGCATCCTTTTCT
* * *
27511 TCAAAGCCCACAACTCCGTGGCA-CTCTT
1 TTAAAGCCCACGACTCAGTGGCATCTCTT
27539 TTTCCTTCTA
Statistics
Matches: 109, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
90 2 0.02
91 32 0.29
92 53 0.49
93 22 0.20
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (92 bp):
TTAAAGCCCACGACTCAGTGGCATCTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCTCAAA
GTCCACGACTCAGTGGCATCCTTTTCT
Found at i:27566 original size:66 final size:68
Alignment explanation
Indices: 27387--27970 Score: 434
Period size: 66 Copynumber: 8.9 Consensus size: 68
27377 GCATTTTGTC
* * * * *
27387 TCAAAGTCCACGACTCAGTGGCATCC-TTTT-CTTTAAAG-CCACGACTCAGTGGCAT-TTTG-T
1 TCAAAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTTAAGTCCACGACTCCGTGGCATCCTTGTT
27447 -C--
65 CCTT
* * * ** *
27448 TCAAAGTCCACGACTCAGTGGCA--TTTTTTCTTCAAAGTCCACGACTCAGTGGCATCCTT-TT-
1 TCAAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACGACTCCGTGGCATCCTTGTTC
27509 C-T
66 CTT
* * * *
27511 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACTCTTTGT
1 TCAAAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAGTCCACGACTCCGTGGCA-TCCTTGT
27576 TCCGTT
64 TCC-TT
* * *
27582 T--AAGTCCACGA-TCCCGTGGCACCTTGTTCCTTTTCAGTCCACGACTCCGTGGCA-CC---TT
1 TCAAAGTCCACAACT-CCGTGGCACCTTTTTCCTTTTAAGTCCACGACTCCGTGGCATCCTTGTT
*
27640 CTTT
65 CCTT
* *
27644 TCAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTTAAGTTCACGAC-CTCGTGGCAT-CTTG
1 TCAAAGTCCACAACTCCGTGGCAC-CTTT-TTCCTTTTAAGTCCACGACTC-CGTGGCATCCTTG
27707 TTCCTT
63 TTCCTT
* * * * * * *
27713 T-TAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTTAAGCCCACAACTCTGTGGCA-CCTTTTT
1 TCAAAGTCCACAACTCCGTGGCACCTTTTTC-CTTTTAAGTCCACGACTCCGTGGCATCCTTGTT
*
27776 CTTT
65 CCTT
* * * * *
27780 TCAAAGCCCACCACTCCGTGGCACC-TTTTCTTTTTAAGTCCACGACCCCGTGGCA-CCTTATTC
1 TCAAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACGACTCCGTGGCATCCTTGTTC
27843 CTT
66 CTT
* ** * * * * *
27846 TCAAAGTCCACAA-TGCCGTGGCACCTTCTT--TTCAAAGCCCACAACTACGTGGCACTCTTTCT
1 TCAAAGTCCACAACT-CCGTGGCACCTTTTTCCTTTTAAGTCCACGACTCCGTGGCA-TCCTTGT
*
27908 CCCTT
64 TCCTT
* * * * *
27913 TTAAAGTCCACAACTTCGTGGCACCTTATTCCTTTTAAGTCCACAACTTCGTGGCATC
1 TCAAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACGACTCCGTGGCATC
27971 TTTCAACCTT
Statistics
Matches: 428, Mismatches: 59, Indels: 65
0.78 0.11 0.12
Matches are distributed among these distances:
59 4 0.01
60 7 0.02
61 40 0.09
62 7 0.02
63 23 0.05
64 17 0.04
65 24 0.06
66 107 0.25
67 76 0.18
68 77 0.18
69 44 0.10
71 2 0.00
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.33
Consensus pattern (68 bp):
TCAAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACGACTCCGTGGCATCCTTGTTC
CTT
Found at i:27660 original size:133 final size:128
Alignment explanation
Indices: 27486--27972 Score: 466
Period size: 133 Copynumber: 3.7 Consensus size: 128
27476 TCTTCAAAGT
* * * *
27486 CCACGACTCAGTGGCATCCTTT-TCTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAA
1 CCACAACTCCGTGGCA-CCTTTCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTTAA
27550 GTCCACAACTCCGTGGCACTCTTTGTTCCGTTTAAGTCCACGATCCCGTGGCACCTTGTTCCTTT
64 GTCCACAACTCCGTGGCA-TC-TTGTTCC-TTTAAGTCCAC-ATCCCGTGGCACCTT-TTCCTTT
*
27615 TCAGT
124 TCAGC
*
27620 CCACGACTCCGTGGCACC-TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTTAA
1 CCACAACTCCGTGGCACCTTTCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTT-TTCCTTTTAA
* * * * *
27684 GTTCACGAC-CTCGTGGCATCTTGTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
64 GTCCACAACTC-CGTGGCATCTTGTTCC-TTTAAGTCCACATC-CCGTGGCACC-TTTTC-CTTT
*
27748 TAAGC
124 TCAGC
* * *
27753 CCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACC-TTTTCTTTTTAA
1 CCACAACTCCGTGGCACC--TTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAA
* * * * *
27817 GTCCACGACCCCGTGGCACCTTATTCCTTTCAAAGTCCACAATGCCGTGGCACC--TT-CTTTTC
64 GTCCACAACTCCGTGGCATCTTGTTCCTTT--AAGTCCAC-ATCCCGTGGCACCTTTTCCTTTTC
27879 AAAGC
126 --AGC
* * * * *
27884 CCACAACTACGTGGCACTCTTTCTCCCTTTTAAAGTCCACAACTTCGTGGCACCTTATTCCTTTT
1 CCACAACTCCGTGGCAC-CTTTCT---TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
*
27949 AAGTCCACAACTTCGTGGCATCTT
62 AAGTCCACAACTCCGTGGCATCTT
27973 TCAACCTTTT
Statistics
Matches: 298, Mismatches: 35, Indels: 40
0.80 0.09 0.11
Matches are distributed among these distances:
129 4 0.01
130 5 0.02
131 22 0.07
132 36 0.12
133 114 0.38
134 86 0.29
135 2 0.01
136 29 0.10
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (128 bp):
CCACAACTCCGTGGCACCTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
CCACAACTCCGTGGCATCTTGTTCCTTTAAGTCCACATCCCGTGGCACCTTTTCCTTTTCAGC
Found at i:27666 original size:99 final size:99
Alignment explanation
Indices: 27482--27869 Score: 380
Period size: 99 Copynumber: 3.9 Consensus size: 99
27472 TTTTTCTTCA
* ** *
27482 AAGTCCACGACTCAGTGGCATCCTT-TT-CTTCAAAGCCCACAACTCCGTGGCACTCTTT-TTCC
1 AAGTCCACGAC-CCGTGGCA-CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTTTCTT--
* * *
27544 TTCTAAGTCCACAACTCCGTGGCACTCTTTGTTCCGTTT
61 TTCAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
* *
27583 AAGTCCACGATCCCGTGGCACCTTGTTCCTTTTCAGTCCACGACTCCGTGGCACC-TTCTTTTCA
1 AAGTCCACGA-CCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCTTTTCA
27647 AAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
65 AAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
* * *
27682 AAGTTCACGACCTCGTGGCATCTTGTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGTCCACGACC-CGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACC--TTTCTTTT
** *
27747 TTAAGCCCACAACTCTGTGGCAC-CTTT-TT-CTTTT
63 CAAAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
* * * * * *
27781 CAAAGCCCACCACTCCGTGGCACCTT-TTCTTTTTAAGTCCACGACCCCGTGGCACCTTATTCCT
1 --AAGTCCACGAC-CCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACC-T-TTCTT
*
27845 TTCAAAGTCCACAA-TGCCGTGGCAC
61 TTCAAAGCCCACAACT-CCGTGGCAC
27870 CTTCTTTTCA
Statistics
Matches: 244, Mismatches: 30, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
98 2 0.01
99 91 0.37
100 57 0.23
101 44 0.18
102 50 0.20
ACGTcount: A:0.18, C:0.34, G:0.15, T:0.32
Consensus pattern (99 bp):
AAGTCCACGACCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTCTTTTCAA
AGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
Found at i:27958 original size:33 final size:33
Alignment explanation
Indices: 27482--27968 Score: 386
Period size: 34 Copynumber: 14.6 Consensus size: 33
27472 TTTTTCTTCA
* * **
27482 AAGTCCACGACTCAGTGGCATCCTT-TT-CTTCA
1 AAGTCCACAACTCCGTGGCA-CCTTGTTCCTTTT
* * *
27514 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCAC-CTTGTTCCTTTT
*
27548 AAGTCCACAACTCCGTGGCACTCTTTGTTCCGTTT
1 AAGTCCACAACTCCGTGGCAC-C-TTGTTCCTTTT
*
27583 AAGTCCACGA-TCCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACT-CCGTGGCACCTTGTTCCTTTT
* * * **
27616 CAGTCCACGACTCCGTGGCACCTTCTT--TTCA
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
*
27647 AAGCCCACAACTCCGTGGCACTCTTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCAC-C-TTGTTCCTTTT
* * *
27682 AAGTTCACGAC-CTCGTGGCATCTTGTTCCTTTT
1 AAGTCCACAACTC-CGTGGCACCTTGTTCCTTTT
* * *
27715 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTT
1 AAGTCCACAACTCCGTGGCACCTTGTTC-CTTTT
* * *
27749 AAGCCCACAACTCTGTGGCACCTT-TTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * *
27781 CAAAGCCCACCACTCCGTGGCACCTT-TTCTTTTT
1 --AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
* * * *
27815 AAGTCCACGACCCCGTGGCACCTTATTCCTTTCA
1 AAGTCCACAACTCCGTGGCACCTTGTTCCTTT-T
* **
27849 AAGTCCACAA-TGCCGTGGCACCTTCTT--TTCA
1 AAGTCCACAACT-CCGTGGCACCTTGTTCCTTTT
* *
27880 AAGCCCACAACTACGTGGCACTCTT-TCTCCCTTTT
1 AAGTCCACAACTCCGTGGCAC-CTTGT-T-CCTTTT
* *
27915 AAAGTCCACAACTTCGTGGCACCTTATTCCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
*
27949 AAGTCCACAACTTCGTGGCA
1 AAGTCCACAACTCCGTGGCA
27969 TCTTTCAACC
Statistics
Matches: 377, Mismatches: 52, Indels: 51
0.79 0.11 0.11
Matches are distributed among these distances:
31 40 0.11
32 53 0.14
33 99 0.26
34 116 0.31
35 49 0.13
36 20 0.05
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.33
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
Found at i:28055 original size:32 final size:31
Alignment explanation
Indices: 27982--28244 Score: 418
Period size: 32 Copynumber: 8.2 Consensus size: 31
27972 TTCAACCTTT
27982 TTCTAAAGCCCACACAAGTCGGTGGCAACCTTC
1 TTCTAAAGCCCACACAAGTCGGTGGCAACC--C
*
28015 TTCTAAAGCCCACACAAGTTGGTGGCAATCCC
1 TTCTAAAGCCCACACAAGTCGGTGGCAA-CCC
*
28047 TTCTAAAGCCCACACAAGTTGGTGGCAACCC
1 TTCTAAAGCCCACACAAGTCGGTGGCAACCC
28078 TTTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 -TTCTAAAGCCCACACAAGTCGGTGGCAACCC
28110 TTCTCAAAGCCCACACAAGTCGGTGGCAACCC
1 TTCT-AAAGCCCACACAAGTCGGTGGCAACCC
28142 TCTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 T-TCTAAAGCCCACACAAGTCGGTGGCAACCC
28174 TCTCTAAAGCCCACACAAGTCGGTGGCAACCTTC
1 T-TCTAAAGCCCACACAAGTCGGTGGCAACC--C
*
28208 TTCTAAAGCCCACACAAGTCGGTGGTAACCC
1 TTCTAAAGCCCACACAAGTCGGTGGCAACCC
28239 TTCTAA
1 TTCTAA
28245 GTCCAATGTA
Statistics
Matches: 221, Mismatches: 3, Indels: 14
0.93 0.01 0.06
Matches are distributed among these distances:
31 14 0.06
32 145 0.66
33 58 0.26
34 4 0.02
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (31 bp):
TTCTAAAGCCCACACAAGTCGGTGGCAACCC
Found at i:28284 original size:21 final size:21
Alignment explanation
Indices: 28260--28327 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
28250 ATGTAGCTGG
28260 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* ** *
28281 CCTTCAAGTCCAATATCGTTGG--
1 CCTTGAA-T-CAGCA-CATTGGCA
28303 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
28324 CCTT
1 CCTT
28328 CAAGTCCAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 5 0.15
20 3 0.09
21 11 0.32
22 7 0.21
23 3 0.09
24 5 0.15
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:28302 original size:24 final size:24
Alignment explanation
Indices: 28275--28346 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
28265 AATCAGCACA
28275 TTGGCACCTTCAAGTCCAATATCG
1 TTGGCACCTTCAAGTCCAATATCG
* ** *
28299 TTGG--CCTTGAA-T-CAGCA-CA
1 TTGGCACCTTCAAGTCCAATATCG
28318 TTGGCACCTTCAAGTCCAATATCG
1 TTGGCACCTTCAAGTCCAATATCG
28342 TTGGC
1 TTGGC
28347 CTTGAATCAG
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 5 0.14
20 3 0.09
21 7 0.20
22 7 0.20
23 3 0.09
24 10 0.29
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (24 bp):
TTGGCACCTTCAAGTCCAATATCG
Found at i:28304 original size:43 final size:43
Alignment explanation
Indices: 28237--28602 Score: 390
Period size: 43 Copynumber: 8.0 Consensus size: 43
28227 CGGTGGTAAC
* *
28237 CCTTCTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 CCTTC-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
28281 CCTTCAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCA
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
28324 CCTTCAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
28367 CCATCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 CC-T--TC---AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
28416 CCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
28459 CCCTCATCTTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 -CCT--TC----AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
28509 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCG
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
28552 CCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 CC----T--TC---AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC
28603 GTCTTTGTCA
Statistics
Matches: 278, Mismatches: 22, Indels: 36
0.83 0.07 0.11
Matches are distributed among these distances:
43 150 0.54
44 9 0.03
46 4 0.01
47 2 0.01
48 1 0.00
49 40 0.14
50 35 0.13
52 37 0.13
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (43 bp):
CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:28416 original size:92 final size:91
Alignment explanation
Indices: 28237--28602 Score: 508
Period size: 92 Copynumber: 4.0 Consensus size: 91
28227 CGGTGGTAAC
* * *
28237 CCTTCTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT--TC---AAGTCCAATAT
1 CCTTC-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATAT
*
28297 CGTTGGCCTTGAATCAGCACATTGGCA
65 CGCTGGCCTTGAATCAGCACATTGGCA
* *
28324 CCTTCAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATGT
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGTCCAATAT
*
28389 AGCTGGCCTTGAATCAGCACATTGGCA
65 CGCTGGCCTTGAATCAGCACATTGGCA
* * *
28416 CCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATG
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTCATC-TTTAAGTCCAATA
28481 TCGCTGGCCTTGAATCAGCACATTGGCA
64 TCGCTGGCCTTGAATCAGCACATTGGCA
* *
28509 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC----TCATCTTTAAGTCCAA
*
28574 TATCGCTGGCCTTGAATCAGCATATTGGC
62 TATCGCTGGCCTTGAATCAGCACATTGGC
28603 GTCTTTGTCA
Statistics
Matches: 250, Mismatches: 17, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
86 36 0.14
87 6 0.02
89 2 0.01
92 83 0.33
93 81 0.32
95 37 0.15
96 5 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (91 bp):
CCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATATC
GCTGGCCTTGAATCAGCACATTGGCA
Found at i:28588 original size:52 final size:52
Alignment explanation
Indices: 28510--28654 Score: 254
Period size: 52 Copynumber: 2.8 Consensus size: 52
28500 ACATTGGCAC
28510 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
*
28562 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * *
28614 CTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
28655 ACTTTCATCT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:29534 original size:13 final size:13
Alignment explanation
Indices: 29516--29572 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
29506 CATAAAGTGT
29516 TGTATCGATACAA
1 TGTATCGATACAA
29529 TGTATCGATACATAA
1 TGTATCGATAC--AA
29544 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
29561 TGTATCGATACA
1 TGTATCGATACA
29573 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:29551 original size:32 final size:32
Alignment explanation
Indices: 29496--29593 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
29486 TTCAACGATT
29496 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
29529 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
29561 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
29593 T
1 T
29594 TTAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:29553 original size:19 final size:18
Alignment explanation
Indices: 29494--29591 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
29484 AATTCAACGA
29494 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
29513 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
29529 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
29545 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
29561 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
29577 TTTTGTATCGATACA
1 -TTTGTATCGATACA
29592 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:37397 original size:3 final size:3
Alignment explanation
Indices: 37389--37434 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
37379 CTTCTTGATT
* * *
37389 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA CCA TCG TCA TCT TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
37435 TATCTTTGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.28, C:0.35, G:0.02, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:37986 original size:32 final size:34
Alignment explanation
Indices: 37905--37994 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 34
37895 ATTGTTTACC
* *
37905 TTTAAGGCTAAGGTATAACC-TTACAACCCTATCT
1 TTTAAGGCTAAGATAGAACCTTTACAA-CCTATCT
37939 TTTACAAAGGCTAAGATAGAACCTTTAC-A-CTATCT
1 TTT---AAGGCTAAGATAGAACCTTTACAACCTATCT
37974 TTTAAGGCTAAGATAGAACCT
1 TTTAAGGCTAAGATAGAACCT
37995 CTCAATCACT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
32 18 0.36
34 3 0.06
35 9 0.18
37 16 0.32
38 4 0.08
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (34 bp):
TTTAAGGCTAAGATAGAACCTTTACAACCTATCT
Found at i:38543 original size:20 final size:19
Alignment explanation
Indices: 38517--38567 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
38507 CTGCCAATTT
**
38517 TATGTATCAATATAATTCA
1 TATGTATCAATATAATGAA
*
38536 TGATGTATCGATATAATGAA
1 T-ATGTATCAATATAATGAA
38556 TATGTATCAATA
1 TATGTATCAATA
38568 CATTGTATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (19 bp):
TATGTATCAATATAATGAA
Found at i:38911 original size:20 final size:20
Alignment explanation
Indices: 38883--38957 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
38873 TCATACCCTG
38883 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
38903 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
38923 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
38943 ATGTATCGATACATT
1 ATGTATCGATACATT
38958 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:38950 original size:40 final size:39
Alignment explanation
Indices: 38883--38960 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
38873 TCATACCCTG
* *
38883 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
38923 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
38961 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:46993 original size:37 final size:33
Alignment explanation
Indices: 46936--47035 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 33
46926 ATTATTTACC
* * * *
46936 TTTAAGGCTATGGTATAACCTTGCAACCCTATCT
1 TTTAAGGCTAAGATAGAACCTT-CAACACTATCT
*
46970 TTTACAAAGGCTAAGATAGAACC-TCTACACTATCT
1 TTT---AAGGCTAAGATAGAACCTTCAACACTATCT
47005 TTTAAGGCTAAGATAGAACCTCTCAATCACT
1 TTTAAGGCTAAGATAGAACCT-TCAA-CACT
47036 TGGAGAATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
32 17 0.31
34 6 0.11
35 16 0.30
36 1 0.02
37 14 0.26
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (33 bp):
TTTAAGGCTAAGATAGAACCTTCAACACTATCT
Found at i:47524 original size:14 final size:14
Alignment explanation
Indices: 47505--47532 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47495 TACACTATAT
47505 CGATACATGAACAG
1 CGATACATGAACAG
47519 CGATACATGAACAG
1 CGATACATGAACAG
47533 TGATGAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
CGATACATGAACAG
Found at i:47632 original size:19 final size:20
Alignment explanation
Indices: 47585--47634 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
47575 TACCAATTTT
**
47585 ATGTATCGATATAATTCATG
1 ATGTATCGATATAATTCAAC
* *
47605 ATTTATCGATATAA-TGAAC
1 ATGTATCGATATAATTCAAC
47624 ATGTATCGATA
1 ATGTATCGATA
47635 CATTATATCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATATAATTCAAC
Found at i:49329 original size:13 final size:13
Alignment explanation
Indices: 49311--49335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49301 CTTTTTCCTA
49311 TGTATCGATACAC
1 TGTATCGATACAC
49324 TGTATCGATACA
1 TGTATCGATACA
49336 ATATCCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:49333 original size:33 final size:33
Alignment explanation
Indices: 49291--49355 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
49281 TTGGACATAA
** * *
49291 TGTATCGATACTTTTTCCTATGTATCGATACAC
1 TGTATCGATACAATATCCCATGTATCGATACAC
49324 TGTATCGATACAATATCCCATGTATCGATACA
1 TGTATCGATACAATATCCCATGTATCGATACA
49356 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATATCCCATGTATCGATACAC
Found at i:49469 original size:20 final size:19
Alignment explanation
Indices: 49406--49475 Score: 95
Period size: 19 Copynumber: 3.6 Consensus size: 19
49396 ACAATTCTTT
*
49406 ATGTATCAATACAATGAAC
1 ATGTATCGATACAATGAAC
*
49425 ATGTATCAATACAATGAAC
1 ATGTATCGATACAATGAAC
* *
49444 ATGTATCGATACAAAGCAAT
1 ATGTATCGATACAATG-AAC
49464 ATGTATCGATAC
1 ATGTATCGATAC
49476 TTCTAGGCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 33 0.70
20 14 0.30
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:49488 original size:20 final size:21
Alignment explanation
Indices: 49465--49503 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
49455 CAAAGCAATA
49465 TGTATCGATAC-TTCTAGGCT
1 TGTATCGATACTTTCTAGGCT
49485 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
49504 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGCT
Found at i:54516 original size:16 final size:16
Alignment explanation
Indices: 54479--54513 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
54469 CCCTAAAAGT
54479 TAAATTATTATTATAA
1 TAAATTATTATTATAA
54495 TAAATTATTA-TATAA
1 TAAATTATTATTATAA
54510 TAAA
1 TAAA
54514 ATTTTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATTATTATTATAA
Found at i:54852 original size:11 final size:12
Alignment explanation
Indices: 54836--54868 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
54826 GAATAAAAAT
54836 AATAAAATT-AA
1 AATAAAATTGAA
54847 AATAAAATTGAA
1 AATAAAATTGAA
54859 AATTAAAATT
1 AA-TAAAATT
54869 TTATTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 4 0.20
13 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
AATAAAATTGAA
Found at i:54922 original size:22 final size:21
Alignment explanation
Indices: 54897--54957 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
54887 TTAATTATTT
54897 TTATTTT-AATATTAAATTCAAA
1 TTATTTTAAAT-TTAAATT-AAA
* *
54919 TTATTATAAATTTATGATTAAA
1 TTATTTTAAATTTA-AATTAAA
54941 TTATTTTAAATTTAAAT
1 TTATTTTAAATTTAAAT
54958 AATTTCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 2 0.06
22 25 0.76
23 6 0.18
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTATTTTAAATTTAAATTAAA
Found at i:55931 original size:127 final size:129
Alignment explanation
Indices: 55768--56012 Score: 336
Period size: 128 Copynumber: 1.9 Consensus size: 129
55758 GACTCCCCTG
* * *
55768 CTCAAACACCCTCGTTTTGAATCTCATTTGCCATAAAATTGTTGTTC-TTGTGCTTGATGAAAAG
1 CTCAAACACCCTCGGTTTGAATCTCATTTGCCATAAAATTGTTCTACTTTGTGCTTGAT-AAAAG
* **
55832 -ATACTATTTGTTTGTTCATTGCATCCAAGCTTTTGGCTCT-ACATTTGTTGCATGAAATCTCTT
65 AATACTACTTGTTTGTTCATTGCATCCAAGAATTTGGCT-TAACATTTGTTGCATGAAATCTCTT
55895 A
129 A
*
55896 CTCAAACA-CCTGGGTTTGAATCTCATTTGCCATAAAATTGTTCTACTTTGTGCTTGATAAAAGA
1 CTCAAACACCCTCGGTTTGAATCTCATTTGCCATAAAATTGTTCTACTTTGTGCTTGATAAAAGA
* * * * *
55960 ATACTGCTTGTTTTTTCCTTGCATCCGAGAATTTGGCTTAATATTTGTTGCAT
66 ATACTACTTGTTTGTTCATTGCATCCAAGAATTTGGCTTAACATTTGTTGCAT
56013 TAATCCCCTG
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
127 40 0.39
128 62 0.61
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (129 bp):
CTCAAACACCCTCGGTTTGAATCTCATTTGCCATAAAATTGTTCTACTTTGTGCTTGATAAAAGA
ATACTACTTGTTTGTTCATTGCATCCAAGAATTTGGCTTAACATTTGTTGCATGAAATCTCTTA
Found at i:65095 original size:29 final size:29
Alignment explanation
Indices: 65050--65111 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
65040 CTCACGTGAC
* * *
65050 CCTATAGATTCTGTTTTAAGTTACTATTA
1 CCTAGAGATTCTATTTTAAGATACTATTA
65079 CCTAGAGATTCTATTTTAAGATACTATTA
1 CCTAGAGATTCTATTTTAAGATACTATTA
65108 CCTA
1 CCTA
65112 AATTACCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.44
Consensus pattern (29 bp):
CCTAGAGATTCTATTTTAAGATACTATTA
Found at i:69198 original size:58 final size:57
Alignment explanation
Indices: 69133--69396 Score: 185
Period size: 59 Copynumber: 4.5 Consensus size: 57
69123 TTATATAATT
* * *
69133 TAACCTAAATGGCCCAAAATGCATGAAATTTGCTAAATAGTCTCTGAATTACATAGAA
1 TAACCTAAATGACCCAAAATGCATGAAAATTGCTAAA-AGTCTCTGAATTACATAAAA
*** * **
69191 TAACCTAAATGACCCTAAAACAAAT-ATAAATTGC-AAAAGTGACTCTAAATTATGTAAAA
1 TAACCTAAATGACCC-AAAATGCATGA-AAATTGCTAAAAGT--CTCTGAATTACATAAAA
* * * * * *
69250 TAACTTAAATGGCCTTAAAATGCATGAAAAATGCTAAAAGTC-CTTGGATTACAAAAAA
1 TAACCTAAATGACC-CAAAATGCATGAAAATTGCTAAAAGTCTC-TGAATTACATAAAA
* * ** *
69308 TAACCTATATGACCATAAAATATATGAAAATTGCTAAATAGTCCCT-AGATTACATAAAAA
1 TAACCTAAATGACC-CAAAATGCATGAAAATTGCTAAA-AGTCTCTGA-ATTACAT-AAAA
* *
69368 TAACTTAAATAACCCTAAAATGCAGTGAA
1 TAACCTAAATGACCC-AAAATGCA-TGAA
69397 GTTGCAAAAT
Statistics
Matches: 156, Mismatches: 36, Indels: 25
0.72 0.17 0.12
Matches are distributed among these distances:
57 4 0.03
58 59 0.38
59 60 0.38
60 29 0.19
61 4 0.03
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (57 bp):
TAACCTAAATGACCCAAAATGCATGAAAATTGCTAAAAGTCTCTGAATTACATAAAA
Found at i:69366 original size:117 final size:116
Alignment explanation
Indices: 69115--69396 Score: 284
Period size: 117 Copynumber: 2.4 Consensus size: 116
69105 ATGTAAAATA
** * * **
69115 ACCCTAGATTATATAATTTAACCTAAATGGCCCAAAATGCATGAAATTTGCTAAATAGTCTCTGA
1 ACCCTAGATTATATAAAATAACTTAAATGGCCTAAAATGCATGAAAAATGCTAAATAGTCTCTGA
* * *
69180 ATTACATAGAATAACCTAAATGACCCTAAAACAAATATAAATTGCAAAAGT
66 ATTACAAAAAATAACCTAAATGACCATAAAACAAATATAAATTGCAAAAGT
* * *
69231 GACTCTAAATTATGTAAAATAACTTAAATGGCCTTAAAATGCATGAAAAATGCTAAA-AGTC-CT
1 -ACCCTAGATTATATAAAATAACTTAAATGGCC-TAAAATGCATGAAAAATGCTAAATAGTCTC-
* * * *
69294 TGGATTACAAAAAATAACCTATATGACCATAAAATATATGA-AAATTGCTAAATAGT
63 TGAATTACAAAAAATAACCTAAATGACCATAAAACAAAT-ATAAATTGC-AAA-AGT
* **
69350 -CCCTAGATTACATAAAAATAACTTAAATAACCCTAAAATGCAGTGAA
1 ACCCTAGATTATAT-AAAATAACTTAAAT-GGCCTAAAATGCA-TGAA
69397 GTTGCAAAAT
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
116 1 0.01
117 78 0.58
118 47 0.35
119 9 0.07
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (116 bp):
ACCCTAGATTATATAAAATAACTTAAATGGCCTAAAATGCATGAAAAATGCTAAATAGTCTCTGA
ATTACAAAAAATAACCTAAATGACCATAAAACAAATATAAATTGCAAAAGT
Found at i:70053 original size:9 final size:9
Alignment explanation
Indices: 70036--70109 Score: 58
Period size: 9 Copynumber: 7.7 Consensus size: 9
70026 CTTCTAACAA
*
70036 CTTTCTTTT
1 CTTTTTTTT
70045 CTTTTTTTT
1 CTTTTTTTT
70054 CTTTTTCTTCT
1 CTTTTT-TT-T
* *
70065 CATTTTTCT
1 CTTTTTTTT
*
70074 CTTATTTTT
1 CTTTTTTTT
70083 CTTTCTTTTTT
1 C-TT-TTTTTT
*
70094 CTCTTATTTT
1 CT-TTTTTTT
70104 CTTTTT
1 CTTTTT
70110 CCTTTCTCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
9 25 0.49
10 13 0.25
11 13 0.25
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:70062 original size:20 final size:20
Alignment explanation
Indices: 70037--70108 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 20
70027 TTCTAACAAC
70037 TTTCTTTTCTTTTTTTTCTT
1 TTTCTTTTCTTTTTTTTCTT
* *
70057 TTTCTTCTCATTTTTCTCTTATT
1 TTTCTTTTC-TTTTT-T-TTCTT
*
70080 TTTC-TTTCTTTTTTCTCTTAT
1 TTTCTTTTCTTTTTTTTC-T-T
70101 TTTCTTTT
1 TTTCTTTT
70109 TCCTTTCTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.02
20 10 0.24
21 15 0.37
22 7 0.17
23 8 0.20
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTTTTTTTTCTT
Found at i:70080 original size:11 final size:11
Alignment explanation
Indices: 70055--70103 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
70045 CTTTTTTTTC
*
70055 TTTTTCTTCTCA
1 TTTTTC-TCTTA
70067 TTTTTCTCTTA
1 TTTTTCTCTTA
*
70078 TTTTTCT-TTCT
1 TTTTTCTCTT-A
70089 TTTTTCTCTTA
1 TTTTTCTCTTA
70100 TTTT
1 TTTT
70104 CTTTTTCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 2 0.06
11 22 0.69
12 8 0.25
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTCTCTTA
Found at i:70081 original size:22 final size:22
Alignment explanation
Indices: 70055--70107 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
70045 CTTTTTTTTC
70055 TTTTTCTTCTCATTTTTCTCTTA
1 TTTTTCTT-TCATTTTTCTCTTA
*
70078 TTTTTCTTTCTTTTTTCTCTTA
1 TTTTTCTTTCATTTTTCTCTTA
70100 -TTTTCTTT
1 TTTTTCTTT
70108 TTCCTTTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 8 0.28
22 13 0.45
23 8 0.28
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTTCTTTCATTTTTCTCTTA
Found at i:70115 original size:21 final size:22
Alignment explanation
Indices: 70055--70117 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
70045 CTTTTTTTTC
70055 TTTTTCTTCTCATT-TTTCTCTTA
1 TTTTTCTT-TC-TTCTTTCTCTTA
*
70078 TTTTTCTTTCTTTTTTCTCTTA
1 TTTTTCTTTCTTCTTTCTCTTA
70100 -TTTTCTTT-TTCCTTTCTC
1 TTTTTCTTTCTT-CTTTCTC
70118 ATTTTAGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 2 0.05
21 16 0.43
22 11 0.30
23 8 0.22
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTCTTTCTTCTTTCTCTTA
Found at i:71464 original size:56 final size:55
Alignment explanation
Indices: 71399--71545 Score: 161
Period size: 56 Copynumber: 2.7 Consensus size: 55
71389 TGTTTTTTAT
* * *
71399 TTTGGTGCTAATTTCAATTGGAGCTATCCTTACCAACCATTTTTGGGCATTCCCA
1 TTTGGTGCTAATTTCAATTGGAGCTATCCCTACCAACCACTTTTGGCCATTCCCA
* * * * * * * *
71454 TTTAGGTGCTAATTTCAATTGAAGGTATCCCAACTAGCTACTTTTGGCCTTTCTCA
1 TTT-GGTGCTAATTTCAATTGGAGCTATCCCTACCAACCACTTTTGGCCATTCCCA
*
71510 TTTGAGTGC-AATTTCATTTGGAGCTATCCCTACCAA
1 TTTG-GTGCTAATTTCAATTGGAGCTATCCCTACCAA
71546 TTACTCTTGG
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
55 25 0.34
56 48 0.66
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (55 bp):
TTTGGTGCTAATTTCAATTGGAGCTATCCCTACCAACCACTTTTGGCCATTCCCA
Found at i:71607 original size:56 final size:56
Alignment explanation
Indices: 71486--71780 Score: 335
Period size: 56 Copynumber: 5.3 Consensus size: 56
71476 AGGTATCCCA
* * * **
71486 ACTAGCTACTTTTGGCCTTTCTCAT-TTGAGTG-CAATTTCATTTGGAGCTATCCC-T
1 ACTAGCTACTCTTGGGCTTTCTCATATTG-GTGCCAATTTCATCTCAAGCTA-CCCTT
* ** * * ** *
71541 ACCAATTACTCTTGGGTTTTCTCATTTTAATACCAATTTCATCTCAAGCTACCCTT
1 ACTAGCTACTCTTGGGCTTTCTCATATTGGTGCCAATTTCATCTCAAGCTACCCTT
*
71597 ACTAGCTACTCTTGGGCTTTCTCATATTGGTGCCAATTTCATCTCAAGCTACCTTT
1 ACTAGCTACTCTTGGGCTTTCTCATATTGGTGCCAATTTCATCTCAAGCTACCCTT
* ** * *
71653 ACTAGCTACTCTTAGGCTTTCTCATATTGGTGCCAATTTCATCTTGAGCTATCCAT
1 ACTAGCTACTCTTGGGCTTTCTCATATTGGTGCCAATTTCATCTCAAGCTACCCTT
* * * * *
71709 ACTAGCTACTTTTGGGCTTTTTCATATTGGTGCCAATTTCATCTCGAGTTATCCTT
1 ACTAGCTACTCTTGGGCTTTCTCATATTGGTGCCAATTTCATCTCAAGCTACCCTT
71765 ACTAGCTACTCTTGGG
1 ACTAGCTACTCTTGGG
71781 AGCTATCCCT
Statistics
Matches: 203, Mismatches: 34, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
55 23 0.11
56 180 0.89
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (56 bp):
ACTAGCTACTCTTGGGCTTTCTCATATTGGTGCCAATTTCATCTCAAGCTACCCTT
Found at i:71844 original size:82 final size:82
Alignment explanation
Indices: 71698--71859 Score: 202
Period size: 82 Copynumber: 2.0 Consensus size: 82
71688 ATTTCATCTT
* * *
71698 GAGCTATCCATACTAGCTACTTTTGGGCTTTTTCATATTGGTGCCAATTTCATCTCGAGTTATCC
1 GAGCTATCCATACTAGCTACTTTTGGGCTTTTTCATATTGGTGCCAATTTCATATCAAGCTATCC
* *
71763 TTACTAGCTACTCTTGG
66 TTACCAACTACTCTTGG
* * * * *
71780 GAGCTATCCCTACTAGCTA-TTCTTGGGTTTTTTCAT-TTAGGTGCTAATTTTATATTAAGCTAT
1 GAGCTATCCATACTAGCTACTT-TTGGGCTTTTTCATATT-GGTGCCAATTTCATATCAAGCTAT
71843 CCTTACCAACTACTCTT
64 CCTTACCAACTACTCTT
71860 TCTCTTCCTC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 4 0.06
82 64 0.94
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (82 bp):
GAGCTATCCATACTAGCTACTTTTGGGCTTTTTCATATTGGTGCCAATTTCATATCAAGCTATCC
TTACCAACTACTCTTGG
Found at i:71929 original size:57 final size:57
Alignment explanation
Indices: 71780--72156 Score: 241
Period size: 57 Copynumber: 6.7 Consensus size: 57
71770 CTACTCTTGG
* * * * * * *
71780 GAGCTATCCCTACTAGCTATTCTTGGGTTTTTTCA-TTTAGGTGCTAATTTTATATTA
1 GAGCTATCCTTACCAGCTATTCTTGGGCTTTCTCATTTTGGGTGCCAATTTCA-ATTA
* * *** * **
71837 -AGCTATCCTTACCAACTACTCTTTCTCTTCCTCATTTTGAATGCCAATTTCAACTTA
1 GAGCTATCCTTACCAGCTATTCTTGGGCTTTCTCATTTTGGGTGCCAATTTCAA-TTA
* * * *
71894 -AGCTATCTTTACCAGCTATTCTTGGGCTTTTTCATTTTGGTTGCCAATTTCTATTA
1 GAGCTATCCTTACCAGCTATTCTTGGGCTTTCTCATTTTGGGTGCCAATTTCAATTA
* ** ** *
71950 GAGCTATCCCTACTTGCTACTT-TT-GGCTTTCTCATTTTGGGTGCCAATTTTGACTA
1 GAGCTATCCTTACCAGCTA-TTCTTGGGCTTTCTCATTTTGGGTGCCAATTTCAATTA
* * * * * * *
72006 GAGCTAT-CTTACTAGCTACTCTTAGGCTTTCTCATTTTAGGTGTCAATTTTGAA-TG
1 GAGCTATCCTTACCAGCTATTCTTGGGCTTTCTCATTTTGGGTGCCAA-TTTCAATTA
* * * * * * *
72062 GAGCCAT-CTCTACTAGTTATTTTTAGGCTTTCTTATTTTGGGT-CCTATTTTCAATTA
1 GAGCTATCCT-TACCAGCTATTCTTGGGCTTTCTCATTTTGGGTGCC-AATTTCAATTA
* * * * *
72119 GAGCTATCCCTACCAGCCACTCTTAGGCTTTCACATTT
1 GAGCTATCCTTACCAGCTATTCTTGGGCTTTCTCATTT
72157 GAAGTTTGAT
Statistics
Matches: 247, Mismatches: 62, Indels: 22
0.75 0.19 0.07
Matches are distributed among these distances:
54 1 0.00
55 11 0.04
56 98 0.40
57 134 0.54
58 3 0.01
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (57 bp):
GAGCTATCCTTACCAGCTATTCTTGGGCTTTCTCATTTTGGGTGCCAATTTCAATTA
Found at i:71984 original size:113 final size:112
Alignment explanation
Indices: 71780--72056 Score: 281
Period size: 113 Copynumber: 2.4 Consensus size: 112
71770 CTACTCTTGG
* * * * *
71780 GAGCTATCCCTACTAGCTATTCTTGGGTTTTTTCATTTAGGTGCTAATTTTATATTAAGCTATCC
1 GAGCTAT-CTTACCAGCTATTCTTGGGCTTTTTCATTTTGGTGCCAATTTTATATTAAGCTATCC
* *
71845 TTACCAACTACTCTTTCTCTTCCTCATTTTGAATGCCAATTTCAACTTA
65 CTACCAACTACTCTTTCGCTTCCTCATTTTGAATGCCAATTTCAAC-TA
*
71894 -AGCTATCTTTACCAGCTATTCTTGGGCTTTTTCATTTTGGTTGCCAA-TTTCTATTAGAGCTAT
1 GAGCTATC-TTACCAGCTATTCTTGGGCTTTTTCATTTTGG-TGCCAATTTTATATTA-AGCTAT
*** * * ** **
71957 CCCTACTTGCTACT-TTTGGCTTTCTCATTTTGGGTGCCAATTTTGACTA
63 CCCTACCAACTACTCTTTCGCTTCCTCATTTTGAATGCCAATTTCAACTA
* * * * *
72006 GAGCTATCTTACTAGCTACTCTTAGGCTTTCTCATTTTAGGTGTCAATTTT
1 GAGCTATCTTACCAGCTATTCTTGGGCTTTTTCATTTT-GGTGCCAATTTT
72057 GAATGGAGCC
Statistics
Matches: 135, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
112 34 0.25
113 80 0.59
114 21 0.16
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (112 bp):
GAGCTATCTTACCAGCTATTCTTGGGCTTTTTCATTTTGGTGCCAATTTTATATTAAGCTATCCC
TACCAACTACTCTTTCGCTTCCTCATTTTGAATGCCAATTTCAACTA
Found at i:73681 original size:29 final size:29
Alignment explanation
Indices: 73639--73696 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
73629 GTTTCATCAT
73639 GAAAGAATTCAAAAGCTTTAAAATTAATC
1 GAAAGAATTCAAAAGCTTTAAAATTAATC
73668 GAAAGAATTCAAAAGCTTTAAAATTAATC
1 GAAAGAATTCAAAAGCTTTAAAATTAATC
73697 TATCTTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (29 bp):
GAAAGAATTCAAAAGCTTTAAAATTAATC
Found at i:78047 original size:156 final size:157
Alignment explanation
Indices: 77396--78052 Score: 547
Period size: 156 Copynumber: 4.2 Consensus size: 157
77386 CGCATATGAA
* * * * ** * * * *
77396 TGACAACCTAGGACTCGATTTTAATAAAATTACAAAAATACCCCT-CGGGGGTACTTTTAATATA
1 TGACAACCTAGGACTCGATTCTAAAAAAATTACAAAAATGCCCCTATGGGTATACCTTTGACATG
* * * * * * *
77460 AAAGTA-CTTGGTACTCC-TAATGGACACT-AAAATGATTGTAAATGGGATGAACCTATCCTAAA
66 AAAGTATCCTAGTAC-CCTTAAAGGAC-TTAAAAAGGATTATAGATGGGATG-ACCTATCCTAAA
* *
77522 TACCCACCTTC-AGCATAAAAGCA-TCTC-G
128 TACCCACCTTCTA-CATAAAAGCAGACCCAG
* * * * *
77550 ATGACAACCTAGGACTCGATTTTAAAAAAA-TACGAAAATGCCCTTATAGGTATACCTTTGACAC
1 -TGACAACCTAGGACTCGATTCTAAAAAAATTACAAAAATGCCCCTATGGGTATACCTTTGACAT
* * * *
77614 GGAAGTATCC-AATACCCCTAAAGGACTTTAAAAGGATTATAGATGGGATGAACCTATCCTAAAT
65 GAAAGTATCCTAGTACCCTTAAAGGACTTAAAAAGGATTATAGATGGGATG-ACCTATCCTAAAT
* *** *
77678 ACCCACCTTCGACATAAAAATGGACCTAG
129 ACCCACCTTCTACATAAAAGCAGACCCAG
* * * * ** *
77707 TGAAAACCTAGGACTTGATTCTGAAAAAATTACAAAAATGTCCCTGA-GGG-ATTTCTTCG--AT
1 TGACAACCTAGGACTCGATTCTAAAAAAATTACAAAAATGCCCCT-ATGGGTATACCTTTGACAT
* * * * *
77768 GTAGAAGTGT--TTGATACCCTTTAAGGACTTAAAAAAGATTATAGATGGGATAAACCTATCCTA
65 G-A-AAGTATCCTAG-TACCCTTAAAGGACTTAAAAAGGATTATAGATGGGAT-GACCTATCCTA
** * *
77831 AATAATCACCTT-TGGCATAAAAGCAAACCCAG
126 AATACCCACCTTCT-ACATAAAAGCAGACCCAG
* * *
77863 TGACAACTTAGGACTCGGTTCTAGAAAAATTACAAAAATGCCCCTATGGGTATACCTTTGACATG
1 TGACAACCTAGGACTCGATTCTAAAAAAATTACAAAAATGCCCCTATGGGTATACCTTTGACATG
** * *
77928 AAAGTATCCTAGTAATCTTAAAAGACTTAAAAAGGATTATAGATGGGATGATC-ATCCTAAATAC
66 AAAGTATCCTAGTACCCTTAAAGGACTTAAAAAGGATTATAGATGGGATGACCTATCCTAAATAC
* *
77992 CCACCTTCTACGTAAAAGCAGACCCGG
131 CCACCTTCTACATAAAAGCAGACCCAG
*
78019 TGACAACCTAGGACTCGATTCCAAAAAAAATTAC
1 TGACAACCTAGGACTCGATT-CTAAAAAAATTAC
78053 TTAAAGCTCA
Statistics
Matches: 392, Mismatches: 87, Indels: 44
0.75 0.17 0.08
Matches are distributed among these distances:
154 17 0.04
155 103 0.26
156 193 0.49
157 40 0.10
158 34 0.09
159 5 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (157 bp):
TGACAACCTAGGACTCGATTCTAAAAAAATTACAAAAATGCCCCTATGGGTATACCTTTGACATG
AAAGTATCCTAGTACCCTTAAAGGACTTAAAAAGGATTATAGATGGGATGACCTATCCTAAATAC
CCACCTTCTACATAAAAGCAGACCCAG
Found at i:87216 original size:13 final size:13
Alignment explanation
Indices: 87194--87235 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
87184 GATACTATTC
87194 ACACTGTATCGAT
1 ACACTGTATCGAT
*
87207 ACACTATATCGAT
1 ACACTGTATCGAT
*
87220 ACAATGTATCGAT
1 ACACTGTATCGAT
87233 ACA
1 ACA
87236 TGAATAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (13 bp):
ACACTGTATCGAT
Found at i:87279 original size:46 final size:45
Alignment explanation
Indices: 87213--87300 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 45
87203 CGATACACTA
* * *
87213 TATCGATACAATGTATCGATACATGAATAGTGATGAATAGTGGTT
1 TATCGATACAATGTAGCGATACATGAACAGTGATGAACAGTGGTT
* *
87258 TATCGATAC-ATGAATAGCGATACGTGAACAGTTATGAACAGTG
1 TATCGATACAATG--TAGCGATACATGAACAGTGATGAACAGTG
87301 ATGAACAACG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 3 0.08
45 9 0.25
46 24 0.67
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (45 bp):
TATCGATACAATGTAGCGATACATGAACAGTGATGAACAGTGGTT
Found at i:87391 original size:13 final size:13
Alignment explanation
Indices: 87373--87397 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87363 CTGCCAGTTT
87373 ATGTATCGATACA
1 ATGTATCGATACA
87386 ATGTATCGATAC
1 ATGTATCGATAC
87398 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:89651 original size:13 final size:13
Alignment explanation
Indices: 89633--89658 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89623 ACAATATTCT
89633 TTGTATCGATACA
1 TTGTATCGATACA
89646 TTGTATCGATACA
1 TTGTATCGATACA
89659 AGGGTTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:89791 original size:21 final size:22
Alignment explanation
Indices: 89767--89816 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
89757 ATCAAATCTT
* *
89767 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
89788 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
89810 --TCAAAAT
1 CTTCAAAAT
89817 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:92169 original size:19 final size:19
Alignment explanation
Indices: 92126--92194 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
92116 TACACTCAGA
*
92126 TGTATCGATACAT-TATGCCT
1 TGTATCGATACATGT-T-CAT
92146 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
* **
92165 TGTATTGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
92185 TGTATCGATA
1 TGTATCGATA
92195 GATGAAACTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 16 0.38
20 25 0.60
21 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:92188 original size:20 final size:19
Alignment explanation
Indices: 92145--92194 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
92135 ACATTATGCC
**
92145 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGGACA
*
92164 TTGTATTGATACATGGACAA
1 TTGTATCGATACATGGAC-A
92184 TTGTATCGATA
1 TTGTATCGATA
92195 GATGAAACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:92268 original size:12 final size:12
Alignment explanation
Indices: 92251--92295 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
92241 CATGGCACAT
92251 TGTATCGATACA
1 TGTATCGATACA
92263 TGTATCGATACA
1 TGTATCGATACA
*
92275 TG-AT-GA-A-T
1 TGTATCGATACA
92283 TGTATCGATACA
1 TGTATCGATACA
92295 T
1 T
92296 TGCTTTTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
8 2 0.07
9 3 0.11
10 4 0.15
11 3 0.11
12 15 0.56
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:92272 original size:32 final size:31
Alignment explanation
Indices: 92231--92295 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 31
92221 TACCACTATT
92231 TGTATCGATACATG-GCACATTGTATCGATACA
1 TGTATCGATACATGAG-A-ATTGTATCGATACA
92263 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGA-GAATTGTATCGATACA
92295 T
1 T
92296 TGCTTTTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 29 0.94
33 1 0.03
34 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (31 bp):
TGTATCGATACATGAGAATTGTATCGATACA
Found at i:94725 original size:166 final size:165
Alignment explanation
Indices: 94553--94954 Score: 372
Period size: 166 Copynumber: 2.4 Consensus size: 165
94543 AAAATATACA
** * * * *
94553 GAGTAGCAAACTCTGTATTTTGGAAATA-AGAAGATTTCAAGAAAAAAAATGAAAAACTCAGGAA
1 GAGTAGCAAACTCCATATTTCGAAAAGAGAGAAAATTTCAAG--AAAAAATGAAAAACTCAGG-A
* * ** * * *
94617 AATAAATG-AA-TTTTCTAAGACTGATTTACTATAAATTAAATGATGATATTTGATGAATATT-A
63 AATAAAAGTAATTTTTC-AAAACCAATTTAATATAAATTAAATGATGATATTTAAAGAAT-TTAA
94679 AAAATTTTAAACCGAGAAAACTCCCCCGAAAATATTTATG
126 AAAATTTTAAACCGAGAAAACTCCCCCGAAAATATTTATG
* * * *
94719 GAGTAGCAAACTCCATATTTCGAAAAGAGAGAAAATTTCAAGGAAATATGAAAAATTCATGAAAT
1 GAGTAGCAAACTCCATATTTCGAAAAGAGAGAAAATTTCAAGAAAAAATGAAAAACTCAGGAAAT
* *
94784 AAAAGTAATTTTTCAAAACCAATTTAATGTGAATTAAATGATGATATTTAAAGAATTTAAAAAAT
66 AAAAGTAATTTTTCAAAACCAATTTAATATAAATTAAATGATGATATTTAAAGAATTTAAAAAAT
* * * * **
94849 TTTAAACCAATGGAAA-TCCTCCCGAAAAAAATTACA
131 TTTAAACCGA-GAAAACTCC-CCCGAAAATATTTATG
* * * *
94885 GAGAAG-AAAGCTCCGTATTTCGAAAACAG-GAGAAATTTCAA-AAGAAAATAAAAAAACTCATG
1 GAGTAGCAAA-CTCCATATTTCGAAAAGAGAGA-AAATTTCAAGAA-AAAAT-GAAAAACTCA-G
94947 G-AATAAAA
61 GAAATAAAA
94955 TGAATTTATG
Statistics
Matches: 192, Mismatches: 33, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
164 10 0.05
165 75 0.39
166 79 0.41
167 27 0.14
168 1 0.01
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.27
Consensus pattern (165 bp):
GAGTAGCAAACTCCATATTTCGAAAAGAGAGAAAATTTCAAGAAAAAATGAAAAACTCAGGAAAT
AAAAGTAATTTTTCAAAACCAATTTAATATAAATTAAATGATGATATTTAAAGAATTTAAAAAAT
TTTAAACCGAGAAAACTCCCCCGAAAATATTTATG
Found at i:94990 original size:166 final size:167
Alignment explanation
Indices: 94653--95073 Score: 425
Period size: 166 Copynumber: 2.5 Consensus size: 167
94643 TACTATAAAT
* * *
94653 TAAATGATGATATTTGATGAATATTAAAAATTTTAAACCGA-GAAAACTCC-CCCGAAAATATTT
1 TAAATGATGATATTTAAAGAATATTAAAAATTTTAAACCAATGAAAA-TCCTCCCGAAAATATTT
* * * * * * * *
94716 ATGGAGTAGCAAA-CTCCATATTTCGAAAAGAGAGAAAATTTCAAGGAAATATGAAAAATTCATG
65 ACGGAGAAGAAAAGCTCCGTATTTCGAAAACAGAGAAAATTTCAAGAAAATATAAAAAACTCATG
* *
94780 AAATAAAAGTAATTTTTCAAAACCAATTTAATGTGAAT
130 AAATAAAAGTAATTTATCAAAACCAATTTAATGTGAAC
* * *
94818 TAAATGATGATATTTAAAGAAT-TTAAAAAATTTTAAACCAATGGAAATCCTCCCGAAAAAAATT
1 TAAATGATGATATTTAAAGAATATT-AAAAATTTTAAACCAATGAAAATCCTCCCGAAAATATTT
*
94882 ACAGAGAAG-AAAGCTCCGTATTTCGAAAACAG-GAGAAATTTCAAAAGAAAATA-AAAAAACTC
65 ACGGAGAAGAAAAGCTCCGTATTTCGAAAACAGAGA-AAATTTC--AAGAAAATATAAAAAACTC
* * ** *
94944 ATGGAATAAAA-TGAATTTAT-GAAACTGATTTCATG-GTAAC
127 ATGAAATAAAAGT-AATTTATCAAAACCAATTTAATGTG-AAC
* * * * * *
94984 TAAATGATAATATTTTATA-TATATTAAAAATTTTAAGCCAATAAAAATCATCCCGAAAATATTT
1 TAAATGATGATA-TTTAAAGAATATTAAAAATTTTAAACCAATGAAAATCCTCCCGAAAATATTT
*
95048 ACGGAGAAGAAAAG-TTCGTATTTCGA
65 ACGGAGAAGAAAAGCTCCGTATTTCGA
95074 TAATGGGAAG
Statistics
Matches: 212, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
164 2 0.01
165 44 0.21
166 124 0.58
167 34 0.16
168 8 0.04
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.29
Consensus pattern (167 bp):
TAAATGATGATATTTAAAGAATATTAAAAATTTTAAACCAATGAAAATCCTCCCGAAAATATTTA
CGGAGAAGAAAAGCTCCGTATTTCGAAAACAGAGAAAATTTCAAGAAAATATAAAAAACTCATGA
AATAAAAGTAATTTATCAAAACCAATTTAATGTGAAC
Found at i:100020 original size:52 final size:52
Alignment explanation
Indices: 99976--100104 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
99966 CACTGATCTT
*
99976 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
100028 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
100080 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
100105 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:101360 original size:13 final size:13
Alignment explanation
Indices: 101342--101366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101332 CATAAAATGT
101342 TGTATCGATACAA
1 TGTATCGATACAA
101355 TGTATCGATACA
1 TGTATCGATACA
101367 TATATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:101465 original size:13 final size:13
Alignment explanation
Indices: 101447--101471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101437 ATTACTCACA
101447 TGTATCGATACAT
1 TGTATCGATACAT
101460 TGTATCGATACA
1 TGTATCGATACA
101472 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:101536 original size:52 final size:52
Alignment explanation
Indices: 101480--101604 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
101470 CACTGATCTT
*
101480 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TTTTATAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTA-AA
101532 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
101584 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
101605 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 66 0.94
53 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:108521 original size:15 final size:14
Alignment explanation
Indices: 108497--108572 Score: 93
Period size: 15 Copynumber: 5.4 Consensus size: 14
108487 AAAAGTGATG
108497 AAAAAAA-AAAAAA
1 AAAAAAACAAAAAA
*
108510 AAACAAACAAAAAA
1 AAAAAAACAAAAAA
*
108524 AACACAAAA-AAAAAC
1 AA-A-AAAACAAAAAA
108539 AAAAAAACAAAAAA
1 AAAAAAACAAAAAA
108553 AAAAAACACAAAAAA
1 AAAAAA-ACAAAAAA
108568 AAAAA
1 AAAAA
108573 TGCAAAGGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
13 10 0.19
14 20 0.37
15 21 0.39
16 3 0.06
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAAAA
Found at i:108521 original size:21 final size:20
Alignment explanation
Indices: 108497--108572 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 20
108487 AAAAGTGATG
108497 AAAAAAAAAAAAAAAACAAAC
1 AAAAAAAAAAAAAAAA-AAAC
*
108518 AAAAAAAACACAAAAAAAAAC
1 AAAAAAAA-AAAAAAAAAAAC
108539 AAAAAAACAAAAAAAAAAAAC
1 AAAAAAA-AAAAAAAAAAAAC
108560 ACAAAAAAAAAAA
1 A-AAAAAAAAAAA
108573 TGCAAAGGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
21 36 0.72
22 14 0.28
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAAAAAC
Found at i:108534 original size:33 final size:33
Alignment explanation
Indices: 108497--108572 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
108487 AAAAGTGATG
*
108497 AAAAAAAAAAAAAAAACAAACAAAAAAAACACA
1 AAAAAAAAAAAAAAAACAAAAAAAAAAAACACA
*
108530 AAAAAAAACAAAAAAACAAAAAAAAAAAACACA
1 AAAAAAAAAAAAAAAACAAAAAAAAAAAACACA
108563 AAAAAAAAAA
1 AAAAAAAAAA
108573 TGCAAAGGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (33 bp):
AAAAAAAAAAAAAAAACAAAAAAAAAAAACACA
Found at i:108591 original size:1 final size:1
Alignment explanation
Indices: 108497--108572 Score: 80
Period size: 1 Copynumber: 76.0 Consensus size: 1
108487 AAAAGTGATG
* * * * * * * *
108497 AAAAAAAAAAAAAAAACAAACAAAAAAAACACAAAAAAAAACAAAAAAACAAAAAAAAAAAACAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
108562 AAAAAAAAAAA
1 AAAAAAAAAAA
108573 TGCAAAGGCA
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:108832 original size:16 final size:17
Alignment explanation
Indices: 108811--108842 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
108801 TTCTTTTCCA
108811 AAAAAAG-AAACAAAAC
1 AAAAAAGAAAACAAAAC
108827 AAAAAAGAAAACAAAA
1 AAAAAAGAAAACAAAA
108843 GAGGAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAACAAAAC
Found at i:109855 original size:30 final size:30
Alignment explanation
Indices: 109787--109900 Score: 149
Period size: 31 Copynumber: 3.7 Consensus size: 30
109777 ATACCTTTTT
*
109787 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCAT-TTTT-CTTC
109819 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTT-TCTTC
109849 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCA-TTTTTCTTC
* * *
109880 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
109901 CCTTCTTCTT
Statistics
Matches: 75, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
30 24 0.32
31 28 0.37
32 23 0.31
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATTTTTCTTC
Found at i:109919 original size:34 final size:34
Alignment explanation
Indices: 109880--110538 Score: 583
Period size: 34 Copynumber: 19.8 Consensus size: 34
109870 TTTTTTCTTC
*
109880 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
109914 AAAGCCCACAACTCCGTGGCACC-----C-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
109942 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTT
* * *
109977 -AAGTCCACAACGCCGTGGCA------TCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
110004 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTT
*
110039 -AAGTCCACAACTCCGTGGCACC-----C-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
110066 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTT
* *
110101 -AAGTCCACAACTCCGTGGCACC-----C-GTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
110128 -AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
110161 AAAGCCCACAACTCCGTGGCACTTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
110194 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * * **
110230 -AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCT
1 AAAGCCCACAACTCCGTGGCACCTTT-T-TCTTTTT
* * * *
110265 AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTC
1 AAAG-CC-CACAACTCCGTGGC-ACCTTTTTCTTTTT
*
110302 AAAGCCCACAACTCCGTGGCACCTTCTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
110335 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTT-CTTTTT
**
110372 AAAGCCCACAACTCCGTGGCACCTTTTTCCGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
110406 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
*
110443 AAAGCCCACAACTCCGTGGCA-CTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
110476 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* *
110512 -AAGTCCACAACTCCGTGGCATCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTT
110539 TCCTTCCCAA
Statistics
Matches: 513, Mismatches: 63, Indels: 98
0.76 0.09 0.15
Matches are distributed among these distances:
27 30 0.06
28 63 0.12
29 3 0.01
32 1 0.00
33 79 0.15
34 157 0.31
35 91 0.18
36 17 0.03
37 55 0.11
38 13 0.03
39 4 0.01
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:109949 original size:62 final size:61
Alignment explanation
Indices: 109880--110531 Score: 568
Period size: 62 Copynumber: 9.9 Consensus size: 61
109870 TTTTTTCTTC
*
109880 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT-AAGCCCACAACTCCGTGGCACCCTTTT
* * * * * *
109942 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACGCCGTGGCATCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * * *
110004 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTTAAGCCCACAACTCCGTGGCACCCTTTT
* * * * *
110066 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTTAAGCCCACAACTCCGTGGCACCCTTTT
*
110128 -AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTTTTTTCTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT-AAGCCCACAACTCCGTGGCAC-----CCTT
110192 TT
60 TT
* *
110194 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTTAAGCCCACAACTCCGTGGCA-------CC
*
110259 CTTCCT
57 CTT-TT
* * * *
110265 AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
1 AAAG-CC-CACAACTCCGTGGC-ACCTTTTTCTTTT-TAAGCCCACAACTCCGTGGCA-C--C--
110330 CTTTT
57 CTTTT
** *
110335 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTT-CTTTT-TAAGCCCACAACTCCGTGGCA-C-----
*
110400 CCGTTT
56 CCTTTT
*
110406 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-TAAGCCCACAACTCCGTGGCAC-----C
110471 CTTTT
57 CTTTT
* *
110476 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTTAAGCCCACAACTCCGTGGCA
110532 TCTTTTTTCC
Statistics
Matches: 518, Mismatches: 39, Indels: 60
0.84 0.06 0.10
Matches are distributed among these distances:
60 4 0.01
61 46 0.09
62 171 0.33
63 4 0.01
66 4 0.01
67 24 0.05
68 56 0.11
69 17 0.03
70 82 0.16
71 62 0.12
72 6 0.01
73 39 0.08
74 2 0.00
75 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (61 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAGCCCACAACTCCGTGGCACCCTTTT
Found at i:110136 original size:27 final size:27
Alignment explanation
Indices: 110098--110149 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
110088 TTTTTTCATC
*
110098 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
110125 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
110150 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:110338 original size:141 final size:140
Alignment explanation
Indices: 110133--110578 Score: 623
Period size: 141 Copynumber: 3.2 Consensus size: 140
110123 CGTTTAAGCC
* * *
110133 CACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAG
1 CACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
*
110198 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTC
66 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCCTTC
110263 CTAAAGCCCA
131 CTAAAGCCCA
* * *
110273 CACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAA
1 CACAACTCCGTGGC-ACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAA
** * * * *
110338 GCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCG
65 GCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCCACAACTCCGTGGCATCTTTTTCCC
110403 TT--TAAAG-CC-
128 TTCCTAAAGCCCA
*
110412 CACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTTCCTTTT
1 CACAACTCCGTGGCAC-CTTCTT--CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT-CTTTT
*
110476 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTTC
62 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCC
*
110541 CTTCCCAAAGCCCA
127 CTTCCTAAAGCCCA
* *
110555 CACAAGTCGGTGGCAACCTTCTTC
1 CACAACTCCGTGGC-ACCTTCTTC
110579 CAAAGCACAC
Statistics
Matches: 266, Mismatches: 28, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
138 2 0.01
139 45 0.17
140 19 0.07
141 151 0.57
142 2 0.01
143 45 0.17
144 2 0.01
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.33
Consensus pattern (140 bp):
CACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCCTTC
CTAAAGCCCA
Found at i:110539 original size:70 final size:70
Alignment explanation
Indices: 110128--110543 Score: 537
Period size: 70 Copynumber: 6.0 Consensus size: 70
110118 GCACCCGTTT
*
110128 AAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTTAAAGCCCACAACTCCGTGGCACTTTTTT-C
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTTTTTTCC
110190 TTTTA
66 TTTTA
* * *
110195 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCTCC
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCA-CTTTTTTC
*
110259 CTTCCTA
65 CTT-TTA
* * * * *
110266 AAGCCCACACAAGTCGGTGGCAAC-CTTCTT--CTTTTCAAAGCCCACAACTCCGTGGCACCTTC
1 AAG-CC-CACAACTCCGTGGC-ACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACTTTT
110328 TT-CTTTTA
62 TTCCTTTTA
** * *
110336 AAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
*
110401 CGTTTA
65 CTTTTA
110407 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-TTTTTC
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACTTTTTTC
110471 CTTTTA
65 CTTTTA
*
110477 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTTTTC
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCA-CTTTTTTC
110541 CTT
65 CTT
110544 CCCAAAGCCC
Statistics
Matches: 310, Mismatches: 23, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
67 23 0.07
68 60 0.19
69 13 0.04
70 96 0.31
71 73 0.24
72 7 0.02
73 36 0.12
74 2 0.01
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTTTTTTCC
TTTTA
Found at i:110584 original size:104 final size:100
Alignment explanation
Indices: 110371--110589 Score: 260
Period size: 104 Copynumber: 2.1 Consensus size: 100
110361 TTTTCCTTTT
*
110371 CAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 CAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
** *
110436 CCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTC
66 CCTTCCCAAAGCCCACAACTCCGTGGCACTTCTTC
* *
110471 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCT
1 C----AAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCT
* * *
110535 TTTTTCCTTCCCAAAGCCCACACAAGTCGGTGGCAACCTTCTTC
61 TTTTCCCTTCCCAAAG-CC-CACAACTCCGTGGC-A-CTTCTTC
*
110579 CAAAGCACACA
1 CAAAGCCCACA
110590 CAAGTCGGTG
Statistics
Matches: 100, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
100 1 0.01
104 47 0.47
105 32 0.32
106 12 0.12
107 1 0.01
108 7 0.07
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.29
Consensus pattern (100 bp):
CAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CCTTCCCAAAGCCCACAACTCCGTGGCACTTCTTC
Found at i:110728 original size:49 final size:49
Alignment explanation
Indices: 110610--111395 Score: 999
Period size: 49 Copynumber: 15.8 Consensus size: 49
110600 GCAACCCCTC
*
110610 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * *
110662 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
110711 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * *
110763 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
110812 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
110861 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
110910 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
110959 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
* * *
111011 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
111060 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
111109 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
111158 TAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
111207 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
111250 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
* * ** *
111302 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATCTT
* * * * *
111357 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
111396 TCTTTATCAC
Statistics
Matches: 639, Mismatches: 74, Indels: 39
0.85 0.10 0.05
Matches are distributed among these distances:
43 39 0.06
45 1 0.00
49 389 0.61
50 7 0.01
51 4 0.01
52 161 0.25
53 1 0.00
55 36 0.06
56 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:111094 original size:248 final size:248
Alignment explanation
Indices: 110610--111503 Score: 1140
Period size: 248 Copynumber: 3.5 Consensus size: 248
110600 GCAACCCCTC
* * *
110610 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATC
* * *
110675 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
63 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
*
110740 CATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
128 CATATTGGCACATTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
110805 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
193 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * *
110861 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
110926 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
110991 ATTGGCACATTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
131 ATTGGCACATTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
111056 TCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
196 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * * *
111109 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAATCCAATATCGCT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* * *
111174 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * * *
111239 ATTGG--CA-----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTT
131 ATTGGCACATTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC--CTT
* * * ** *
111295 CCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
194 -CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCATCTT
* * * * *
111357 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCATT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGG---------CAC----CT--TCATC---
* *
111422 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTAG
48 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATATAG
111487 CTGGCCTTGAATCAGCA
113 CTGGCCTTGAATCAGCA
111504 CGTTGACATC
Statistics
Matches: 579, Mismatches: 37, Indels: 39
0.88 0.06 0.06
Matches are distributed among these distances:
239 40 0.07
241 3 0.01
242 39 0.07
243 1 0.00
246 2 0.00
247 1 0.00
248 365 0.63
249 2 0.00
251 37 0.06
257 3 0.01
261 2 0.00
263 5 0.01
266 79 0.14
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (248 bp):
TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCACATTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
Found at i:111277 original size:92 final size:94
Alignment explanation
Indices: 111155--111333 Score: 290
Period size: 92 Copynumber: 1.9 Consensus size: 94
111145 GCACCTTCAT
*
111155 CTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGG-CATCTT-CATCTTTAAGTCCAATG
1 CTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCAATG
*
111218 TAGCTGGCCTTGACTCAGCACATTGGCAC
66 TAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
111247 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGG-ACATCTTCCATCTTTAAGTCCAAT
111312 GTAGCTGGCCTTGAATCAGCAC
65 GTAGCTGGCCTTGAATCAGCAC
111334 GTTGACATCC
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
92 38 0.48
94 5 0.06
95 36 0.46
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (94 bp):
CTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:111376 original size:55 final size:55
Alignment explanation
Indices: 111247--111630 Score: 273
Period size: 67 Copynumber: 6.7 Consensus size: 55
111237 ACATTGGCAC
* *
111247 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
111299 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
111354 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
* *
111418 CATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
1 C---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
111470 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * * *
111525 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--TC-TC
111590 AT
54 AT
*
111592 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
111631 GCACCTTCAT
Statistics
Matches: 257, Mismatches: 42, Indels: 52
0.73 0.12 0.15
Matches are distributed among these distances:
49 36 0.14
50 1 0.00
52 42 0.16
54 8 0.03
55 64 0.25
56 2 0.01
57 2 0.01
58 2 0.01
59 1 0.00
61 8 0.03
62 6 0.02
63 5 0.02
64 7 0.03
66 4 0.02
67 69 0.27
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:111537 original size:171 final size:171
Alignment explanation
Indices: 111247--111641 Score: 700
Period size: 171 Copynumber: 2.3 Consensus size: 171
111237 ACATTGGCAC
*
111247 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
111312 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
111377 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
111421 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
111486 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
*
111551 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
111592 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
111642 ATCTCTAAAA
Statistics
Matches: 213, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 170 0.80
172 5 0.02
174 38 0.18
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
Found at i:112468 original size:13 final size:13
Alignment explanation
Indices: 112450--112474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112440 CATAAAATGT
112450 TGTATCGATACAA
1 TGTATCGATACAA
112463 TGTATCGATACA
1 TGTATCGATACA
112475 TATATATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:112576 original size:13 final size:13
Alignment explanation
Indices: 112558--112582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112548 ATTACTCACA
112558 TGTATCGATACAT
1 TGTATCGATACAT
112571 TGTATCGATACA
1 TGTATCGATACA
112583 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:112647 original size:52 final size:52
Alignment explanation
Indices: 112591--112715 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
112581 CACTGATCTT
*
112591 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TTTTATAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTA-AA
112643 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
112695 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
112716 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 66 0.94
53 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:118709 original size:83 final size:83
Alignment explanation
Indices: 118569--118722 Score: 263
Period size: 83 Copynumber: 1.9 Consensus size: 83
118559 GAAATCTTAA
* * * *
118569 CCACATATTCCCAATCATATCTTTTTTCTTCAAACACTAGATGGTATCGATGTATCACAAAGCTT
1 CCACATATTCCCAATCATATCCTTTCTCCTCAAACACTAGATGGTATCGATGCATCACAAAGCTT
118634 GGTTTTTGTGGGGGTCAG
66 GGTTTTTGTGGGGGTCAG
*
118652 CCACATATTCCCAATCATATCCTTTCTCCTCAACCACTAGATGGTATCGATGCATCACAAAGCTT
1 CCACATATTCCCAATCATATCCTTTCTCCTCAAACACTAGATGGTATCGATGCATCACAAAGCTT
118717 GGTTTT
66 GGTTTT
118723 CTAGAGACCA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (83 bp):
CCACATATTCCCAATCATATCCTTTCTCCTCAAACACTAGATGGTATCGATGCATCACAAAGCTT
GGTTTTTGTGGGGGTCAG
Found at i:119387 original size:46 final size:46
Alignment explanation
Indices: 119318--119674 Score: 265
Period size: 46 Copynumber: 7.8 Consensus size: 46
119308 CTTTACCAAA
* * *
119318 CAAACCCTTTTCATTCTCCTTTGACTATATCGGTTATCACCCTAGT
1 CAAACCCTTTTCATTCTCATTTGACTATATCGATTACCACCCTAGT
* * * * * *
119364 CAAACTCTTTTTATTATCATTTGACTAGATCGATTACTACCCTGGT
1 CAAACCCTTTTCATTCTCATTTGACTATATCGATTACCACCCTAGT
* * * * *
119410 CAAATCCTTTTCGTTCTTATTTGATCGTAT-T-AATTACCACCCTGGT
1 CAAACCCTTTTCATTCTCATTTGA-C-TATATCGATTACCACCCTAGT
** * *
119456 CAAACCCTTTTCATTCTTGTTTGATTGTATCGATTACCACCCTAGT
1 CAAACCCTTTTCATTCTCATTTGACTATATCGATTACCACCCTAGT
* * *
119502 CACACCCTTTTTATT-T-ATGTTTGACTATATC-AGTTACCACCATAGT
1 CAAACCCTTTTCATTCTCA--TTTGACTATATCGA-TTACCACCCTAGT
* * * * * * *
119548 CAAACTCTTTTCATCCTCATTTAACTGTATCGGTCATCACCCTAGT
1 CAAACCCTTTTCATTCTCATTTGACTATATCGATTACCACCCTAGT
* * * * ** *
119594 CTAACCTTTTTCATTCTCATTTAACTGTATTAATTACCACCTTAGT
1 CAAACCCTTTTCATTCTCATTTGACTATATCGATTACCACCCTAGT
* * ** * *
119640 CAAACCATTTTCGTTCTTGTTTGGCTTTATCGATT
1 CAAACCCTTTTCATTCTCATTTGACTATATCGATT
119675 TTGCCCTAGC
Statistics
Matches: 240, Mismatches: 61, Indels: 20
0.75 0.19 0.06
Matches are distributed among these distances:
44 2 0.01
45 3 0.01
46 229 0.95
47 3 0.01
48 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (46 bp):
CAAACCCTTTTCATTCTCATTTGACTATATCGATTACCACCCTAGT
Found at i:120008 original size:85 final size:85
Alignment explanation
Indices: 119781--120008 Score: 235
Period size: 85 Copynumber: 2.7 Consensus size: 85
119771 TTAATTGGTC
* * * * ** * *
119781 GACTTATCGGTTCATTCTTGGTCAACCTTTTTATCTTTTGTTTACCTATAAGCTTAGTCCCGATT
1 GACTTGTCGGTTCAATCTTGGTCAACCTTTTTATCCTTTGTTTACTTATTGGCTTAGTCCCAAGT
* *
119846 AAATCTTTTTATCCTTTGTT
66 AAACCTTTTTATCCTTTATT
* * ** * * ** *
119866 AACTTGTCGATTCAATCCCGATTAA-CTCTTTTATCCTTTGTTTACTTATTGATTTAGTCTCAAG
1 GACTTGTCGGTTCAATCTTGGTCAACCT-TTTTATCCTTTGTTTACTTATTGGCTTAGTCCCAAG
119930 T-AACCTTTTTCATCCTTTATT
65 TAAACCTTTTT-ATCCTTTATT
* *
119951 GACTTGTCGGTTCAATCTTGGTCAACCTTTTTATCCTTTGTTTATTTGTTGGCTTAGT
1 GACTTGTCGGTTCAATCTTGGTCAACCTTTTTATCCTTTGTTTACTTATTGGCTTAGT
120009 TTTGGGTAAA
Statistics
Matches: 111, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
84 10 0.09
85 99 0.89
86 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (85 bp):
GACTTGTCGGTTCAATCTTGGTCAACCTTTTTATCCTTTGTTTACTTATTGGCTTAGTCCCAAGT
AAACCTTTTTATCCTTTATT
Found at i:122597 original size:13 final size:13
Alignment explanation
Indices: 122579--122604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122569 TACAGCAAGT
122579 ATGTATCGATACA
1 ATGTATCGATACA
122592 ATGTATCGATACA
1 ATGTATCGATACA
122605 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:124852 original size:21 final size:21
Alignment explanation
Indices: 124819--124863 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
124809 TTGCAAGTTG
*
124819 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
124841 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
124861 AAA
1 AAA
124864 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:126686 original size:15 final size:15
Alignment explanation
Indices: 126666--126696 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
126656 TAAAAATGTC
*
126666 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
126681 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
126696 C
1 C
126697 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:127608 original size:33 final size:33
Alignment explanation
Indices: 127571--127637 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
127561 TTCAACGATT
127571 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
127604 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
127637 T
1 T
127638 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:127609 original size:13 final size:13
Alignment explanation
Indices: 127591--127615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127581 CATAAAATGT
127591 TGTATCGATACAA
1 TGTATCGATACAA
127604 TGTATCGATACA
1 TGTATCGATACA
127616 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:127696 original size:13 final size:13
Alignment explanation
Indices: 127678--127702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127668 ATTACTCAAA
127678 TGTATCGATACAT
1 TGTATCGATACAT
127691 TGTATCGATACA
1 TGTATCGATACA
127703 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:127804 original size:52 final size:51
Alignment explanation
Indices: 127711--127838 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 51
127701 CACTGATCTT
* *
127711 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGAAATTTGCCCAGATGTATCGATACACTATT-AAA
127762 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGG-AAATTTGCCCAGATGTATCGATACACTATTAAA
127814 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGG-AAATTT
127839 TCATATTTCG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 18 0.25
52 51 0.71
53 3 0.04
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (51 bp):
TGTATCGATACATGCAGGAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:132602 original size:13 final size:13
Alignment explanation
Indices: 132584--132609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132574 CAATTTTTTG
132584 TGTATCGATACAT
1 TGTATCGATACAT
132597 TGTATCGATACAT
1 TGTATCGATACAT
132610 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:133359 original size:21 final size:21
Alignment explanation
Indices: 133318--133361 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
133308 CTCCCCTTTA
* *
133318 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
133339 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
133360 TC
1 TC
133362 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:135183 original size:13 final size:13
Alignment explanation
Indices: 135165--135203 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
135155 ATAATCACCC
*
135165 TGTATCGATACAG
1 TGTATCGATACAA
135178 TGTATCGATACAA
1 TGTATCGATACAA
135191 TGTATCGATACAA
1 TGTATCGATACAA
135204 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:135214 original size:20 final size:20
Alignment explanation
Indices: 135189--135267 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
135179 GTATCGATAC
135189 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
135209 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
135234 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
135254 CATGTATCGATACA
1 AATGTATCGATACA
135268 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:137302 original size:15 final size:15
Alignment explanation
Indices: 137282--137312 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
137272 ATTTCGTTTG
*
137282 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
137297 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
137312 G
1 G
137313 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:139145 original size:21 final size:21
Alignment explanation
Indices: 139116--139160 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
139106 AAGTTTTCAT
*
139116 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
139136 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
139158 TTT
1 TTT
139161 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:141398 original size:13 final size:13
Alignment explanation
Indices: 141380--141405 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
141370 CAATTTTTTG
141380 TGTATCGATACAT
1 TGTATCGATACAT
141393 TGTATCGATACAT
1 TGTATCGATACAT
141406 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:142328 original size:13 final size:13
Alignment explanation
Indices: 142310--142348 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
142300 CATTTTTTCT
142310 TTGTATCGATACA
1 TTGTATCGATACA
*
142323 TTGTATCGATGCA
1 TTGTATCGATACA
142336 TTGTATCGATACA
1 TTGTATCGATACA
142349 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:144911 original size:13 final size:13
Alignment explanation
Indices: 144893--144918 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
144883 TACAGCAAGT
144893 ATGTATCGATACA
1 ATGTATCGATACA
144906 ATGTATCGATACA
1 ATGTATCGATACA
144919 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:146599 original size:15 final size:15
Alignment explanation
Indices: 146579--146610 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
146569 AAAGGGACCA
146579 ATATTGGGCTTAAAG
1 ATATTGGGCTTAAAG
146594 ATATTGGGCTTAAAG
1 ATATTGGGCTTAAAG
146609 AT
1 AT
146611 GAGAAAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (15 bp):
ATATTGGGCTTAAAG
Found at i:146832 original size:49 final size:49
Alignment explanation
Indices: 146772--147149 Score: 486
Period size: 49 Copynumber: 7.6 Consensus size: 49
146762 TATTAAAGAC
* *
146772 GCCAATATGCTGATTCAGGGCCAACGATATTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
* ** * *
146821 GCCAATGTGCTGATTCAAGGCCAGCGGCATTGGTCTTAAAGATGACGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
* * * **
146870 GCCAATATGCTGATTCAAGGCTAGCGATATCGGACTTAAAAATGAAAAT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
* * * *
146919 GCCAATGTACTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGGT
*** *
146971 GCCAATATGCTGATTCAAGGCCAGCGATACCAGACTTAAAGATGAAGAT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
* *
147020 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGGT
*
147072 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
*
147121 GCCAATGTGCTGATTCAAGGCCAGCGATA
1 GCCAATATGCTGATTCAAGGCCAGCGATA
147150 AGAAAAGTTA
Statistics
Matches: 278, Mismatches: 45, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
49 193 0.69
52 85 0.31
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (49 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
Found at i:146852 original size:101 final size:100
Alignment explanation
Indices: 146713--147147 Score: 579
Period size: 101 Copynumber: 4.3 Consensus size: 100
146703 TAGACTTGAA
* ** * * * * *
146713 GAAGAATGCCAATGTGTTGAGACAAGGCCAGCGACATTGGGCTCAGGAATATTA-AAGACGCCAA
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AAGATGACAAGGCGCCAA
* *
146777 TATGCTGATTCAGGGCCAACGATATTGGACTTAAAGAT
63 TATGCTGATTCAAGGCCAACGATATCGGACTTAAAGAT
* * * *
146815 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGGCATTGGTCTTAAAGATGAC--GGTGCCAATAT
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGCGCCAATAT
* * *
146878 GCTGATTCAAGGCTAGCGATATCGGACTTAAAAAT
66 GCTGATTCAAGGCCAACGATATCGGACTTAAAGAT
* *
146913 GAAAATGCCAATGTACTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC-AAGGCGCCAATA
* * *
146978 TGCTGATTCAAGGCCAGCGATACCAGACTTAAAGAT
65 TGCTGATTCAAGGCCAACGATATCGGACTTAAAGAT
*
147014 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC-AAGGCGCCAATA
*
147079 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT
65 TGCTGATTCAAGGCCAACGATATCGGACTTAAAGAT
*
147115 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGA
147148 TAAGAAAAGT
Statistics
Matches: 294, Mismatches: 35, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
98 86 0.29
99 5 0.02
101 199 0.68
102 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (100 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGCGCCAATAT
GCTGATTCAAGGCCAACGATATCGGACTTAAAGAT
Done.