Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 13 of 221
Found at i:4140596 original size:4 final size:4
Alignment explanation
Indices: 4140587--4140611 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4140577 CATCCATTGG
4140587 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
4140612 ACATGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:4146322 original size:16 final size:16
Alignment explanation
Indices: 4146303--4146336 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4146293 AAACACACAC
4146303 AACAAAAAACAAA-AAA
1 AACAAAAAA-AAAGAAA
4146319 AACAAAAAAAAAGAAA
1 AACAAAAAAAAAGAAA
4146335 AA
1 AA
4146337 ATTAAGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (16 bp):
AACAAAAAAAAAGAAA
Found at i:4146328 original size:19 final size:19
Alignment explanation
Indices: 4146301--4146337 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4146291 CTAAACACAC
*
4146301 ACAACAAAAAACAAAAAAA
1 ACAAAAAAAAACAAAAAAA
*
4146320 ACAAAAAAAAAGAAAAAA
1 ACAAAAAAAAACAAAAAA
4146338 TTAAGATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (19 bp):
ACAAAAAAAAACAAAAAAA
Found at i:4147390 original size:81 final size:79
Alignment explanation
Indices: 4147174--4147963 Score: 936
Period size: 81 Copynumber: 10.1 Consensus size: 79
4147164 TCTATTTTTT
* * * * *
4147174 TTTTTCAAAAATCAACTCATATTGCGAAAGGTAAGTTGAGCCTC-GGACTCACGCCGATGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTT
4147238 CTTTTAAATTTCTG
66 CTTTTAAATTTCTG
* * * *
4147252 TTTTTCAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGCCACACGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTT
*
4147317 TTTTTAAATTTCTG
66 CTTTTAAATTTCTG
* * * *
4147331 TTTTTTCAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGATAT
1 -TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
4147396 TTCTTTTAAATTTCTG
64 TTCTTTTAAATTTCTG
* * * *
4147412 TTTTTCAAAAAAATCAACTCATAATACGAGATGTGAGTTGAGCCTCGGGT--CACGCTGAGGTA-
1 TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
*
4147474 ---TTTTAAATTTCTAT
64 TTCTTTTAAATTTCT-G
* * * *
4147488 TTTTTAAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACGCCGAGATATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTT
*
4147553 -TTTTTAATTTCTG
66 CTTTTAAATTTCTG
* * * * *
4147566 TTTTTCAAAAAAATCAACTCATAATACGAGAAGTGAGTTGAGCCTCGGGT--CATGCTGAGGTA-
1 TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
*
4147628 ---TTTTCAATTTCTG
64 TTCTTTTAAATTTCTG
* *
4147641 TTTTTTTTAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
1 --TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
4147706 TTCTTTTAAATTTCTG
64 TTCTTTTAAATTTCTG
* *
4147722 TTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCCACACGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTT
*
4147787 TTTTTAAATTTCTG
66 CTTTTAAATTTCTG
* **
4147801 TTTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTA-
1 --TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
4147865 -TCTTTTAAATTTCTG
64 TTCTTTTAAATTTCTG
* * * * * *
4147880 TTTTTCAGAAATAAACTCATAATGCTAGAGGTGAGTTGAGCCTCGGGCCACACGCCGA-G-A-TA
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTT
*
4147942 C-TTTCAATTTCTG
66 CTTTTAAATTTCTG
4147955 TTTTTCAAA
1 TTTTTCAAA
4147964 TAAAAAGAAA
Statistics
Matches: 613, Mismatches: 76, Indels: 49
0.83 0.10 0.07
Matches are distributed among these distances:
74 37 0.06
75 82 0.13
76 17 0.03
77 65 0.11
78 54 0.09
79 137 0.22
80 49 0.08
81 172 0.28
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (79 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTT
CTTTTAAATTTCTG
Found at i:4148587 original size:3 final size:3
Alignment explanation
Indices: 4148579--4148657 Score: 94
Period size: 3 Copynumber: 27.0 Consensus size: 3
4148569 ACTAGGGTTT
*
4148579 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GGA GAAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA
*
4148625 GAA GGA GAAA GAA GAA -AA -AA GAA -AA -AA GAA GAA
1 GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA
4148658 AAAAGAGAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 8 0.12
3 56 0.82
4 4 0.06
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4148652 original size:17 final size:18
Alignment explanation
Indices: 4148632--4148669 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
4148622 GAAGAAGGAG
4148632 AAAGAAGAAAAAAGA-AA
1 AAAGAAGAAAAAAGAGAA
4148649 AAAGAAGAAAAAAGAGAA
1 AAAGAAGAAAAAAGAGAA
4148667 AAA
1 AAA
4148670 ATAAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAGAAGAAAAAAGAGAA
Found at i:4148659 original size:9 final size:9
Alignment explanation
Indices: 4148579--4148669 Score: 71
Period size: 9 Copynumber: 10.0 Consensus size: 9
4148569 ACTAGGGTTT
*
4148579 GAAGAAGAA
1 GAAGAAAAA
*
4148588 GAAGAAGAA
1 GAAGAAAAA
*
4148597 GAAGAAGAA
1 GAAGAAAAA
*
4148606 GAAGAAGAA
1 GAAGAAAAA
*
4148615 GGAGAAAGAA
1 GAAGAAA-AA
*
4148625 GAAGGAGAAA
1 GAA-GAAAAA
4148635 GAAG-AAAA
1 GAAGAAAAA
4148643 -AAGAAAAAA
1 GAAG-AAAAA
4148652 GAAGAAAAA
1 GAAGAAAAA
4148661 -AGAGAAAAA
1 GA-AGAAAAA
4148670 ATAAAATTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
7 3 0.04
8 4 0.06
9 49 0.69
10 12 0.17
11 3 0.04
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (9 bp):
GAAGAAAAA
Found at i:4148969 original size:19 final size:18
Alignment explanation
Indices: 4148945--4149196 Score: 228
Period size: 18 Copynumber: 13.9 Consensus size: 18
4148935 CAGTGATTCA
4148945 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
4148963 TAAAAA-TTTC-TGTGTTTC
1 -AAAAATTTTCGTGT-TTTC
*
4148981 AAAAAAATTTTCGTGTTTAC
1 --AAAAATTTTCGTGTTTTC
* *
4149001 AAAAATTTTCATATTTTC
1 AAAAATTTTCGTGTTTTC
4149019 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* * *
4149037 AACAATTCTCTTG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
4149054 ACAATTTTTCGTGTTTTAA
1 AAAAATTTTCGTGTTTT-C
*
4149073 AAAAATTTT-GTGTTTTAA
1 AAAAATTTTCGTGTTTT-C
** *
4149091 AAAAAAATTCTTGTGTTTC
1 AAAAATTTTCGTGT-TTTC
*
4149110 AAAAATTATCGTGTTTT-
1 AAAAATTTTCGTGTTTTC
*
4149127 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
4149145 AAAAATTTTCGGGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
4149163 AAAAATTCTCGTG-ATTC
1 AAAAATTTTCGTGTTTTC
*
4149180 AAAAACTTTCGTGTTTT
1 AAAAATTTTCGTGTTTT
4149197 TTTAAAAAAA
Statistics
Matches: 187, Mismatches: 36, Indels: 21
0.77 0.15 0.09
Matches are distributed among these distances:
17 44 0.24
18 100 0.53
19 30 0.16
20 10 0.05
21 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:4148987 original size:20 final size:20
Alignment explanation
Indices: 4148964--4149005 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4148954 CGTGTTTTCT
4148964 AAAAATTTCTGTGTTT-CAAA
1 AAAAATTTC-GTGTTTACAAA
*
4148984 AAAATTTTCGTGTTTACAAA
1 AAAAATTTCGTGTTTACAAA
4149004 AA
1 AA
4149006 TTTTCATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAATTTCGTGTTTACAAA
Found at i:4149097 original size:21 final size:21
Alignment explanation
Indices: 4149071--4149114 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
4149061 TTCGTGTTTT
*
4149071 AAAAAAATT-TTGTGTTTTAA
1 AAAAAAATTCTTGTGTTTCAA
4149091 AAAAAAATTCTTGTGTTTCAA
1 AAAAAAATTCTTGTGTTTCAA
4149112 AAA
1 AAA
4149115 TTATCGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAAAAATTCTTGTGTTTCAA
Found at i:4149216 original size:53 final size:52
Alignment explanation
Indices: 4149016--4149227 Score: 135
Period size: 53 Copynumber: 4.0 Consensus size: 52
4149006 TTTTCATATT
* * ** * * * * *
4149016 TTCAAAAATTTTCGTGTTTTCAACAATTCTCTTGTTTCACAATTTTTCGTGTT
1 TTCAAAAATCTTCGTGTTTTCAAAAATAATCGTGTTTCAAAAATTCTCGTG-A
* * * * * *
4149069 TTAAAAAAAT-TTTGTGTTTTAAAAAAAAATTCTTGTGTTTCAAAAATTATCGTGT
1 TT-CAAAAATCTTCGTGTTTTCAAAAATAA-TC--GTGTTTCAAAAATTCTCGTGA
* ** *
4149124 TTTAAAAATCTTCGTGTTTTCAAAAATTTTCGGGTTTTCAAAAATTCTCGTGA
1 TTCAAAAATCTTCGTGTTTTCAAAAATAATCGTG-TTTCAAAAATTCTCGTGA
*
4149177 TTCAAAAA-CTTTCGTGTTTTTTTAAAAA-AATCGTGTTTC-AAAATTCTCGTG
1 TTCAAAAATC-TTCGTG--TTTTCAAAAATAATCGTGTTTCAAAAATTCTCGTG
4149228 TTTTTTTTAA
Statistics
Matches: 125, Mismatches: 25, Indels: 19
0.74 0.15 0.11
Matches are distributed among these distances:
52 15 0.12
53 48 0.38
54 20 0.16
55 26 0.21
56 16 0.13
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (52 bp):
TTCAAAAATCTTCGTGTTTTCAAAAATAATCGTGTTTCAAAAATTCTCGTGA
Found at i:4149227 original size:35 final size:37
Alignment explanation
Indices: 4149171--4149243 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 37
4149161 TCAAAAATTC
4149171 TCGTGATTCAAAAACTTTCGTG-TTTTTTTAAAAAAA
1 TCGTGATTCAAAAACTTTCGTGTTTTTTTTAAAAAAA
*
4149207 TCGTGTTTC-AAAA-TTCTCGTGTTTTTTTTAAAAAAA
1 TCGTGATTCAAAAACTT-TCGTGTTTTTTTTAAAAAAA
4149243 T
1 T
4149244 TCTCATGCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
34 2 0.06
35 9 0.26
36 23 0.68
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (37 bp):
TCGTGATTCAAAAACTTTCGTGTTTTTTTTAAAAAAA
Found at i:4155218 original size:14 final size:14
Alignment explanation
Indices: 4155199--4155229 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4155189 GTAATATATA
4155199 ATAAAATGTGGATG
1 ATAAAATGTGGATG
4155213 ATAAAATGTGGATG
1 ATAAAATGTGGATG
4155227 ATA
1 ATA
4155230 TTGTATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (14 bp):
ATAAAATGTGGATG
Found at i:4169065 original size:16 final size:16
Alignment explanation
Indices: 4169023--4169074 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 16
4169013 TGGTGAGAAG
4169023 TAAAAGTTTAGGGAGGAAA
1 TAAAAGTTT-GGG-GG-AA
4169042 TAAAAAGTTTGGGGGAA
1 T-AAAAGTTTGGGGGAA
*
4169059 TAAAAGTTTGAGGGAA
1 TAAAAGTTTGGGGGAA
4169075 AGTAAATAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 14 0.45
17 3 0.10
18 2 0.06
19 4 0.13
20 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (16 bp):
TAAAAGTTTGGGGGAA
Found at i:4169394 original size:21 final size:20
Alignment explanation
Indices: 4169355--4169396 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4169345 GGGGAAAGTG
* *
4169355 GGAAAGAGTAAAAGTTTTGA
1 GGAAAAAGTAAAAGGTTTGA
4169375 GGAAAAAGTAAAAAGGTTTGA
1 GGAAAAAGT-AAAAGGTTTGA
4169396 G
1 G
4169397 AGTTTGGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (20 bp):
GGAAAAAGTAAAAGGTTTGA
Found at i:4170354 original size:20 final size:22
Alignment explanation
Indices: 4170329--4170372 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4170319 CACGTGGTAT
4170329 AAAATTATA-AA-AATCATAAA
1 AAAATTATACAAGAATCATAAA
*
4170349 AAAATTATACAAGAATTATAAA
1 AAAATTATACAAGAATCATAAA
4170371 AA
1 AA
4170373 TGAATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 2 0.10
22 10 0.48
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAATTATACAAGAATCATAAA
Found at i:4171217 original size:20 final size:20
Alignment explanation
Indices: 4171167--4171217 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
4171157 TATTCATAAA
4171167 AAATGGAGG-AAATCAGTGT
1 AAATGGAGGAAAATCAGTGT
*
4171186 AAA-GGGGGAAAATCAGTGT
1 AAATGGAGGAAAATCAGTGT
4171205 AAATGGAGGAAAA
1 AAATGGAGGAAAA
4171218 AAGAAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 16 0.57
20 8 0.29
ACGTcount: A:0.47, C:0.04, G:0.33, T:0.16
Consensus pattern (20 bp):
AAATGGAGGAAAATCAGTGT
Found at i:4172055 original size:24 final size:24
Alignment explanation
Indices: 4172026--4172140 Score: 103
Period size: 23 Copynumber: 4.9 Consensus size: 24
4172016 GTATTGTATA
*
4172026 TTATTATTTTAGATTTATCATGTT
1 TTATTATTTTAAATTTATCATGTT
* * *
4172050 TTATTATTTTTAATTTATCA-ATA
1 TTATTATTTTAAATTTATCATGTT
*
4172073 TTATTATTTTAAATTCAT--TGTT
1 TTATTATTTTAAATTTATCATGTT
**
4172095 AACATTATTTTAAATTTATCATG-T
1 -TTATTATTTTAAATTTATCATGTT
* *
4172119 ATATCTATTTCAAATTTATCAT
1 TTAT-TATTTTAAATTTATCAT
4172141 TAATATTTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
22 1 0.01
23 35 0.48
24 35 0.48
25 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.57
Consensus pattern (24 bp):
TTATTATTTTAAATTTATCATGTT
Found at i:4172104 original size:70 final size:68
Alignment explanation
Indices: 4172028--4172161 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 68
4172018 ATTGTATATT
* * ** *
4172028 ATTATTTTAGATTTATCATGTTTTAT-TATTTTTAATTTATCAATATTATTATTTTAAATTCATT
1 ATTATTTTAAATTTATCATG-TATATCTATTTCAAATTTATCAATAATA-T-TTTTAAATTCATT
4172092 GTTAAC
63 GTTAAC
* *
4172098 ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTAATATTTTTAAATTTATTGT
1 ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAAATTCATTGT
4172162 CGAAACCATT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 14 0.25
69 5 0.09
70 37 0.66
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (68 bp):
ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCAATAATATTTTTAAATTCATTGTT
AAC
Found at i:4172146 original size:24 final size:23
Alignment explanation
Indices: 4171980--4172158 Score: 123
Period size: 24 Copynumber: 7.7 Consensus size: 23
4171970 TGTTTATACT
*
4171980 TATTATTATTAAATTAATCATTAA
1 TATTATT-TTAAATTTATCATTAA
* * * ** *
4172004 TATTA-TCTAAGTGTATTGTATAT
1 TATTATTTTAAATTTATCAT-TAA
* **
4172027 TATTATTTTAGATTTATCATGTTT
1 TATTATTTTAAATTTATCAT-TAA
* * *
4172051 TATTATTTTTAATTTATCAATAT
1 TATTATTTTAAATTTATCATTAA
* **
4172074 TATTATTTTAAATTCATTGTTAA
1 TATTATTTTAAATTTATCATTAA
*
4172097 CATTATTTTAAATTTATCATGT-A
1 TATTATTTTAAATTTATCAT-TAA
*
4172120 TATCTATTTCAAATTTATCATTAA
1 TAT-TATTTTAAATTTATCATTAA
4172144 TA-T-TTTTAAATTTAT
1 TATTATTTTAAATTTAT
4172159 TGTCGAAACC
Statistics
Matches: 118, Mismatches: 32, Indels: 13
0.72 0.20 0.08
Matches are distributed among these distances:
21 11 0.09
22 8 0.07
23 47 0.40
24 52 0.44
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTATTTTAAATTTATCATTAA
Found at i:4172176 original size:70 final size:70
Alignment explanation
Indices: 4172028--4172180 Score: 170
Period size: 70 Copynumber: 2.2 Consensus size: 70
4172018 ATTGTATATT
* * ** *
4172028 ATTATTTTAGATTTATCATGTTTTATTATTTTTAATTTATCAATATTATTATTTTAAATTCATTG
1 ATTATTTTAAATTTATCATGTTATATTATTTCAAATTTATCAATAATATTATTTTAAATTCATTG
*
4172093 TTAAC
66 TAAAC
* *
4172098 ATTATTTTAAATTTATCATG-TATATCTATTTCAAATTTATCATTAATA-T-TTTTAAATTTATT
1 ATTATTTTAAATTTATCATGTTATAT-TATTTCAAATTTATCAATAATATTATTTTAAATTCATT
4172160 GTCGAAACC
65 GT--AAA-C
4172169 ATT-TTTTAAATT
1 ATTATTTTAAATT
4172181 AGAAAAAAGG
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
68 14 0.20
69 5 0.07
70 48 0.68
71 4 0.06
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (70 bp):
ATTATTTTAAATTTATCATGTTATATTATTTCAAATTTATCAATAATATTATTTTAAATTCATTG
TAAAC
Found at i:4173305 original size:97 final size:94
Alignment explanation
Indices: 4173186--4173384 Score: 217
Period size: 97 Copynumber: 2.1 Consensus size: 94
4173176 TAATGTATAC
* * **
4173186 ATAATAATATACAAAAAGGTTGAAACAAGCAAAAT--ATATAAAGTAGGGTTTTTAAAAGAAA-A
1 ATAATAATATACAAAAAGGTTGAAACAAACAAAATGAAT-TAAAATAGGG-TCCTAAAA-AAATA
* * *
4173248 TAATTATATGTATATATAGGAATAAGTAAAAATAT
63 -AATTATATATATATATA-G-ATAAATAAAAAGAT
* *
4173283 ATAATAATATATACAAAA-GTTGAAATAAACAAAATGAATTAAAATAGGGTCCTAAAAAAATAAA
1 ATAATAATATACA-AAAAGGTTGAAACAAACAAAATGAATTAAAATAGGGTCCTAAAAAAATAAA
*
4173347 TTATATATATGTATAGATAAATAAAAAGAT
65 TTATATATATATATAGATAAATAAAAAGAT
4173377 ATAATAAT
1 ATAATAAT
4173385 GTATTATATA
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
94 20 0.23
95 1 0.01
96 18 0.20
97 34 0.39
98 13 0.15
99 2 0.02
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.29
Consensus pattern (94 bp):
ATAATAATATACAAAAAGGTTGAAACAAACAAAATGAATTAAAATAGGGTCCTAAAAAAATAAAT
TATATATATATATAGATAAATAAAAAGAT
Found at i:4173614 original size:14 final size:14
Alignment explanation
Indices: 4173591--4173631 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
4173581 TAACGGTGAT
4173591 AATA-ATAATAATA
1 AATAGATAATAATA
*
4173604 AATTGATAATAAT-
1 AATAGATAATAATA
4173617 AATAGATTAATAATA
1 AATAGA-TAATAATA
4173632 TTACTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (14 bp):
AATAGATAATAATA
Found at i:4173614 original size:17 final size:17
Alignment explanation
Indices: 4173590--4173631 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
4173580 ATAACGGTGA
4173590 TAATAATAATAATAAAT
1 TAATAATAATAATAAAT
* *
4173607 TGATAATAATAATAGAT
1 TAATAATAATAATAAAT
4173624 TAATAATA
1 TAATAATA
4173632 TTACTGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (17 bp):
TAATAATAATAATAAAT
Found at i:4175229 original size:50 final size:49
Alignment explanation
Indices: 4175075--4175330 Score: 163
Period size: 50 Copynumber: 5.1 Consensus size: 49
4175065 CTTCTGTCTG
* * * **
4175075 ACTGCAATGTCGGGGAAACAAGATTCGCCGTTGTGGCTTTAATCTACTCC
1 ACTGCAATGTC-GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
* ** * * * * * * * * **
4175125 ACTGTACCGCCAGGGAAGTAAGATTCGCGGTTGTAGCTTTTATCTTTTTA
1 ACTGCAATGTC-GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
**
4175175 ACTGCAATGTCGCAAAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
1 ACTGCAATGTCG-GGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
* * * * * * * * **
4175225 ACTGC-ATCGCCTGGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTA
1 ACTGCAAT-GTC-GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
* *
4175275 ACTGTAATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATCTGTTCC
1 ACTGCAATGTC-GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
4175325 ACTGCA
1 ACTGCA
4175331 TCACCTGGGA
Statistics
Matches: 147, Mismatches: 55, Indels: 8
0.70 0.26 0.04
Matches are distributed among these distances:
49 3 0.02
50 141 0.96
51 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (49 bp):
ACTGCAATGTCGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
Found at i:4175248 original size:100 final size:100
Alignment explanation
Indices: 4175075--4175345 Score: 382
Period size: 100 Copynumber: 2.7 Consensus size: 100
4175065 CTTCTGTCTG
* * ** * * *
4175075 ACTGCAATGTCGGGGAAA-CAAGATTCGCCGTTGTGGCTTTAATCTACTCCACTGTACCGCCAGG
1 ACTGCAATGTC-GGGAAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGG
*
4175139 GAAGTAAGATTCGCGGTTGTAGCTTTTATCTTTTTA
65 GAAGTAAGATTCGCGGTTGTAGCTTTAATCTTTTTA
**
4175175 ACTGCAATGTCGCAAAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
1 ACTGCAATGTCGGGAAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* *
4175240 GAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTA
66 AAGTAAGATTCGCGGTTGTAGCTTTAATCTTTTTA
* * * *
4175275 ACTGTAATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATCTGTTCCACTGCATCACCTGGG
1 ACTGCAATGTCGGGAAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
4175340 AAGTAA
66 AAGTAA
4175346 AACTGATATT
Statistics
Matches: 151, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
99 4 0.03
100 147 0.97
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (100 bp):
ACTGCAATGTCGGGAAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
AAGTAAGATTCGCGGTTGTAGCTTTAATCTTTTTA
Found at i:4175341 original size:50 final size:50
Alignment explanation
Indices: 4175190--4175342 Score: 164
Period size: 50 Copynumber: 3.1 Consensus size: 50
4175180 AATGTCGCAA
4175190 AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
1 AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * * * * * ** * * *
4175240 GAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAAT-GTCGGGG
1 AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTG-CATCGCCTGGG
* *
4175290 AAGCAAGATTCATCGATGTGGCTTTAATCTGTTCCACTGCATCACCTGGG
1 AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
4175340 AAG
1 AAG
4175343 TAAAACTGAT
Statistics
Matches: 75, Mismatches: 26, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
49 2 0.03
50 71 0.95
51 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (50 bp):
AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
Found at i:4176654 original size:7 final size:7
Alignment explanation
Indices: 4176635--4176687 Score: 65
Period size: 7 Copynumber: 7.4 Consensus size: 7
4176625 TTAGCCTCTC
4176635 CATTTTT
1 CATTTTT
4176642 -ACTTTTT
1 CA-TTTTT
4176649 CATTTTTT
1 CA-TTTTT
4176657 CATTTTT
1 CATTTTT
4176664 CA-TTTT
1 CATTTTT
4176670 CATTTTTT
1 CA-TTTTT
4176678 CATTTTT
1 CATTTTT
4176685 CAT
1 CAT
4176688 ATATATATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
6 7 0.17
7 20 0.49
8 14 0.34
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:4176655 original size:8 final size:8
Alignment explanation
Indices: 4176644--4176684 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
4176634 CCATTTTTAC
4176644 TTTTTCAT
1 TTTTTCAT
4176652 TTTTTCA-
1 TTTTTCAT
4176659 TTTTTCA-
1 TTTTTCAT
4176666 -TTTTCAT
1 TTTTTCAT
4176673 TTTTTCAT
1 TTTTTCAT
4176681 TTTT
1 TTTT
4176685 CATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 7 0.23
8 18 0.58
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCAT
Found at i:4176669 original size:21 final size:21
Alignment explanation
Indices: 4176635--4176687 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
4176625 TTAGCCTCTC
*
4176635 CATTTTTACTTTTTCATTTTTT
1 CATTTTT-CATTTTCATTTTTT
4176657 CATTTTTCATTTTCATTTTTT
1 CATTTTTCATTTTCATTTTTT
4176678 CATTTTTCAT
1 CATTTTTCAT
4176688 ATATATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (21 bp):
CATTTTTCATTTTCATTTTTT
Found at i:4176698 original size:21 final size:21
Alignment explanation
Indices: 4176648--4176698 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4176638 TTTTACTTTT
* *
4176648 TCATTTTTTCATTTTTCATTT
1 TCATATTTTCATTTTTCATTA
*
4176669 TCATTTTTTCATTTTTCATATA
1 TCATATTTTCATTTTTCAT-TA
4176691 T-ATATTTT
1 TCATATTTT
4176699 TGACTCAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.69
Consensus pattern (21 bp):
TCATATTTTCATTTTTCATTA
Found at i:4190580 original size:18 final size:17
Alignment explanation
Indices: 4190557--4190590 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
4190547 AAAATATTAG
4190557 AAATGATGTTCACATTTC
1 AAATGATGTTCA-ATTTC
4190575 AAATGATGTTCAATTT
1 AAATGATGTTCAATTT
4190591 GATGGAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
AAATGATGTTCAATTTC
Found at i:4191546 original size:6 final size:6
Alignment explanation
Indices: 4191535--4191586 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
4191525 AGCAATAGGA
*
4191535 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATA
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
4191583 TATA
1 TATA
4191587 AAGTATAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:4191696 original size:61 final size:61
Alignment explanation
Indices: 4191620--4191753 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 61
4191610 ATGCAAGCAT
* * *
4191620 GTATATATATATGAAAAT-TAAAAATATGTATATAAAGAGATATAGATAAATAAGATATAAA
1 GTATATAGATATGAAAATGAAAAAATACGTATATAAAGAGATATAGAT-AATAAGATATAAA
* * * *
4191681 GTATATAGATGTGAAAATGAAAAAATACGTATATAAAGATATATATATGATAAGATATAAA
1 GTATATAGATATGAAAATGAAAAAATACGTATATAAAGAGATATAGATAATAAGATATAAA
* *
4191742 GTGTATATATAT
1 GTATATAGATAT
4191754 ATAAAAAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
61 37 0.60
62 25 0.40
ACGTcount: A:0.54, C:0.01, G:0.13, T:0.32
Consensus pattern (61 bp):
GTATATAGATATGAAAATGAAAAAATACGTATATAAAGAGATATAGATAATAAGATATAAA
Found at i:4191738 original size:24 final size:24
Alignment explanation
Indices: 4191711--4191757 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4191701 AAAAATACGT
4191711 ATATAAAG-ATATATATATGATAAG
1 ATATAAAGTATATATATAT-ATAAG
*
4191735 ATATAAAGTGTATATATATATAA
1 ATATAAAGTATATATATATATAA
4191758 AAAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (24 bp):
ATATAAAGTATATATATATATAAG
Found at i:4193618 original size:44 final size:45
Alignment explanation
Indices: 4193570--4193675 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 45
4193560 TTCACTGCTT
* *
4193570 CTTCATGGAAATAAGACTT-ATATCTTCAACCTGCTCCACCGCAA
1 CTTCAAGGAGATAAGACTTGATATCTTCAACCTGCTCCACCGCAA
* ** * ** * *
4193614 CTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGTAA
1 CTTCAAGGAGATAAGACTTGATATCTTCAACCTGCTCCACCGCAA
4193659 CTTCAAGGAGATAAGAC
1 CTTCAAGGAGATAAGAC
4193676 CCGTAATGTC
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
44 15 0.31
45 34 0.69
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (45 bp):
CTTCAAGGAGATAAGACTTGATATCTTCAACCTGCTCCACCGCAA
Found at i:4193807 original size:133 final size:134
Alignment explanation
Indices: 4193638--4193944 Score: 395
Period size: 136 Copynumber: 2.3 Consensus size: 134
4193628 GGTTTGCTAT
* * * *
4193638 CTTCAGTCTGCTCCACTGTAACTTCAAGGAGATAAGACCCGTAATGTCAACCTGCC-CAACTG-C
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACCCGTAATGTCAACCTGCCTC-ACTGAC
* *
4193701 TTCAGGGAGATGAAGTTTGATATGATCTACTCTACTATAACTTTAGAGAGATATGATCAT-TAAT
65 TTCAGGGAGATGAAGTTTGATATGATCTACTCTACTACAACTTTAGAGAGATAAGAT-ATGTAAT
4193765 TTATAG
129 TTATAG
** * *
4193771 CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGTAATTTCAACTTGCCTCACTGTAA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACCCGTAATGTCAACCTGCCTCACTG--A
* * * * * *
4193836 TTTTAGGGAGATGAGGTTTGATATGATCTACTGTACTACAATTTTAGAGAGATAAGATATGTAGT
64 CTTCAGGGAGATGAAGTTTGATATGATCTACTCTACTACAACTTTAGAGAGATAAGATATGTAAT
4193901 TTATAG
129 TTATAG
* *
4193907 CTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGAC
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGAC
4193945 TCGCTATCTT
Statistics
Matches: 150, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
133 52 0.35
134 1 0.01
135 2 0.01
136 95 0.63
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (134 bp):
CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACCCGTAATGTCAACCTGCCTCACTGACT
TCAGGGAGATGAAGTTTGATATGATCTACTCTACTACAACTTTAGAGAGATAAGATATGTAATTT
ATAG
Found at i:4194178 original size:44 final size:44
Alignment explanation
Indices: 4194112--4194219 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 44
4194102 TCGACTTGCC
* * * *
4194112 CTACTGGAACTTTAGGGGGATAATGTTAGTAACTTCAACCTGCT
1 CTACTGCAACTTTAGAGAGATAATGTTAGTAACTTCAACCTACT
* * * *
4194156 CTACTGCAATTTTAGAGAGATAATGTTTGTTATTTCAACCTACT
1 CTACTGCAACTTTAGAGAGATAATGTTAGTAACTTCAACCTACT
*
4194200 CTACTGCAACTTCAGAGAGA
1 CTACTGCAACTTTAGAGAGA
4194220 CAGGGTTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
CTACTGCAACTTTAGAGAGATAATGTTAGTAACTTCAACCTACT
Found at i:4194228 original size:44 final size:44
Alignment explanation
Indices: 4194140--4194234 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 44
4194130 GATAATGTTA
* * * * * *
4194140 GTAACTTCAACCTGCTCTACTGCAATTTTAGAGAGATAATGTTT
1 GTAATTTCAACCTACTCTACTGCAACTTCAGAGAGACAAGGTTT
* *
4194184 GTTATTTCAACCTACTCTACTGCAACTTCAGAGAGACAGGGTTT
1 GTAATTTCAACCTACTCTACTGCAACTTCAGAGAGACAAGGTTT
4194228 GTAATTT
1 GTAATTT
4194235 ATAGCTTCCA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (44 bp):
GTAATTTCAACCTACTCTACTGCAACTTCAGAGAGACAAGGTTT
Found at i:4194788 original size:89 final size:89
Alignment explanation
Indices: 4194695--4195012 Score: 426
Period size: 89 Copynumber: 3.6 Consensus size: 89
4194685 GGCTAGTGCT
*
4194695 TTCGATCTGCTTCACTGCCAGTACAGGAAGACGAGATCTGCTACTTTTAGTCTACTCTGCTGCAA
1 TTCGATCTGCTTCACTGCCAGTACAGGAAGACGAGATCTGCTGCTTTTAGTCTACTCTGCTGCAA
*
4194760 ACTCAGAGAGGTCAGGCTTGTGTC
66 ACTCAGAGAGGTTAGGCTTGTGTC
* * *
4194784 TTCGATCTGCTTCACTGCCAGTACAGGAAGACGAGATCTGTTGCTTTTAGTCTGCTCCGCTGCAA
1 TTCGATCTGCTTCACTGCCAGTACAGGAAGACGAGATCTGCTGCTTTTAGTCTACTCTGCTGCAA
*
4194849 ACTCAGAAAGGTTAGGCTTGTGTC
66 ACTCAGAGAGGTTAGGCTTGTGTC
* * * * ** *
4194873 TTCAATCTGCTTCGCTGTCAGTACAAGAAGACGAGATCTGCTGCTTTTAGT-TTGTTTGCTGCAA
1 TTCGATCTGCTTCACTGCCAGTACAGGAAGACGAGATCTGCTGCTTTTAGTCTACTCTGCTGCAA
*
4194937 ACTCA-AGGAGGTTAGGCTTGTGTT
66 ACTCAGA-GAGGTTAGGCTTGTGTC
* ** * *
4194961 TTCGATCTACTTCGTTGTC-GATACAGAAAGACGAGATCTGCTGCTTTTAGTC
1 TTCGATCTGCTTCACTGCCAG-TACAGGAAGACGAGATCTGCTGCTTTTAGTC
4195013 CATTCCTCTG
Statistics
Matches: 204, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
87 2 0.01
88 73 0.36
89 129 0.63
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (89 bp):
TTCGATCTGCTTCACTGCCAGTACAGGAAGACGAGATCTGCTGCTTTTAGTCTACTCTGCTGCAA
ACTCAGAGAGGTTAGGCTTGTGTC
Found at i:4196095 original size:107 final size:108
Alignment explanation
Indices: 4195881--4196101 Score: 304
Period size: 108 Copynumber: 2.1 Consensus size: 108
4195871 GGAAAATGCT
** *
4195881 TGAAAAAGATTATCACAATGGGAAAGATGAAATTTTATTGAGAGTAGAACTCTAAACAAATAAAT
1 TGAAAAAGATTATCACAATGGGAAAGATGAAATTTTATTGAGAACAGAACTCGAAACAAATAAAT
* *
4195946 TAATCAGGATAGAAAATTTTGCTAAGATTCAAAATGAATAAGA
66 TAATCAAGATAGAAAATTTTGCTAAGATACAAAATGAATAAGA
* * *
4195989 TGAAAAGGATTATCACAAT-GGATAAGATGGAATTTTATTGAGAACA-AAGCTCGAAATAAATAA
1 TGAAAAAGATTATCACAATGGGA-AAGATGAAATTTTATTGAGAACAGAA-CTCGAAACAAATAA
* * *
4196052 A-TAATCAAGATAGCAAATTTTTCTAAGATACGAAATGAATAAGA
64 ATTAATCAAGATAGAAAATTTTGCTAAGATACAAAATGAATAAGA
4196096 TGAAAA
1 TGAAAA
4196102 TAGGTGCCCC
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
107 49 0.49
108 51 0.51
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCACAATGGGAAAGATGAAATTTTATTGAGAACAGAACTCGAAACAAATAAAT
TAATCAAGATAGAAAATTTTGCTAAGATACAAAATGAATAAGA
Found at i:4196377 original size:5 final size:5
Alignment explanation
Indices: 4196367--4196422 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
4196357 CCTCTCCTTC
* *
4196367 TTCTT TTCTT TTCTT TTCTT TTTTCT TTCTAT TTTTT TTC-T TT-TT TTCTT
1 TTCTT TTCTT TTCTT TTCTT TTCT-T TTCT-T TTCTT TTCTT TTCTT TTCTT
4196417 TT-TT TT
1 TTCTT TT
4196423 AACATTCTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
4 10 0.23
5 25 0.58
6 8 0.19
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (5 bp):
TTCTT
Found at i:4196382 original size:10 final size:9
Alignment explanation
Indices: 4196370--4196422 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 9
4196360 CTCCTTCTTC
4196370 TTTTCTTTT
1 TTTTCTTTT
4196379 CTTTTCTTTTT
1 -TTTTC-TTTT
4196390 TCTTTCTATTT
1 T-TTTCT-TTT
4196401 TTTT-TCTTT
1 TTTTCT-TTT
4196410 TTTTCTTTT
1 TTTTCTTTT
4196419 TTTT
1 TTTT
4196423 AACATTCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
9 15 0.39
10 11 0.29
11 12 0.32
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:4196395 original size:11 final size:10
Alignment explanation
Indices: 4196370--4196422 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
4196360 CTCCTTCTTC
*
4196370 TTTTCTTTTC
1 TTTTCTTTTT
4196380 TTTTCTTTTT
1 TTTTCTTTTT
4196390 TCTTTCTATTTT
1 T-TTTCT-TTTT
4196402 TTTTC--TTT
1 TTTTCTTTTT
4196410 TTTTCTTTTT
1 TTTTCTTTTT
4196420 TTT
1 TTT
4196423 AACATTCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
8 8 0.21
10 16 0.42
11 9 0.24
12 5 0.13
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:4201049 original size:28 final size:28
Alignment explanation
Indices: 4200991--4201056 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
4200981 AGATATAAAG
*
4200991 TATATATATAAAAAAAATTATAGACGTA
1 TATATATATAAAAAAAATTATAGACGGA
* * *
4201019 TATATATATTAGAAAAATGTAT-GATGGA
1 TATATATATAAAAAAAAT-TATAGACGGA
*
4201047 TATAGATATA
1 TATATATATA
4201057 TATGTATGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 28 0.90
29 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.35
Consensus pattern (28 bp):
TATATATATAAAAAAAATTATAGACGGA
Found at i:4201151 original size:3 final size:3
Alignment explanation
Indices: 4201138--4201187 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
4201128 TAGTTGAGTA
* * * *
4201138 AAT AGT AAT AAT AAT ATT TAT AAT AAT -AT AAT -AT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4201184 AAT A
1 AAT A
4201188 TGTAAAATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:4202904 original size:72 final size:72
Alignment explanation
Indices: 4202809--4203047 Score: 383
Period size: 72 Copynumber: 3.3 Consensus size: 72
4202799 CAATGCTAAA
*
4202809 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
4202874 ATGTAAT
66 ATGTAAT
* *
4202881 CTAGTTTTATCAATGGTCGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
4202946 GTATAAT
66 ATGTAAT
* *
4202953 CTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
4203018 ACTG-AAT
66 A-TGTAAT
*
4203025 -TAGTTTTGTCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
4203048 ATATGATTTT
Statistics
Matches: 153, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
71 21 0.14
72 131 0.86
73 1 0.01
ACGTcount: A:0.23, C:0.06, G:0.15, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
ATGTAAT
Found at i:4203529 original size:40 final size:40
Alignment explanation
Indices: 4203452--4203558 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 40
4203442 TCTTACCTTT
* **
4203452 CGGGGCTTTAGC-GATTTTTTTGAAAATGCACCGTTAATGCT-
1 CGGGGCTTTAGCGGA-GTTTTT-AAAA-GCGTCGTTAATGCTA
* *
4203493 CGGTGTTTTAGCGGAGCTTTTTAAAAGCGTCGTTAATGCTA
1 CGGGGCTTTAGCGGAG-TTTTTAAAAGCGTCGTTAATGCTA
* *
4203534 GGGGGCTTTAGCGGCGTTTTTAAAA
1 CGGGGCTTTAGCGGAGTTTTTAAAA
4203559 AAGCGCGGCT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
40 21 0.39
41 26 0.48
42 7 0.13
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (40 bp):
CGGGGCTTTAGCGGAGTTTTTAAAAGCGTCGTTAATGCTA
Found at i:4203937 original size:15 final size:15
Alignment explanation
Indices: 4203917--4203966 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 15
4203907 TATTTTAAGG
*
4203917 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
*
4203932 TTTAGGAATTATGGA
1 TTTAGGGATTATGGA
*
4203947 -TTAGAGATTATGG-
1 TTTAGGGATTATGGA
4203960 TTTAGGG
1 TTTAGGG
4203967 GTTGGAGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:4204009 original size:44 final size:43
Alignment explanation
Indices: 4203958--4204053 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 43
4203948 TAGAGATTAT
* * *
4203958 GGTTTAGGGGTTGGA-GTTTAAGGTGTTGGG-GTTAGGAATTTAGA
1 GGTTTAGGGGTTAGACG-TT-AGGGGTTGGGAGTTAAGAATTTA-A
*
4204002 GGTTTAGGAGTTAGACGTTAGGGGTTGGGAGTTAAGAATTTAA
1 GGTTTAGGGGTTAGACGTTAGGGGTTGGGAGTTAAGAATTTAA
4204045 GGTTTAGGG
1 GGTTTAGGG
4204054 ATTTAGGGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 18 0.40
44 26 0.58
45 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.42, T:0.34
Consensus pattern (43 bp):
GGTTTAGGGGTTAGACGTTAGGGGTTGGGAGTTAAGAATTTAA
Found at i:4204276 original size:22 final size:22
Alignment explanation
Indices: 4204215--4204284 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
4204205 GAGTTCATAT
* * *
4204215 TTTAAGGTTTAGGGAGTATGAA
1 TTTAAGGTTTAGGGATTAGGGA
* * *
4204237 TTT-AGAGATTACGAATTAGGGA
1 TTTAAG-GTTTAGGGATTAGGGA
*
4204259 TTTAAGGTTTAGGGATTAGGGG
1 TTTAAGGTTTAGGGATTAGGGA
4204281 TTTA
1 TTTA
4204285 GGGGTTAGAC
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.30, C:0.01, G:0.31, T:0.37
Consensus pattern (22 bp):
TTTAAGGTTTAGGGATTAGGGA
Found at i:4204292 original size:22 final size:22
Alignment explanation
Indices: 4204251--4204318 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
4204241 GAGATTACGA
* *
4204251 ATTAGGGATTTAAGGTTTAGGG
1 ATTAGGGGTTTAAGGGTTAGGG
* *
4204273 ATTAGGGGTTTAGGGGTTAGACG
1 ATTAGGGGTTTAAGGGTTAG-GG
*
4204296 -TTAGGGG-TTAAGAGTTAGGG
1 ATTAGGGGTTTAAGGGTTAGGG
4204316 ATT
1 ATT
4204319 CAAGGGTCGA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 24 0.65
23 1 0.03
ACGTcount: A:0.25, C:0.01, G:0.40, T:0.34
Consensus pattern (22 bp):
ATTAGGGGTTTAAGGGTTAGGG
Found at i:4204301 original size:14 final size:14
Alignment explanation
Indices: 4204282--4204315 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
4204272 GATTAGGGGT
4204282 TTAGGGGTT-AGACG
1 TTAGGGGTTAAGA-G
4204296 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
4204310 TTAGGG
1 TTAGGG
4204316 ATTCAAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.44, T:0.29
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:4208641 original size:14 final size:14
Alignment explanation
Indices: 4208622--4208653 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4208612 TATCAAATCT
4208622 GTAAAACTTTTATA
1 GTAAAACTTTTATA
4208636 GTAAAACTTTTATA
1 GTAAAACTTTTATA
4208650 GTAA
1 GTAA
4208654 GCATGTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (14 bp):
GTAAAACTTTTATA
Found at i:4214726 original size:43 final size:43
Alignment explanation
Indices: 4214623--4214849 Score: 217
Period size: 43 Copynumber: 5.3 Consensus size: 43
4214613 ATTCATATTT
* * * **
4214623 TTTAGCGGTGTTTGT-GAAAAAGCGCCGCTAAAATTCAT--TC
1 TTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATC
* * * *
4214663 TTTATAGCGACGTTTGTGGTAGAAGCACCGTTAAAGGTCATGGTC
1 -TT-TAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATC
* * * **
4214708 TTTAGCGGCATTTTTGGTATAAGCTTCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATC
* * ** *
4214751 TTTAGCAGCGTTTGTGGTAGAAGCGTCGCTAAACATCATAATC
1 TTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATC
* * *
4214794 TTTAGCGGCGTTTGTGATAGAAGTGCCACTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATC
4214837 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
4214850 TTTCACATAA
Statistics
Matches: 150, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
41 2 0.01
42 11 0.07
43 133 0.89
44 2 0.01
45 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCATGATC
Found at i:4216488 original size:21 final size:22
Alignment explanation
Indices: 4216462--4216516 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 22
4216452 ATCTAATTAC
4216462 AAATATTTAATTATTATA-TTT
1 AAATATTTAATTATTATAGTTT
4216483 AAATATTTAA--A-TATAGTTT
1 AAATATTTAATTATTATAGTTT
*
4216502 ATATATTCTAATTAT
1 AAATATT-TAATTAT
4216517 ATTTAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 4 0.14
19 10 0.36
20 3 0.11
21 10 0.36
22 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
AAATATTTAATTATTATAGTTT
Found at i:4216507 original size:19 final size:19
Alignment explanation
Indices: 4216476--4216522 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
4216466 ATTTAATTAT
4216476 TATATTTAAATATT-TAAA
1 TATATTTAAATATTCTAAA
* *
4216494 TATAGTTTATATATTCTAAT
1 TATA-TTTAAATATTCTAAA
4216514 TATATTTAA
1 TATATTTAA
4216523 TAAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 13 0.54
20 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
TATATTTAAATATTCTAAA
Found at i:4221999 original size:22 final size:23
Alignment explanation
Indices: 4221955--4222000 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
4221945 ATATATAATA
* *
4221955 TAATAAAATTTTAAAAAATTTCT
1 TAATAAAATTTAAAAAAAATTCT
4221978 TAATAAAA-TTAAAAAAAATTCT
1 TAATAAAATTTAAAAAAAATTCT
4222000 T
1 T
4222001 CATCCTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (23 bp):
TAATAAAATTTAAAAAAAATTCT
Found at i:4231263 original size:9 final size:9
Alignment explanation
Indices: 4231249--4231286 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
4231239 TTAAAAATCA
4231249 TATAAAAAT
1 TATAAAAAT
4231258 TATAAAAAT
1 TATAAAAAT
4231267 TATACAAGAAT
1 TATA-AA-AAT
4231278 TATAAAAAT
1 TATAAAAAT
4231287 GCATAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 16 0.59
10 4 0.15
11 7 0.26
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
TATAAAAAT
Found at i:4231263 original size:20 final size:20
Alignment explanation
Indices: 4231240--4231291 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4231230 TAATTTTTAT
*
4231240 TAAAAATCATATAAAAATTA
1 TAAAAATCATACAAAAATTA
* *
4231260 TAAAAATTATACAAGAATTA
1 TAAAAATCATACAAAAATTA
4231280 TAAAAATGCATA
1 TAAAAAT-CATA
4231292 AATTAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.29
Consensus pattern (20 bp):
TAAAAATCATACAAAAATTA
Found at i:4234282 original size:30 final size:30
Alignment explanation
Indices: 4234236--4234359 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
4234226 TTTTATTATG
*
4234236 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
4234267 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
4234297 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
4234327 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
4234357 CCA
1 CCA
4234360 TAGATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:4234291 original size:15 final size:15
Alignment explanation
Indices: 4234246--4234353 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
4234236 CCAATATCTC
*
4234246 GATACCCATATCTTT
1 GATACCCATATATTT
**
4234261 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
4234276 GATACCCATATCTTT
1 GATACCCATATATTT
**
4234291 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
4234306 GATACCCATATATTT
1 GATACCCATATATTT
** *
4234321 GACTTTCTAT-TATTT
1 GA-TACCCATATATTT
*
4234336 GATACCCATATCTTT
1 GATACCCATATATTT
4234351 GAT
1 GAT
4234354 TTTCCATAGA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 12 0.17
15 45 0.65
16 12 0.17
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:4238973 original size:30 final size:30
Alignment explanation
Indices: 4238927--4239050 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
4238917 TTTTATTATG
*
4238927 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
4238958 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
4238988 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * * *
4239018 CTATTATTTGATACACATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
4239048 CCA
1 CCA
4239051 TAAATATGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:4238982 original size:15 final size:15
Alignment explanation
Indices: 4238937--4239044 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
4238927 CCAATATCTC
4238937 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
4238952 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
4238967 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
4238982 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
4238997 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
4239012 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
*
4239027 GATACACATATCTTT
1 GATACCCATATCTTT
4239042 GAT
1 GAT
4239045 TTTCCATAAA
Statistics
Matches: 66, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.65
16 12 0.18
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:4243654 original size:20 final size:20
Alignment explanation
Indices: 4243629--4243680 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
4243619 TAATTTTTAT
*
4243629 TAAAAATCATATAAAAAGTA
1 TAAAAATCATACAAAAAGTA
* * *
4243649 TAAAAATTATACAAGAATTA
1 TAAAAATCATACAAAAAGTA
4243669 TAAAAATGCATA
1 TAAAAAT-CATA
4243681 AATTAGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.27
Consensus pattern (20 bp):
TAAAAATCATACAAAAAGTA
Found at i:4244326 original size:6 final size:6
Alignment explanation
Indices: 4244315--4244345 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4244305 CTACACTGGT
4244315 TGGGGC TGGGGC TGGGGC TGGGGC TGGGGC T
1 TGGGGC TGGGGC TGGGGC TGGGGC TGGGGC T
4244346 CCTCGAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.65, T:0.19
Consensus pattern (6 bp):
TGGGGC
Found at i:4249193 original size:13 final size:14
Alignment explanation
Indices: 4249164--4249192 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4249154 AACACATTTC
4249164 AACAACCCCGAAAA
1 AACAACCCCGAAAA
4249178 AACAACCCCGAAAA
1 AACAACCCCGAAAA
4249192 A
1 A
4249193 CGAAACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.34, G:0.07, T:0.00
Consensus pattern (14 bp):
AACAACCCCGAAAA
Found at i:4252461 original size:15 final size:15
Alignment explanation
Indices: 4252442--4252476 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4252432 TTTAAAGTTT
4252442 ATTTATTTCTTAATA
1 ATTTATTTCTTAATA
* *
4252457 TTTTATTTTTTAATA
1 ATTTATTTCTTAATA
4252472 ATTTA
1 ATTTA
4252477 AAATATGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTATTTCTTAATA
Found at i:4253059 original size:16 final size:16
Alignment explanation
Indices: 4253035--4253065 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4253025 TAGGATTAGA
*
4253035 ATGATTGAATTTATGG
1 ATGAATGAATTTATGG
4253051 ATGAATGAATTTATG
1 ATGAATGAATTTATG
4253066 ATCTTAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (16 bp):
ATGAATGAATTTATGG
Found at i:4259235 original size:41 final size:41
Alignment explanation
Indices: 4259069--4259224 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
4259059 TTTATCGTTA
* * * *
4259069 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
4259110 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
4259151 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
4259192 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
4259225 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:4259497 original size:33 final size:32
Alignment explanation
Indices: 4259442--4259504 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
4259432 GATATGTATA
4259442 TATATATATATGTTGCATTCGGCATAGGTGGT
1 TATATATATATGTTGCATTCGGCATAGGTGGT
* *
4259474 TATATTTATGTGTATGCATTCGGCATAGGTG
1 TATATATATATGT-TGCATTCGGCATAGGTG
4259505 AAAATAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.41
Consensus pattern (32 bp):
TATATATATATGTTGCATTCGGCATAGGTGGT
Found at i:4265168 original size:13 final size:13
Alignment explanation
Indices: 4265150--4265174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4265140 TATTTTAATA
4265150 TTATTTTGTGTGT
1 TTATTTTGTGTGT
4265163 TTATTTTGTGTG
1 TTATTTTGTGTG
4265175 CATTCGATGG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:4266917 original size:41 final size:41
Alignment explanation
Indices: 4266710--4266906 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
4266700 TTTATCGTTA
* * * *
4266710 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
4266751 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
4266792 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
4266833 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
4266874 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
4266907 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:4267179 original size:33 final size:32
Alignment explanation
Indices: 4267122--4267184 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
4267112 TAGATATGTA
*
4267122 TATATATATATGTTGCATTTGGCATAGGTGGT
1 TATATATATATGTTGCATTCGGCATAGGTGGT
* *
4267154 TATATTTATGTGTATGCATTCGGCATAGGTG
1 TATATATATATGT-TGCATTCGGCATAGGTG
4267185 AAAATAAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (32 bp):
TATATATATATGTTGCATTCGGCATAGGTGGT
Found at i:4269382 original size:17 final size:16
Alignment explanation
Indices: 4269343--4269386 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
4269333 AAATGACTTC
*
4269343 AACTCAAAATAACCTTA
1 AACT-AAAATTACCTTA
4269360 AACTAAAATTACCTTA
1 AACTAAAATTACCTTA
4269376 AACCTAAAATT
1 AA-CTAAAATT
4269387 TAATATTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.27
Consensus pattern (16 bp):
AACTAAAATTACCTTA
Found at i:4279124 original size:16 final size:17
Alignment explanation
Indices: 4279103--4279167 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 17
4279093 AAAAGTATAT
4279103 GTTTTCTAT-CATTCTA
1 GTTTTCTATCCATTCTA
* *
4279119 GTTTTCTATCCCTTCAA
1 GTTTTCTATCCATTCTA
* *
4279136 TTTTTC-AT-CTTTCTA
1 GTTTTCTATCCATTCTA
*
4279151 GTTTTCTTTCCATTCTA
1 GTTTTCTATCCATTCTA
4279168 CCTAGCAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
15 10 0.26
16 12 0.32
17 16 0.42
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.57
Consensus pattern (17 bp):
GTTTTCTATCCATTCTA
Found at i:4279720 original size:21 final size:22
Alignment explanation
Indices: 4279695--4279735 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4279685 TATTGAAAAT
4279695 ATTTTAATATTTT-TAATATCA
1 ATTTTAATATTTTGTAATATCA
*
4279716 ATTTTATTATTTTGTAATAT
1 ATTTTAATATTTTGTAATAT
4279736 TTTATTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTTAATATTTTGTAATATCA
Found at i:4279737 original size:18 final size:18
Alignment explanation
Indices: 4279716--4279755 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4279706 TTTAATATCA
*
4279716 ATTTTATTA-TTTTGTAAT
1 ATTTTATTAGTTAT-TAAT
4279734 ATTTTATTAGTTATTAAT
1 ATTTTATTAGTTATTAAT
4279752 ATTT
1 ATTT
4279756 AGCCTCTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATTTTATTAGTTATTAAT
Found at i:4283460 original size:12 final size:12
Alignment explanation
Indices: 4283443--4283469 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4283433 CATAAGTGAC
4283443 TAAAATGTAACT
1 TAAAATGTAACT
4283455 TAAAATGTAACT
1 TAAAATGTAACT
4283467 TAA
1 TAA
4283470 GGTAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (12 bp):
TAAAATGTAACT
Found at i:4304129 original size:29 final size:29
Alignment explanation
Indices: 4304074--4304130 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
4304064 TTTATATTGG
*
4304074 ATAAATATAATTATTTATATATGCAATAT
1 ATAAATATAATGATTTATATATGCAATAT
4304103 ATAAATATAAAATGATTT-TATAT-CAATA
1 ATAAATAT--AATGATTTATATATGCAATA
4304131 ATTGTGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 13 0.52
30 5 0.20
31 7 0.28
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (29 bp):
ATAAATATAATGATTTATATATGCAATAT
Found at i:4305485 original size:14 final size:15
Alignment explanation
Indices: 4305466--4305508 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
4305456 TAAAATTTTA
4305466 ATAAA-TAAAAATAT
1 ATAAATTAAAAATAT
*
4305480 ATAAATTATTAAATAT
1 ATAAATTA-AAAATAT
4305496 -TAAATTAAAAATA
1 ATAAATTAAAAATA
4305509 ATATGGGCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.40
15 9 0.36
16 6 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAAATTAAAAATAT
Found at i:4310000 original size:16 final size:16
Alignment explanation
Indices: 4309979--4310043 Score: 76
Period size: 16 Copynumber: 4.1 Consensus size: 16
4309969 TTCGCTGTAT
4309979 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
4309995 TGGAATAAAGGCATAA
1 TGGAATAGAGGCGTAA
* *
4310011 TGGAATAGAAGTGTAA
1 TGGAATAGAGGCGTAA
* *
4310027 TGGATTAGAGGTGTAA
1 TGGAATAGAGGCGTAA
4310043 T
1 T
4310044 AGCAAATCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.40, C:0.03, G:0.32, T:0.25
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:4310294 original size:16 final size:16
Alignment explanation
Indices: 4310257--4310298 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4310247 TTAATCATAT
*
4310257 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4310273 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4310288 TTAAAATATAT
1 TTAAAATATAT
4310299 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4310305 original size:14 final size:15
Alignment explanation
Indices: 4310266--4310307 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4310256 TTTAAACATA
*
4310266 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4310281 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4310295 A-TATAATTTAATA
1 ATTATAATTAAATA
4310308 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4310405 original size:120 final size:120
Alignment explanation
Indices: 4310260--4310662 Score: 763
Period size: 120 Copynumber: 3.4 Consensus size: 120
4310250 ATCATATTTA
4310260 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
4310325 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
4310380 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
4310445 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
*
4310500 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
* *
4310565 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTAT-AAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
*
4310619 AACATAATTATTATTAAATATATTATAATTAAAATATATTATTT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTT
4310663 TTGATATTAT
Statistics
Matches: 279, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
119 54 0.19
120 225 0.81
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
Found at i:4310425 original size:14 final size:15
Alignment explanation
Indices: 4310376--4310547 Score: 60
Period size: 15 Copynumber: 11.6 Consensus size: 15
4310366 ATAAAATATA
4310376 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4310391 TATTAAATATATTAT
1 AATTAAATATATTAT
4310406 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
* * *
4310419 AATTTAATAAAATTCTT
1 AATTAAAT-ATATT-AT
*
4310436 AA-TAAATAATATTCT
1 AATTAAAT-ATATTAT
* * * *
4310451 TATATGAATTTACTGA-
1 AAT-TAAATATA-TTAT
* *
4310467 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
4310483 ACTATAAA-ATA-TA-
1 AAT-TAAATATATTAT
4310496 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4310511 TATTAAATATATTAT
1 AATTAAATATATTAT
4310526 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4310539 AATTTAATA
1 AATTAAATA
4310548 AAATTCTTAA
Statistics
Matches: 116, Mismatches: 24, Indels: 35
0.66 0.14 0.20
Matches are distributed among these distances:
12 3 0.03
13 22 0.19
14 17 0.15
15 42 0.36
16 23 0.20
17 9 0.08
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4310654 original size:42 final size:40
Alignment explanation
Indices: 4310260--4310656 Score: 180
Period size: 39 Copynumber: 9.9 Consensus size: 40
4310250 ATCATATTTA
4310260 AACATAATTATTATTAAATATATTATAATTAAAATATATAATT
1 AACATAA-TATTATT-AATATATTATAATTAAAATATA-AATT
* * * * * *** *
4310303 TA-ATAAAATTCTTAATAAATAAT-ATTCTTATATGAATT
1 AACATAATATTATTAATATATTATAATTAAAATATAAATT
* * * *
4310341 TAC-TGAA-ATCA-TAATATATGATACTATAAAATATAAATT
1 AACAT-AATATTATTAATATATTATAAT-TAAAATATAAATT
4310380 AACATAATTATTATTAAATATATTATAATTAAAATATATAATT
1 AACATAA-TATTATT-AATATATTATAATTAAAATATA-AATT
* * * * * *** *
4310423 TA-ATAAAATTCTTAATAAATAAT-ATTCTTATATGAATT
1 AACATAATATTATTAATATATTATAATTAAAATATAAATT
* * * *
4310461 TAC-TGAA-ATCA-TAATATATGATACTATAAAATATAAATT
1 AACAT-AATATTATTAATATATTATAAT-TAAAATATAAATT
4310500 AACATAATTATTATTAAATATATTATAATTAAAATATATAATT
1 AACATAA-TATTATT-AATATATTATAATTAAAATATA-AATT
* * * *** *
4310543 TA-ATAAAATTCTTAATA-ATTA-ATATTCTTATATGAATT
1 AACATAATATTATTAATATATTATA-ATTAAAATATAAATT
* * * *
4310581 TAC-TCAA-A-TAATAATATATGAT-ACTATAAATATAAATT
1 AACAT-AATATTATTAATATATTATAATTA-AAATATAAATT
4310619 AACATAATTATTATTAAATATATTATAATTAAAATATA
1 AACATAA-TATTATT-AATATATTATAATTAAAATATA
4310657 TTATTTTTGA
Statistics
Matches: 259, Mismatches: 63, Indels: 65
0.67 0.16 0.17
Matches are distributed among these distances:
37 26 0.10
38 44 0.17
39 58 0.22
40 23 0.09
41 24 0.09
42 48 0.19
43 36 0.14
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (40 bp):
AACATAATATTATTAATATATTATAATTAAAATATAAATT
Found at i:4310655 original size:16 final size:16
Alignment explanation
Indices: 4310615--4310660 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
4310605 TATAAATATA
*
4310615 AATTAACATA-ATTAT
1 AATTAAAATATATTAT
*
4310630 TATT-AAATATATTAT
1 AATTAAAATATATTAT
4310645 AATTAAAATATATTAT
1 AATTAAAATATATTAT
4310661 TTTTGATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 11 0.42
16 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:4310671 original size:12 final size:12
Alignment explanation
Indices: 4310654--4310692 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
4310644 TAATTAAAAT
4310654 ATATTATTTTTG
1 ATATTATTTTTG
4310666 ATATTATTTTTG
1 ATATTATTTTTG
4310678 ATATTATTTTT-
1 ATATTATTTTTG
4310689 ATAT
1 ATAT
4310693 CATGTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.15
12 23 0.85
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (12 bp):
ATATTATTTTTG
Found at i:4314985 original size:25 final size:25
Alignment explanation
Indices: 4314957--4315006 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4314947 CAGTTAAAAA
* *
4314957 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
*
4314982 GATTAAAGCTACAACAGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
4315007 ACGCCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (25 bp):
GATTAAAGCCACAACAGTGAATCTT
Found at i:4315128 original size:25 final size:25
Alignment explanation
Indices: 4315082--4315131 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4315072 CAGTTAAAAA
* * *
4315082 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
4315107 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
4315132 ACGCCCTAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:4315503 original size:25 final size:25
Alignment explanation
Indices: 4315457--4315506 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4315447 CAGTTAAAAA
* * *
4315457 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
4315482 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
4315507 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:4315606 original size:125 final size:125
Alignment explanation
Indices: 4314928--4315594 Score: 1190
Period size: 125 Copynumber: 5.3 Consensus size: 125
4314918 ACATCAAATT
4314928 TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTA
1 TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTA
* *
4314993 CAACAGTGAATCTTACGCCCCAAGCAATGCAGTGGAATAGATTAAAGCCAAATTGGTGAA
66 CAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAA
4315053 TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTA
1 TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTA
* * *
4315118 CAACAGCGAATCTTACGCCCTAAGCGATGCAGTGGAATACATTAAAGCTAAATTGGTGAA
66 CAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAA
4315178 TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTA
1 TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTA
* *
4315243 CAACAACGAATCTTACGCCCCAAGCAATGCAGTGGAATAGATTAAAGCCAAATTGGTGAA
66 CAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAA
* * * *
4315303 TCTTGTTTATCTGACATTGCATTTAAAAAGATTAAAGCCACATTGGTGAATCTTGATTAAAGCTA
1 TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTA
*
4315368 CAACAGTGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAA
66 CAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAA
4315428 TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTA
1 TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTA
* * *
4315493 CAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAACAAATTAAAACCAAATTGGTGAA
66 CAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAA
*
4315553 TCTTGTTTCTCCAACATTGCAGTTAAAAAGATTAAAGCCACA
1 TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACA
4315595 ATGACGAATC
Statistics
Matches: 516, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 516 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (125 bp):
TCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTA
CAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAA
Found at i:4318368 original size:25 final size:25
Alignment explanation
Indices: 4318322--4318371 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4318312 CAGTTAAAAA
* * *
4318322 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
4318347 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
4318372 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:4318725 original size:25 final size:25
Alignment explanation
Indices: 4318697--4318746 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4318687 CAGTTAAAAA
* *
4318697 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
*
4318722 GATTAAAGCTACAACAGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
4318747 ACGCCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (25 bp):
GATTAAAGCCACAACAGTGAATCTT
Found at i:4318993 original size:25 final size:25
Alignment explanation
Indices: 4318947--4318996 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4318937 CAGTTAAAAA
* * *
4318947 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
4318972 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
4318997 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:4319096 original size:125 final size:125
Alignment explanation
Indices: 4318197--4319084 Score: 1560
Period size: 125 Copynumber: 7.1 Consensus size: 125
4318187 CAATTCAAAC
* * * *
4318197 GATTAAAGCCACCTCGGTGAATCTTGATTAAAGCTACAACAGCAAATCTTACGCCCCAATCGATA
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
4318262 CAGTGGAATATATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
4318322 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCAATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
**
4318387 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCTAACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* * *
4318447 GATTAAAGCCACATTGGTGAATCTTGATTAAAACTACAACAGTGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
4318512 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
*
4318572 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAACGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
4318637 CAGTGGAACAGATTAAAACCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* *
4318697 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGTGAATCTTACGCCCCAAGCAATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
4318762 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCTGACGTTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
* * *
4318822 GATTAAAGCCACATTGGTGAATCTTGATTAAAACTACAACAGTGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
*
4318887 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCTGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
4318947 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
1 GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
* *
4319012 CAGTGGAACAGATTAAAACCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
66 CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
4319072 GATTAAAGCCACA
1 GATTAAAGCCACA
4319085 ATGACGAATC
Statistics
Matches: 726, Mismatches: 37, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 726 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (125 bp):
GATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATG
CAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAA
Found at i:4321602 original size:30 final size:30
Alignment explanation
Indices: 4321556--4321679 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
4321546 TTTTTTTATG
*
4321556 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
4321587 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
4321617 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
4321647 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
4321677 CCA
1 CCA
4321680 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:4321611 original size:15 final size:15
Alignment explanation
Indices: 4321566--4321673 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
4321556 CCAATATCTC
4321566 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
4321581 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
4321596 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
4321611 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
4321626 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
4321641 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
4321656 GATACCCATATCTTT
1 GATACCCATATCTTT
4321671 GAT
1 GAT
4321674 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:4322135 original size:110 final size:105
Alignment explanation
Indices: 4321937--4322220 Score: 377
Period size: 110 Copynumber: 2.7 Consensus size: 105
4321927 TCAAAAAAGG
* *
4321937 AAAATATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
1 AAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCT
* * *
4322002 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
65 GGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATA-CC--C
*
4322046 TTAAAAATTTCAAAATAAGGCAATGTCTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGC
1 --AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGC
4322111 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCC
64 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCC
* *
4322153 -----CTTC-AAA-AAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
*
4322210 GGTTTCGATTT
66 GGTGTCGATTT
4322221 CTCGTTTATC
Statistics
Matches: 163, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
97 29 0.18
98 29 0.18
99 3 0.02
100 3 0.02
107 1 0.01
109 2 0.01
110 92 0.56
111 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (105 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCC
Found at i:4327754 original size:116 final size:116
Alignment explanation
Indices: 4327550--4327767 Score: 400
Period size: 116 Copynumber: 1.9 Consensus size: 116
4327540 TGATAAATTG
*
4327550 TATTAAGTTAAAAAATTGTATTAATGGATAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGATAGTAAAATTATCAAATTATATAAAATTATTAATTGT
4327615 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* * *
4327666 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGATAGTAAAATTATCAAATTATATAAAATTATTAATTGT
4327731 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
4327768 CGTTAAGGTT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 98 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGATAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:4327808 original size:23 final size:23
Alignment explanation
Indices: 4327776--4328508 Score: 504
Period size: 23 Copynumber: 29.7 Consensus size: 23
4327766 TACGTTAAGG
4327776 TTAGGATTAGGGTTTTTAATTAAA
1 TTAGG-TTAGGGTTTTTAATTAAA
*
4327800 TTAAGTTAGGGTTTTTAATTAATTTA
1 TTAGGTTAGGGTTTTTAATTAA---A
4327826 GGTTAAGGTTAGGGTTTTTAAGTT-AA
1 --TT-AGGTTAGGGTTTTTAA-TTAAA
*
4327852 --GGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
4327873 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
4327896 TTAGGTTAGGGTTGGGGTTTTTAATTAAA
1 TTAGGTTA------GGGTTTTTAATTAAA
4327925 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
*
4327948 TTAGGTTAGGGTTAGGGTTT--TTAAG
1 TTAGGTTAGGGTT----TTTAATTAAA
4327973 TTAAGGGTTTAGGGTTTTTAATTAAA
1 TT-A-GG-TTAGGGTTTTTAATTAAA
*
4327999 TTAGGTTAGAGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
4328022 TTAGGTTAGGGTTTTTAATT-AA
1 TTAGGTTAGGGTTTTTAATTAAA
* *
4328044 --GGGTTTAGAGTTTTTAATTAAATTA
1 TTAGG-TTAGGGTTTTTAATT-AA--A
4328069 GTTTATGGTTAGGGTTTTTAATTAAA
1 --TTA-GGTTAGGGTTTTTAATTAAA
4328095 TTAGGTTAAAGTTAGGGTTTTTAAGTT-AA
1 TTA-G-----GTTAGGGTTTTTAA-TTAAA
*
4328124 --GGGTTTAGGGTTTTTAATTAAA
1 TTAGG-TTAGGGTTTTTAATTAAA
4328146 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
4328169 TTAGGTTAGGGTTAGGGTTT--TT-AA
1 TTAGGTTAGGGTT----TTTAATTAAA
*
4328193 TTAAGGGTTTAGAGTTTTTAATTAAA
1 TT-A-GG-TTAGGGTTTTTAATTAAA
* *
4328219 TTAGGTTAAGGTTAGGATTT--TTAAG
1 TTAGGTTAGGGTT----TTTAATTAAA
* *
4328244 TTAAGGGTTTAGGATTTTAAATTAAA
1 TT-A-GG-TTAGGGTTTTTAATTAAA
4328270 TTAGGTTAGGGTTTTTAATTAATTTA
1 TTAGGTTAGGGTTTTTAATTAA---A
4328296 GGTTAGGGTTAGGGTTTTTAATT-AA
1 --TTA-GGTTAGGGTTTTTAATTAAA
4328321 -T-GGTTTAGGGTTTTTAATTAAA
1 TTAGG-TTAGGGTTTTTAATTAAA
* *
4328343 TTAGGTTAGGATTTTCAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
4328366 TTAGGTTAGGGTTTTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAA
* *
4328389 TTAGGTTAAGGTTAGGGTTT--TTAAGT
1 TTAGGTTAGGGTT----TTTAATTAA-A
*
4328415 TTAGGGTTTAAGGTTTTTAATTAAATTA
1 TTA-GG-TTAGGGTTTTTAATT-AA--A
4328443 GGTTAGGGTTAGGGTTTTTAATTAAA
1 --TTA-GGTTAGGGTTTTTAATTAAA
4328469 TTAGGTTAGGG--TTTAAGGTTAAA
1 TTAGGTTAGGGTTTTTAA--TTAAA
4328492 TTAGGTTAGGGTTTTTA
1 TTAGGTTAGGGTTTTTA
4328509 TTACATCAAA
Statistics
Matches: 584, Mismatches: 34, Indels: 181
0.73 0.04 0.23
Matches are distributed among these distances:
20 6 0.01
21 54 0.09
22 20 0.03
23 239 0.41
24 33 0.06
25 30 0.05
26 31 0.05
27 27 0.05
28 32 0.05
29 100 0.17
30 12 0.02
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.47
Consensus pattern (23 bp):
TTAGGTTAGGGTTTTTAATTAAA
Found at i:4328085 original size:29 final size:27
Alignment explanation
Indices: 4327981--4328478 Score: 261
Period size: 29 Copynumber: 20.0 Consensus size: 27
4327971 AGTTAAGGGT
4327981 TTAGGGTTTTTAATT-AA-A--TTAGG
1 TTAGGGTTTTTAATTAAATAGGTTAGG
*
4328004 TTAGAGTTTTTAATT-AA-A--TTAGG
1 TTAGGGTTTTTAATTAAATAGGTTAGG
*
4328027 TTAGGGTTTTTAATT--A-AGG---GT
1 TTAGGGTTTTTAATTAAATAGGTTAGG
* *
4328048 TTAGAGTTTTTAATTAAATTAGTTTATGG
1 TTAGGGTTTTTAATTAAA-TAGGTTA-GG
*
4328077 TTAGGGTTTTTAATTAAATTAGGTTAAAG
1 TTAGGGTTTTTAATTAAA-TAGGTT-AGG
*
4328106 TTAGGGTTTTTAAGTT--A-AGG---GT
1 TTAGGGTTTTTAA-TTAAATAGGTTAGG
4328128 TTAGGGTTTTTAATT-AA-A--TTAGG
1 TTAGGGTTTTTAATTAAATAGGTTAGG
4328151 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAA-TAGGTTA-GG
*
4328180 TTAGGGTTTTTAATT--A-AGG---GT
1 TTAGGGTTTTTAATTAAATAGGTTAGG
*
4328201 TTAGAGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAA-TAGGTT-AGG
* *
4328230 TTAGGATTTTTAAGTT--A-AGG---GT
1 TTAGGGTTTTTAA-TTAAATAGGTTAGG
* *
4328252 TTAGGATTTTAAATT-AA-A--TTAGG
1 TTAGGGTTTTTAATTAAATAGGTTAGG
*
4328275 TTAGGGTTTTTAATTAATTTAGGTTAGGG
1 TTAGGGTTTTTAATTAA-ATAGGTTA-GG
4328304 TTAGGGTTTTTAATT-AAT-GG-T---
1 TTAGGGTTTTTAATTAAATAGGTTAGG
4328325 TTAGGGTTTTTAATT-AA-A--TTAGG
1 TTAGGGTTTTTAATTAAATAGGTTAGG
* *
4328348 TTAGGATTTTCAATT-AA-A--TTAGG
1 TTAGGGTTTTTAATTAAATAGGTTAGG
4328371 TTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAA-TAGGTT-AGG
*
4328400 TTAGGGTTTTTAAGTT---TAGG---GT
1 TTAGGGTTTTTAA-TTAAATAGGTTAGG
*
4328422 TTAAGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAA-TAGGTTA-GG
4328451 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTAAA-TAGGTTAGG
4328479 GTTTAAGGTT
Statistics
Matches: 382, Mismatches: 32, Indels: 117
0.72 0.06 0.22
Matches are distributed among these distances:
20 1 0.00
21 53 0.14
22 45 0.12
23 102 0.27
24 5 0.01
25 13 0.03
26 15 0.04
27 2 0.01
28 13 0.03
29 126 0.33
30 7 0.02
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (27 bp):
TTAGGGTTTTTAATTAAATAGGTTAGG
Found at i:4328154 original size:124 final size:121
Alignment explanation
Indices: 4327854--4328477 Score: 444
Period size: 124 Copynumber: 5.0 Consensus size: 121
4327844 TAAGTTAAGG
*
4327854 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTGGGGTTTTTA
1 GTTAGGATTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTAGGTTA------GGGTTTTTA
*
4327919 ATTAAATTAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAGTT--A--AGG
59 ATT-AA--AGGTTTA-GGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAA-TTAAATTAGG
*
4327979 GT-
119 TTA
* * *
4327981 -TTAGGGTTTTTAATTAAATTAGGTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAG
1 GTTAGGATTTTTAATTAAA-TAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAA
*
4328045 GGTTTAGAGTTTTTAATTAAATTAGTTTATGGTTAGGGTTTTTAATTAAATTAGGTTAAA
65 GGTTTAG-GTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT--A
* *
4328105 GTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAA
1 GTTAGGATTTTTAA-TTAAATAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATT-A
* **** * * * *
4328168 ATTAGG-TTAGGGTTAGGGTT--TTTAATTAAGGGTTTAGAGTTTTTAATTAAATTAGGTTAA
63 A--AGGTTTAGGTTTTTAATTAAATTAGTTTAGGG-TTAGGGTTTTTAATTAAATTAGGTT-A
* * *
4328228 GGTTAGGATTTTTAAGTT-AA-GGGTTTAGGATTTTAAATTAAATTAGGTTAGGGTTTTTAATTA
1 -GTTAGGATTTTTAA-TTAAATAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTA
* **** * * * *
4328291 ATTTAGG-TTAGGGTTAGGGTT--TTTAATTAATGGTTTAGGGTTTTTAATTAAATTA-G---
63 A---AGGTTTAGGTTTTTAATTAAATTAGTTTA-GGGTTAGGGTTTTTAATTAAATTAGGTTA
*
4328347 GTTAGGATTTTCAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTA
1 GTTAGGATTTTTAATTAAA-TAGGTTAGGGTTTTTAATT-AA--A--TT-AGGTTAGGGTTTTTA
* * *
4328412 AGTTTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
59 A-TTAAAGGTTT-AGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
4328477 G
1 G
4328478 GGTTTAAGGT
Statistics
Matches: 421, Mismatches: 39, Indels: 71
0.79 0.07 0.13
Matches are distributed among these distances:
117 7 0.02
118 53 0.13
119 16 0.04
120 16 0.04
121 4 0.01
122 1 0.00
123 17 0.04
124 171 0.41
125 47 0.11
126 80 0.19
127 8 0.02
130 1 0.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (121 bp):
GTTAGGATTTTTAATTAAATAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAAG
GTTTAGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:4328418 original size:15 final size:15
Alignment explanation
Indices: 4328394--4328423 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4328384 TTAAATTAGG
4328394 TTAAGGTTAGGGTTT
1 TTAAGGTTAGGGTTT
*
4328409 TTAAGTTTAGGGTTT
1 TTAAGGTTAGGGTTT
4328424 AAGGTTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (15 bp):
TTAAGGTTAGGGTTT
Found at i:4328451 original size:30 final size:30
Alignment explanation
Indices: 4328415--4328488 Score: 132
Period size: 29 Copynumber: 2.5 Consensus size: 30
4328405 GTTTTTAAGT
4328415 TTAGGGTTTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTAAGGTTTTTAATTAAATTAGG
*
4328445 TTAGGG-TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTAAGGTTTTTAATTAAATTAGG
4328474 TTAGGGTTTAAGGTT
1 TTAGGGTTTAAGGTT
4328489 AAATTAGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 28 0.68
30 13 0.32
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (30 bp):
TTAGGGTTTAAGGTTTTTAATTAAATTAGG
Found at i:4328484 original size:147 final size:147
Alignment explanation
Indices: 4327851--4328508 Score: 639
Period size: 147 Copynumber: 4.4 Consensus size: 147
4327841 TTTTAAGTTA
*
4327851 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTGGGGTTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG--TTTAATTAAATTAGGTTA------GGATTT
*
4327916 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAGTTAAGGGT
58 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGT
4327981 TTAGGGTTTTTAATTAAATTAGGTT
123 TTAGGGTTTTTAATTAAATTAGGTT
4328006 A--G--A--GTTTTTAATTAAATTAGGTTAGGGTTT--TT-AATTAAGGGTTTA-GAGTTTTTAA
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAATTAAATT-A-GG-TTAGGA-TTTTTAA
*
4328061 TTAAATTAGTTTATGGTTAGGGTTTTTAATTAAATTAGGTTAAAGTTAGGGTTTTTAAGTTAAGG
62 TT-AA--A--TTA-GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
4328126 GTTTAGGGTTTTTAATT-AA--A--TT
121 GTTTAGGGTTTTTAATTAAATTAGGTT
* *
4328148 A-GGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAGGGTTTA-GAGTTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTA----ATTAAATT-A-GG-TTAGGA-TTT
* *** * * * *
4328210 TTAATTAAATTAGGTTAAGG-TTAGGATT--TTTAAGTTAAGGGTTTA-GGATTTTAAATTAAAT
58 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAA-GG-TTAGGGTTTTTAAGTT-AA-
* *
4328271 TAGG-TTAGGGTTTTTAATTAATTTAGGTT
119 -GGGTTTAGGGTTTTTAATTAAATTAGGTT
*
4328300 AGGGTTAGGGTTTTTAATT-AA-T-GGTTTAGGGTTTTTAATTAAATTAGGTTAGGATTTTCAAT
1 AGGGTTAGGGTTTTTAATTAAATTAGG-TTAGGG--TTTAATTAAATTAGGTTAGGATTTTTAAT
* *
4328362 TAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTTAGGGTTTAAG
63 TAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGG
4328427 GTTTTTAATTAAATTAGGTT
128 GTTTTTAATTAAATTAGGTT
*
4328447 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAAGGTTAAATTAGGTTAGGGTTTTTA
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAA--TTAAATTAGGTTAGGATTTTTA
4328509 TTACATCAAA
Statistics
Matches: 424, Mismatches: 31, Indels: 102
0.76 0.06 0.18
Matches are distributed among these distances:
140 1 0.00
141 9 0.02
142 5 0.01
143 1 0.00
144 14 0.03
145 15 0.04
146 21 0.05
147 189 0.45
148 21 0.05
149 64 0.15
150 20 0.05
151 8 0.02
152 9 0.02
153 43 0.10
154 3 0.01
155 1 0.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (147 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAATTAAATTAGGTTAGGATTTTTAATTAA
ATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
TTTAATTAAATTAGGTT
Found at i:4328533 original size:26 final size:25
Alignment explanation
Indices: 4328504--4328597 Score: 161
Period size: 25 Copynumber: 3.7 Consensus size: 25
4328494 AGGTTAGGGT
4328504 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
4328529 TTTTTATTACATTAAATAAACTTCTA
1 -TTTTATTACATCAAATAAACTTCTA
4328555 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
4328580 TTTTATTACATAAAATAA
1 TTTTATTACATCAAATAA
4328598 TATCAAAATA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 41 0.63
26 24 0.37
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:4328633 original size:44 final size:45
Alignment explanation
Indices: 4328565--4328651 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 45
4328555 TTTTATTACA
4328565 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
* *
4328610 TCAAA-AAATTTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
4328652 TTCAAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 35 0.88
45 5 0.12
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:4329107 original size:18 final size:18
Alignment explanation
Indices: 4329073--4329107 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4329063 CGAAAAAGGA
**
4329073 TACATATAAGGGTTAGGG
1 TACATATAAGGCCTAGGG
4329091 TACATATAAGGCCTAGG
1 TACATATAAGGCCTAGG
4329108 AAACGCACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (18 bp):
TACATATAAGGCCTAGGG
Found at i:4331010 original size:22 final size:22
Alignment explanation
Indices: 4330940--4331013 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
4330930 AAATATGGAT
*
4330940 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAAATTTGGAAGGAAA
4330962 TTGAGAGAAATTTGGAAGGAAA
1 TTGAGAGAAATTTGGAAGGAAA
*
4330984 TTGAGAGGAA-TT-GAGAGGAAA
1 TTGAGAGAAATTTGGA-AGGAAA
4331005 TATGAGAGA
1 T-TGAGAGA
4331014 GGATTTGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
20 2 0.04
21 9 0.19
22 36 0.77
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGGAAGGAAA
Found at i:4331012 original size:12 final size:11
Alignment explanation
Indices: 4330956--4331012 Score: 66
Period size: 10 Copynumber: 5.2 Consensus size: 11
4330946 GAATTTTGGA
4330956 AGGAAATTGAG
1 AGGAAATTGAG
4330967 A-GAAATTTG-G
1 AGGAAA-TTGAG
4330977 AAGGAAATTGAG
1 -AGGAAATTGAG
4330989 AGG-AATTGAG
1 AGGAAATTGAG
4330999 AGGAAATATGAG
1 AGGAAAT-TGAG
4331011 AG
1 AG
4331013 AGGATTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
10 15 0.38
11 14 0.35
12 11 0.28
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:4331324 original size:18 final size:19
Alignment explanation
Indices: 4331301--4331345 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
4331291 GTTCAAGGTG
4331301 TAATTAATTTAAATTT-TT
1 TAATTAATTTAAATTTATT
4331319 TAATTAA-TTAAATTTATT
1 TAATTAATTTAAATTTATT
*
4331337 TAATGAATT
1 TAATTAATT
4331346 ATTTAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 15 0.62
19 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TAATTAATTTAAATTTATT
Found at i:4331842 original size:4 final size:4
Alignment explanation
Indices: 4331833--4331865 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
4331823 CGAAAATATT
4331833 TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
4331866 TTATGCTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:4335406 original size:13 final size:13
Alignment explanation
Indices: 4335388--4335412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4335378 TCAAACTTTT
4335388 TATTTTTAATATA
1 TATTTTTAATATA
4335401 TATTTTTAATAT
1 TATTTTTAATAT
4335413 TTTATATATT
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:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTTAATATA
Found at i:4336042 original size:15 final size:15
Alignment explanation
Indices: 4336011--4336051 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4336001 TATGACACAA
4336011 TTATAATATAAAATTT
1 TTATAA-ATAAAATTT
*
4336027 TTATAAATATAATTT
1 TTATAAATAAAATTT
*
4336042 TGATAAATAA
1 TTATAAATAA
4336052 CACTATTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TTATAAATAAAATTT
Found at i:4339484 original size:15 final size:15
Alignment explanation
Indices: 4339459--4339510 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 15
4339449 AGCAATCCCC
4339459 AAAACCTCTAAAATCA
1 AAAACC-CTAAAATCA
4339475 AAAACCCT-AAA-CA
1 AAAACCCTAAAATCA
*
4339488 AAAATCCCCAAAATC-
1 AAAA-CCCTAAAATCA
4339503 AAAACCCT
1 AAAACCCT
4339511 TACCCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 6 0.19
14 9 0.29
15 9 0.29
16 7 0.23
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAACCCTAAAATCA
Found at i:4339506 original size:28 final size:29
Alignment explanation
Indices: 4339468--4339527 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
4339458 CAAAACCTCT
4339468 AAAATCAAAAACCCTAAACAAAAATCCCC
1 AAAATCAAAAACCCTAAACAAAAATCCCC
* * *
4339497 AAAATC-AAAACCCTTACCCAAAATCCCC
1 AAAATCAAAAACCCTAAACAAAAATCCCC
4339525 AAA
1 AAA
4339528 TTTGACAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (29 bp):
AAAATCAAAAACCCTAAACAAAAATCCCC
Found at i:4348271 original size:16 final size:16
Alignment explanation
Indices: 4348250--4348281 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4348240 ATTTGCTACA
4348250 GAGATGAAGGGTAACC
1 GAGATGAAGGGTAACC
4348266 GAGATGAAGGGTAACC
1 GAGATGAAGGGTAACC
4348282 ATATAAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.38, T:0.12
Consensus pattern (16 bp):
GAGATGAAGGGTAACC
Found at i:4360933 original size:16 final size:16
Alignment explanation
Indices: 4360908--4360950 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
4360898 AGTAATTAAC
4360908 TAAT-TTTTTAAATAAA
1 TAATATTTTTAAA-AAA
4360924 -AATATTTTTAAAAAA
1 TAATATTTTTAAAAAA
*
4360939 TTATATTTTTAA
1 TAATATTTTTAA
4360951 TTTTTAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATATTTTTAAAAAA
Done.