Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 16 of 316
Found at i:4950120 original size:18 final size:19
Alignment explanation
Indices: 4950099--4950135 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4950089 TTATTATTAA
4950099 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
4950117 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
4950136 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:4950243 original size:59 final size:58
Alignment explanation
Indices: 4950177--4950362 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
4950167 CTCAAATCAT
* *
4950177 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
4950236 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
4950296 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
4950356 AATATAT
1 AATATAT
4950363 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:4950300 original size:120 final size:120
Alignment explanation
Indices: 4950079--4950368 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
4950069 TTAATCATAT
4950079 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
4950144 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
4950201 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
4950265 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
4950321 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
4950369 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:4953677 original size:18 final size:18
Alignment explanation
Indices: 4953654--4953688 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4953644 GTTTCAGACG
4953654 TGAGAAAGAAATGAGAAA
1 TGAGAAAGAAATGAGAAA
4953672 TGAGAAAGAAATGAGAA
1 TGAGAAAGAAATGAGAA
4953689 GACGGTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (18 bp):
TGAGAAAGAAATGAGAAA
Found at i:4955028 original size:105 final size:105
Alignment explanation
Indices: 4954846--4955055 Score: 420
Period size: 105 Copynumber: 2.0 Consensus size: 105
4954836 CCATATGAAT
4954846 TAACTTCTAAATTAATTCTCTTTAATTCTAATCTTTCTATTTCTTCTTGGACTATTTGTTTTAAA
1 TAACTTCTAAATTAATTCTCTTTAATTCTAATCTTTCTATTTCTTCTTGGACTATTTGTTTTAAA
4954911 ATGTATATAAGTAAGACTATATGCTTGAATTTGAGACTTA
66 ATGTATATAAGTAAGACTATATGCTTGAATTTGAGACTTA
4954951 TAACTTCTAAATTAATTCTCTTTAATTCTAATCTTTCTATTTCTTCTTGGACTATTTGTTTTAAA
1 TAACTTCTAAATTAATTCTCTTTAATTCTAATCTTTCTATTTCTTCTTGGACTATTTGTTTTAAA
4955016 ATGTATATAAGTAAGACTATATGCTTGAATTTGAGACTTA
66 ATGTATATAAGTAAGACTATATGCTTGAATTTGAGACTTA
4955056 CTTATGAACC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (105 bp):
TAACTTCTAAATTAATTCTCTTTAATTCTAATCTTTCTATTTCTTCTTGGACTATTTGTTTTAAA
ATGTATATAAGTAAGACTATATGCTTGAATTTGAGACTTA
Found at i:4965760 original size:12 final size:12
Alignment explanation
Indices: 4965743--4965769 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4965733 CATTTAATCT
4965743 TCATGCAATTTG
1 TCATGCAATTTG
4965755 TCATGCAATTTG
1 TCATGCAATTTG
4965767 TCA
1 TCA
4965770 ATAATCTCCC
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:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (12 bp):
TCATGCAATTTG
Found at i:4967750 original size:21 final size:21
Alignment explanation
Indices: 4967721--4967761 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4967711 ACCTACTCAA
*
4967721 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
*
4967742 ACTCTACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
4967762 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:4971645 original size:12 final size:12
Alignment explanation
Indices: 4971627--4971674 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
4971617 TGGATTTTTT
4971627 AAAATGGAAATG
1 AAAATGGAAATG
*
4971639 GAAATGGAAATG
1 AAAATGGAAATG
* *
4971651 AAAATGAAAATA
1 AAAATGGAAATG
4971663 AAAATGAGAAAT
1 AAAATG-GAAAT
4971675 AATTCATTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 26 0.87
13 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:4971666 original size:6 final size:6
Alignment explanation
Indices: 4971627--4971674 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
4971617 TGGATTTTTT
* * * *
4971627 AAAATG GAAATG GAAATG GAAATG AAAATG AAAATA AAAATG AGAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAAT
4971675 AATTCATTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 33 0.89
7 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:4973053 original size:11 final size:11
Alignment explanation
Indices: 4973037--4973061 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4973027 AAAAGGCTAA
4973037 TTTTGGACTAT
1 TTTTGGACTAT
4973048 TTTTGGACTAT
1 TTTTGGACTAT
4973059 TTT
1 TTT
4973062 GGGCATTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (11 bp):
TTTTGGACTAT
Found at i:4973556 original size:20 final size:21
Alignment explanation
Indices: 4973509--4973558 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
4973499 TAGAGATAGG
4973509 ACAAATCTACCGGATTAGAGT
1 ACAAATCTACCGGATTAGAGT
*
4973530 ACAAATCTGCCGGATTAGAGT
1 ACAAATCTACCGGATTAGAGT
4973551 -CAAATCTA
1 ACAAATCTA
4973559 ATAAGGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (21 bp):
ACAAATCTACCGGATTAGAGT
Found at i:4976247 original size:21 final size:21
Alignment explanation
Indices: 4976208--4976260 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4976198 TCTACTGCCA
**
4976208 TCGCTGCTGCCTTTACCTCCC
1 TCGCTGCTGCCGCTACCTCCC
*
4976229 TCGCTGCTGCCGCTGCCTCCC
1 TCGCTGCTGCCGCTACCTCCC
* *
4976250 TCTCTACTGCC
1 TCGCTGCTGCC
4976261 TCCGCTCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.49, G:0.17, T:0.30
Consensus pattern (21 bp):
TCGCTGCTGCCGCTACCTCCC
Found at i:4982013 original size:9 final size:9
Alignment explanation
Indices: 4981908--4982007 Score: 69
Period size: 9 Copynumber: 10.9 Consensus size: 9
4981898 CAGCAAAAAG
4981908 TTATGTAAA
1 TTATGTAAA
*
4981917 TTATGTAAG
1 TTATGTAAA
* * **
4981926 TTGTTTATC
1 TTATGTAAA
4981935 TTATGTAAA
1 TTATGTAAA
4981944 TTATGTAACA
1 TTATGTAA-A
* *
4981954 TGTGATATATAT
1 T-T-ATGTA-AA
4981966 TTATGT-AA
1 TTATGTAAA
* *
4981974 TT-GGTAAG
1 TTATGTAAA
4981982 TTATGTAAA
1 TTATGTAAA
4981991 TTATGTAAA
1 TTATGTAAA
4982000 TTATGTAA
1 TTATGTAA
4982008 GATATGATAT
Statistics
Matches: 68, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
7 2 0.03
8 6 0.09
9 47 0.69
10 5 0.07
11 2 0.03
12 5 0.07
13 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (9 bp):
TTATGTAAA
Found at i:4982013 original size:27 final size:27
Alignment explanation
Indices: 4981908--4982013 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
4981898 CAGCAAAAAG
* * * **
4981908 TTATGTAAATTATGTAAGTTGTTTATC
1 TTATGTAAATTATGTAAGATATGTAAA
* *
4981935 TTATGTAAATTATGTAACATGTGATATATA
1 TTATGTAAATTATGTAAGATATG-TA-A-A
* *
4981965 TTTATGT-AATT-GGTAAGTTATGTAAA
1 -TTATGTAAATTATGTAAGATATGTAAA
4981991 TTATGTAAATTATGTAAGATATG
1 TTATGTAAATTATGTAAGATATG
4982014 ATATATATAT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
25 6 0.10
26 5 0.08
27 30 0.48
28 4 0.06
29 7 0.11
30 4 0.06
31 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.46
Consensus pattern (27 bp):
TTATGTAAATTATGTAAGATATGTAAA
Found at i:4982510 original size:102 final size:102
Alignment explanation
Indices: 4982272--4982667 Score: 575
Period size: 102 Copynumber: 3.9 Consensus size: 102
4982262 AATTTGTTGA
* * *
4982272 ACAA-TTAATTTAATTAGGTTATTTAACAAA-AAAATAAAAGTAAACAAAATATTTTTTGTAATT
1 ACAATTTAATTTAATTAGGTAATTTAA-AAATAAAATAAAAGTAGACAAAATATTTTTTGTGATT
*
4982335 AAAATAAAATA-AA-AAAATATTTAAAAAAACTTCAAAT
65 AAAATAAAATACAATAAAATATTTAAAAAAA-TTTAAAT
* * * * * *
4982372 ATAATGTAATTTAACTAGGTAATTTAAAAATAAAATAAGAGTAGACATAATATTTTTTGTTATTA
1 ACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTGATTA
4982437 AAATAAAATACAATAAAATATTTAAAAAAATTTAAAT
66 AAATAAAATACAATAAAATATTTAAAAAAATTTAAAT
* * *
4982474 ACAATTTAACTTAATTAGGTAATTTAAAAATAAAATAAGAGTAGACATAATATTTTTTGTGATTA
1 ACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTGATTA
* *
4982539 AAATAAAATGCAATAAAATATTTAAAAAACTTTAAAT
66 AAATAAAATACAATAAAATATTTAAAAAAATTTAAAT
*
4982576 ACAATTTAATTTAATTTGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTGATTA
1 ACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTGATTA
* * *
4982641 AAATAAAATAAAATAACATATTCAAAA
66 AAATAAAATACAATAAAATATTTAAAA
4982668 TAAAACTATG
Statistics
Matches: 268, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
100 6 0.02
101 59 0.22
102 187 0.70
103 16 0.06
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (102 bp):
ACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTTGTGATTA
AAATAAAATACAATAAAATATTTAAAAAAATTTAAAT
Found at i:4990425 original size:30 final size:31
Alignment explanation
Indices: 4990391--4990453 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
4990381 AATTTATATC
* *
4990391 TTTATAATTTTTAAAGGATT-AAATTA-AATT
1 TTTATAACTTTT-AAGGATTCAAAGTATAATT
*
4990421 TTTATCACTTTTAAGGATTCAAAGTATAATT
1 TTTATAACTTTTAAGGATTCAAAGTATAATT
4990452 TT
1 TT
4990454 ACATTTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 7 0.25
30 15 0.54
31 6 0.21
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (31 bp):
TTTATAACTTTTAAGGATTCAAAGTATAATT
Found at i:4998020 original size:16 final size:17
Alignment explanation
Indices: 4997989--4998021 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4997979 TTCATAAGAA
4997989 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
4998006 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
4998022 GCTCTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:4998367 original size:46 final size:46
Alignment explanation
Indices: 4998302--4998575 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
4998292 TTATCTTTGA
* * * * * *
4998302 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
4998348 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** * *
4998394 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
4998440 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
4998486 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
4998532 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
4998576 GTCAGAGAGC
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 206 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:5000806 original size:14 final size:14
Alignment explanation
Indices: 5000789--5000831 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
5000779 TCTGATAATA
5000789 TAATTATAATAAAT
1 TAATTATAATAAAT
5000803 TAATT-TAATATAAT
1 TAATTATAATA-AAT
*
5000817 TTATTACTAATAAAT
1 TAATTA-TAATAAAT
5000832 ATATATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 3 0.12
16 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATTATAATAAAT
Found at i:5002376 original size:315 final size:316
Alignment explanation
Indices: 5001804--5002435 Score: 1239
Period size: 315 Copynumber: 2.0 Consensus size: 316
5001794 AATTAATTTC
5001804 TGTTAAAATCACTTAATAAAATCATCATATAATTAAATTAAAGCTTCAAATACATGATTATTCAT
1 TGTTAAAATCACTTAATAAAATCATCATATAATTAAATTAAAGCTTCAAATACATGATTATTCAT
*
5001869 CATAAACTTCCAGCACTCATTCATAGTAACTTTCAAACTCACACATAGAATCAAAAACTAATGAA
66 CATAAAATTCCAGCACTCATTCATAGTAACTTTCAAACTCACACATAGAATCAAAAACTAATGAA
5001934 TTCAGTAGTTGGACCTAATTGTAAAAGTCACAAAAACATAAAAATTACAAAGTAAAAGCAAGAAT
131 TTCAGTAGTTGGACCTAATTGTAAAAGTCACAAAAACATAAAAATTACAAAGTAAAAGCAAGAAT
5001999 TGAACTCACATGGTGTAAAAAATGAAAAACCAGCTTGAAAGACTCTCCTATGGCGTTTTGGCTGA
196 TGAACTCACATGGTGTAAAAAATGAAAAACCAGCTTGAAAGACTCTCCTATGGCGTTTTGGCTGA
*
5002064 AGAACAATGAAGAAATATCTAGAA-TTTCAATTTAGTGTTTATTTTATTTAGTTAA
261 AGAACAATGAAGAAATATCTAGAATTTTCAATTTAGTCTTTATTTTATTTAGTTAA
5002119 TGTTAAAATCACTTAATAAAATCATCATATAATTAAATTAAAGCTTCAAATACATGATTATTCAT
1 TGTTAAAATCACTTAATAAAATCATCATATAATTAAATTAAAGCTTCAAATACATGATTATTCAT
5002184 CATAAAATTCCAGCACTCATTCATAGTAACTTTCAAACTCACACATAGAATCAAAAACTAATGAA
66 CATAAAATTCCAGCACTCATTCATAGTAACTTTCAAACTCACACATAGAATCAAAAACTAATGAA
5002249 TTCAGTAGTTGGACCTAATTGTAAAAGTCACAAAAACATAAAAATTACAAAGTAAAAGCAAGAAT
131 TTCAGTAGTTGGACCTAATTGTAAAAGTCACAAAAACATAAAAATTACAAAGTAAAAGCAAGAAT
5002314 TGAACTCACATGGTGTAAAAAATGAAAAACCAGCTTGAAAGACTCTCCTATGGCGTTTTGGCTGA
196 TGAACTCACATGGTGTAAAAAATGAAAAACCAGCTTGAAAGACTCTCCTATGGCGTTTTGGCTGA
5002379 AGAACAATGAAGAAATATCTAGAATTTTCAATTTAGTCTTTATTTTATTTAGTTAA
261 AGAACAATGAAGAAATATCTAGAATTTTCAATTTAGTCTTTATTTTATTTAGTTAA
5002435 T
1 T
5002436 TTGCAAAATT
Statistics
Matches: 314, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
315 283 0.90
316 31 0.10
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (316 bp):
TGTTAAAATCACTTAATAAAATCATCATATAATTAAATTAAAGCTTCAAATACATGATTATTCAT
CATAAAATTCCAGCACTCATTCATAGTAACTTTCAAACTCACACATAGAATCAAAAACTAATGAA
TTCAGTAGTTGGACCTAATTGTAAAAGTCACAAAAACATAAAAATTACAAAGTAAAAGCAAGAAT
TGAACTCACATGGTGTAAAAAATGAAAAACCAGCTTGAAAGACTCTCCTATGGCGTTTTGGCTGA
AGAACAATGAAGAAATATCTAGAATTTTCAATTTAGTCTTTATTTTATTTAGTTAA
Found at i:5013100 original size:120 final size:120
Alignment explanation
Indices: 5012882--5013396 Score: 829
Period size: 120 Copynumber: 4.3 Consensus size: 120
5012872 NNNNNNNNTC
* * *
5012882 ATATATTAATTAAAATATTTTTAATATTAATTACT-TCAAATTATATTTTATAGTATCATATATT
1 ATATTTTAATTAAAATATATTTAATAATAATTA-TGTCAAATTATATTTTATAGTATCATATATT
* *
5012946 ATGATTTTAGTAAATTCATATAAGAATGTTGATTATTAAGAATTTTATTAAATTAT
65 ATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
* *
5013002 ATATTTTAATTAAAATATTTTTAATATTAATTAAT-TCAAATTATATTTTATAGTATCATATATT
1 ATATTTTAATTAAAATATATTTAATAATAATT-ATGTCAAATTATATTTTATAGTATCATATATT
* *
5013066 ATGATTTTAGTAAATTCATATAAGAATTTTGATTATTAAGAATTTTATTAAATTAT
65 ATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
* *
5013122 ATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTA
1 ATATTTTAATTAAAATATATTTAATAATAATTATGTCAAATTATATTTTATAGTATCATATATTA
* * *
5013187 TGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAGAATTTTACTAAATTAT
66 TGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
* *
5013242 ATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTA
1 ATATTTTAATTAAAATATATTTAATAATAATTATGTCAAATTATATTTTATAGTATCATATATTA
5013307 TGATTTGAGTAAATTCATATAAG-ATATTGATTATTAAGAATTTTATTAAATTAT
66 TGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
* *
5013361 ATATTTTAATTATAATATATTTAATAATTATTATGT
1 ATATTTTAATTAAAATATATTTAATAATAATTATGT
5013397 TTAAATATAA
Statistics
Matches: 376, Mismatches: 17, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
119 65 0.17
120 310 0.82
121 1 0.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (120 bp):
ATATTTTAATTAAAATATATTTAATAATAATTATGTCAAATTATATTTTATAGTATCATATATTA
TGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
Found at i:5013107 original size:16 final size:15
Alignment explanation
Indices: 5013086--5013115 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5013076 TAAATTCATA
5013086 TAAGAATTTTGATTAT
1 TAAGAATTTT-ATTAT
5013102 TAAGAATTTTATTA
1 TAAGAATTTTATTA
5013116 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAAGAATTTTATTAT
Found at i:5013135 original size:18 final size:17
Alignment explanation
Indices: 5013107--5013141 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5013097 ATTATTAAGA
*
5013107 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5013124 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5013142 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5013261 original size:16 final size:16
Alignment explanation
Indices: 5013240--5013286 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
5013230 TTACTAAATT
5013240 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
5013256 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
5013271 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
5013287 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:5013266 original size:15 final size:15
Alignment explanation
Indices: 5013236--5013286 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
5013226 AATTTTACTA
5013236 AATTAT-ATAT-TTT
1 AATTATAATATATTT
5013249 AATTATAATATATTT
1 AATTATAATATATTT
*
5013264 AATAATAAT-TATGTT
1 AATTATAATATAT-TT
5013279 AAATTATA
1 -AATTATA
5013287 TTTTATAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 7 0.22
15 13 0.41
16 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATTATAATATATTT
Found at i:5013634 original size:16 final size:16
Alignment explanation
Indices: 5013613--5013666 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
5013603 TTGATTTGCT
5013613 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
5013629 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
5013645 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
5013661 AATACA
1 ATTACA
5013667 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:5029056 original size:20 final size:20
Alignment explanation
Indices: 5029031--5029104 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
5029021 CAATAACATG
5029031 TACCAAAATTTCTAACACTA
1 TACCAAAATTTCTAACACTA
* * *
5029051 TACCAATATTTTTAAGAGCTA
1 TACCAAAATTTCTAACA-CTA
5029072 TA--AAAATTTCTAATCA-TA
1 TACCAAAATTTCTAA-CACTA
* *
5029090 TGCCAAATTTTCTAA
1 TACCAAAATTTCTAA
5029105 TGGAGGACCA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
18 3 0.07
19 9 0.21
20 25 0.60
21 5 0.12
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (20 bp):
TACCAAAATTTCTAACACTA
Found at i:5030598 original size:12 final size:11
Alignment explanation
Indices: 5030582--5030659 Score: 52
Period size: 12 Copynumber: 6.6 Consensus size: 11
5030572 TATTATTATC
5030582 ATATTATATTA
1 ATATTATATTA
5030593 AGTATTACT-TTA
1 A-TATTA-TATTA
*
5030605 ATATTACATTA
1 ATATTATATTA
*
5030616 ACTATTATATTTT
1 A-TATTATA-TTA
5030629 ATCATTACTATTA
1 AT-ATTA-TATTA
*
5030642 TTATTACTATT-
1 ATATTA-TATTA
5030653 ATATTAT
1 ATATTAT
5030660 TAGTACATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
10 1 0.02
11 15 0.28
12 25 0.46
13 11 0.20
14 2 0.04
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.54
Consensus pattern (11 bp):
ATATTATATTA
Found at i:5030805 original size:12 final size:12
Alignment explanation
Indices: 5030777--5030819 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
5030767 TTATTTACTC
*
5030777 TTATATATGTCAT
1 TTATTTATGT-AT
5030790 TTATTTATGTAT
1 TTATTTATGTAT
*
5030802 TTATTTATTTAT
1 TTATTTATGTAT
5030814 TTATTT
1 TTATTT
5030820 TATTTTTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (12 bp):
TTATTTATGTAT
Found at i:5030825 original size:5 final size:4
Alignment explanation
Indices: 5030788--5030824 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
5030778 TATATATGTC
*
5030788 ATTT ATTT ATGT ATTT ATTT ATTT ATTT ATTTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT
5030825 TTCGTTATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:5031452 original size:127 final size:127
Alignment explanation
Indices: 5031214--5031441 Score: 302
Period size: 127 Copynumber: 1.8 Consensus size: 127
5031204 AGATAAGATT
*** * *
5031214 TTCTAAAACAAGGCAATGTTTGATGCTCGGAAATTCAGAGAATCGTGCTCTATCGTGCTGGGTTT
1 TTCTAAAACAAGGCAATGTCCAATGCTCGGAAATTCAGAGAATCGTGCCCTACCGTGCTGGGTTT
* *
5031279 CGATTTCTCGTTTGTCCAAGATAATCGGATATTCCTTTAGAATTTCATTCGTATTCTCTAAA
66 CGATTTCTCGTTTGACCAAGATAATCGGACATTCCTTTAGAATTTCATTCGTATTCTCTAAA
* *
5031341 TTCTAAAACAAGGCAATGTCCAATGTTTGGAAATTC-GAGGAATCGTGCCCTACCGTGCTGGGTT
1 TTCTAAAACAAGGCAATGTCCAATGCTCGGAAATTCAGA-GAATCGTGCCCTACCGTGCTGGGTT
* * *
5031405 TCGATTTTTCG-TTGAACTAA-ATAATTGGACA-TCCTTT
65 TCGATTTCTCGTTTG-ACCAAGATAATCGGACATTCCTTT
5031442 TGTAATTTTC
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
125 6 0.07
126 14 0.16
127 67 0.77
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (127 bp):
TTCTAAAACAAGGCAATGTCCAATGCTCGGAAATTCAGAGAATCGTGCCCTACCGTGCTGGGTTT
CGATTTCTCGTTTGACCAAGATAATCGGACATTCCTTTAGAATTTCATTCGTATTCTCTAAA
Found at i:5035790 original size:11 final size:11
Alignment explanation
Indices: 5035774--5035810 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
5035764 GTAATGTTAA
5035774 AATATATACAT
1 AATATATACAT
5035785 AATATATACAT
1 AATATATACAT
5035796 -ATATATA-AT
1 AATATATACAT
5035805 AA-ATAT
1 AATATAT
5035811 TGAAAAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 6 0.24
10 8 0.32
11 11 0.44
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
AATATATACAT
Found at i:5036410 original size:26 final size:23
Alignment explanation
Indices: 5036365--5036431 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 23
5036355 GTATATAAAA
5036365 ACATAATACTAAAAAAAATATAT
1 ACATAATACTAAAAAAAATATAT
*
5036388 ACATAATACATATAAAAGCAATATAT
1 ACATAATAC-TA-AAAA-AAATATAT
* * *
5036414 ATACAATA-TAGAAAAAAT
1 ACATAATACTAAAAAAAAT
5036432 GTACATAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
22 3 0.08
23 12 0.33
24 4 0.11
25 4 0.11
26 13 0.36
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.25
Consensus pattern (23 bp):
ACATAATACTAAAAAAAATATAT
Found at i:5036528 original size:3 final size:3
Alignment explanation
Indices: 5036514--5036548 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
5036504 AAACATTTAC
*
5036514 TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5036549 TTGGAATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5050887 original size:31 final size:31
Alignment explanation
Indices: 5050849--5051027 Score: 288
Period size: 31 Copynumber: 5.8 Consensus size: 31
5050839 ACAAATGTCA
* *
5050849 AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
5050880 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
5050911 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
5050942 AGTGAAAA-TGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
5050972 AGTGAAAAATGGTAACTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
5051003 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
5051028 AAGTGACAAG
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
30 29 0.21
31 108 0.79
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:5050985 original size:61 final size:61
Alignment explanation
Indices: 5050849--5051027 Score: 286
Period size: 61 Copynumber: 2.9 Consensus size: 61
5050839 ACAAATGTCA
* *
5050849 AGTGAAAAGTGGTAGCTCCGGCTACTTGATCAGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTG-AAAATGGTAGCTTCGGCTACCTGATC
*
5050911 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAATGGTAGCTTCGGCTACCTGATC
* * *
5050972 AGTGAAAAATGGTAACTTCGGCTACCTGATCAGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAA-AATGGTAGCTTCGGCTAC
5051028 AAGTGACAAG
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
61 60 0.55
62 49 0.45
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (61 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAATGGTAGCTTCGGCTACCTGATC
Found at i:5051015 original size:92 final size:93
Alignment explanation
Indices: 5050849--5051027 Score: 324
Period size: 92 Copynumber: 1.9 Consensus size: 93
5050839 ACAAATGTCA
* *
5050849 AGTGAAAAGTGGTAGCTCCGGCTACTTGATCAGTGAAAAATGGTAGCTTCGGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAACTTCGGCTACCTGATCAGT
5050914 GAAAAGTGGTAGCTTCGGCTACCTGATC
66 GAAAAGTGGTAGCTTCGGCTACCTGATC
5050942 AGTGAAAA-TGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAACTTCGGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAACTTCGGCTACCTGATCAGT
*
5051006 GAATAGTGGTAGCTTCGGCTAC
66 GAAAAGTGGTAGCTTCGGCTAC
5051028 AAGTGACAAG
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
92 75 0.90
93 8 0.10
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (93 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAACTTCGGCTACCTGATCAGT
GAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:5051113 original size:47 final size:47
Alignment explanation
Indices: 5051044--5051168 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 47
5051034 CAAGTGATTT
* *
5051044 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
5051091 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
5051138 C-GTGTAAGACCATAGCTAGGCTATGGCATCG
1 CTGTATAAGACCATATCTGGGATATGGCATCG
5051169 ATATATGAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 25 0.37
47 43 0.63
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:5051202 original size:42 final size:43
Alignment explanation
Indices: 5051139--5051253 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 43
5051129 TATGTGATTC
* *
5051139 GTGTAAGACCATAGCTAGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
5051181 GTGTAAGACCATAGCTGGGCTATGGCCTC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
5051223 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
5051254 GAAAATGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:5053187 original size:29 final size:30
Alignment explanation
Indices: 5053142--5053209 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
5053132 TGGCCCAAGA
*
5053142 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAATTTGAAGGACTAATAGT
*
5053172 GTAAATATGAAAATTTGAAGGACTAATAGT
1 GTAAATATCAAAATTTGAAGGACTAATAGT
*
5053202 GCAAATAT
1 GTAAATAT
5053210 TTTAAGGGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAATTTGAAGGACTAATAGT
Found at i:5054116 original size:15 final size:15
Alignment explanation
Indices: 5054096--5054130 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
5054086 GAAGAAACGG
5054096 TGTAAGTAATGGATT
1 TGTAAGTAATGGATT
5054111 TGTAAGTAATGGATT
1 TGTAAGTAATGGATT
5054126 TGTAA
1 TGTAA
5054131 ATCATGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (15 bp):
TGTAAGTAATGGATT
Found at i:5055679 original size:46 final size:46
Alignment explanation
Indices: 5055627--5055764 Score: 197
Period size: 46 Copynumber: 3.0 Consensus size: 46
5055617 GTGCTCTCTT
*
5055627 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
5055673 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * * * *
5055719 ACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
5055765 TCAAAGATAA
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 83 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:5057059 original size:20 final size:20
Alignment explanation
Indices: 5057036--5057076 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
5057026 AGCTCCACTT
5057036 TGATCTTCGTTCAAATCAAA
1 TGATCTTCGTTCAAATCAAA
5057056 TGATCTTCGTTCAAATCAAA
1 TGATCTTCGTTCAAATCAAA
5057076 T
1 T
5057077 AACAACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TGATCTTCGTTCAAATCAAA
Found at i:5063254 original size:14 final size:14
Alignment explanation
Indices: 5063235--5063264 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5063225 AAATTATCTT
5063235 AATTAAAATAATTA
1 AATTAAAATAATTA
5063249 AATTAAAATAATTA
1 AATTAAAATAATTA
5063263 AA
1 AA
5063265 ATAAGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTAAAATAATTA
Found at i:5063273 original size:14 final size:14
Alignment explanation
Indices: 5063238--5063273 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5063228 TTATCTTAAT
*
5063238 TAAAATAATTAAAT
1 TAAAATAATTAAAA
5063252 TAAAATAATTAAAA
1 TAAAATAATTAAAA
*
5063266 TAAGATAA
1 TAAAATAA
5063274 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAAAATAATTAAAA
Found at i:5066703 original size:18 final size:18
Alignment explanation
Indices: 5066680--5066716 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5066670 CCTAAGGCCG
5066680 TGCATCTGCTTCTTTTCT
1 TGCATCTGCTTCTTTTCT
5066698 TGCATCTGCTTCTTTTCT
1 TGCATCTGCTTCTTTTCT
5066716 T
1 T
5066717 CTCACTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.27, G:0.11, T:0.57
Consensus pattern (18 bp):
TGCATCTGCTTCTTTTCT
Found at i:5068237 original size:5 final size:5
Alignment explanation
Indices: 5068227--5068255 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
5068217 GTCATTGAAC
5068227 AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATA
5068256 ACTAGAGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:5071304 original size:19 final size:20
Alignment explanation
Indices: 5071280--5071318 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
5071270 TCCCATTTTT
5071280 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
5071299 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
5071319 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:5071336 original size:25 final size:23
Alignment explanation
Indices: 5071280--5071344 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
5071270 TCCCATTTTT
*
5071280 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
*
5071299 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
5071322 TATTTGATTTGTTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
5071345 GTTTTTTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 11 0.28
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:5072165 original size:20 final size:20
Alignment explanation
Indices: 5072142--5072208 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
5072132 GAATATTAAA
5072142 TATTTTAGAAGAATCTTTTT
1 TATTTTAGAAGAATCTTTTT
* ***
5072162 TATTTT-GATATGAATATTAAA
1 TATTTTAGA-A-GAATCTTTTT
5072183 TATTTTAGAAGAATCTTTTT
1 TATTTTAGAAGAATCTTTTT
5072203 TATTTT
1 TATTTT
5072209 TTAATATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 2 0.06
20 19 0.53
21 13 0.36
22 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (20 bp):
TATTTTAGAAGAATCTTTTT
Found at i:5072177 original size:41 final size:41
Alignment explanation
Indices: 5072104--5072208 Score: 171
Period size: 41 Copynumber: 2.6 Consensus size: 41
5072094 TTTATATGGG
* *
5072104 TATTTTAGAAG-A--TTTTATATATTGATATGAATATTAAA
1 TATTTTAGAAGAATCTTTTTTATTTTGATATGAATATTAAA
5072142 TATTTTAGAAGAATCTTTTTTATTTTGATATGAATATTAAA
1 TATTTTAGAAGAATCTTTTTTATTTTGATATGAATATTAAA
5072183 TATTTTAGAAGAATCTTTTTTATTTT
1 TATTTTAGAAGAATCTTTTTTATTTT
5072209 TTAATATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
38 11 0.18
39 1 0.02
41 50 0.81
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (41 bp):
TATTTTAGAAGAATCTTTTTTATTTTGATATGAATATTAAA
Found at i:5072186 original size:21 final size:21
Alignment explanation
Indices: 5072120--5072188 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
5072110 AGAAGATTTT
*
5072120 ATATATTGATATGAATATTAA
1 ATATTTTGATATGAATATTAA
* **
5072141 ATATTTTAGA-A-GAATCTTTT
1 ATATTTT-GATATGAATATTAA
*
5072161 TTATTTTGATATGAATATTAA
1 ATATTTTGATATGAATATTAA
5072182 ATATTTT
1 ATATTTT
5072189 AGAAGAATCT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
19 2 0.06
20 13 0.36
21 19 0.53
22 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.51
Consensus pattern (21 bp):
ATATTTTGATATGAATATTAA
Found at i:5077628 original size:46 final size:46
Alignment explanation
Indices: 5077576--5077803 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
5077566 AGTGTGCTCT
*
5077576 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
5077622 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
5077668 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
5077714 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
5077760 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
5077804 TCACGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:5078109 original size:23 final size:25
Alignment explanation
Indices: 5078064--5078110 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5078054 AATAAATATA
*
5078064 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
5078089 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
5078111 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:5081822 original size:30 final size:29
Alignment explanation
Indices: 5081772--5081829 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
5081762 GCAACCCAAT
5081772 CTTTCTTTTTATTTTTATTTATTATTTTC
1 CTTTCTTTTTATTTTTATTTATTATTTTC
5081801 CTTTCTTTTCT-TTTATTATTTATTATTTT
1 CTTTCTTTT-TATTT-TTATTTATTATTTT
5081830 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (29 bp):
CTTTCTTTTTATTTTTATTTATTATTTTC
Found at i:5082057 original size:42 final size:41
Alignment explanation
Indices: 5081948--5082079 Score: 169
Period size: 41 Copynumber: 3.2 Consensus size: 41
5081938 ATCCATGGTA
* *
5081948 CCAAACAGTTCTATTCCAGCCCAAAATGCC-TATCCCTGCTG
1 CCAAACAGTTCTATTCCAGCCCAGAATGCCATAT-CCTGCAG
5081989 CCAAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTGCAG
1 CCAAACAGTTCTATTCCAGCCCAGAATGCCATATC-CTGCAG
* * *
5082031 CCAAACAG-TCTATTCCAGCCCTAGAATCCCCAAAACCTGCAG
1 CCAAACAGTTCTATTCCAGCCC-AGAAT-GCCATATCCTGCAG
5082073 CCAAACA
1 CCAAACA
5082080 CCCCTTTTCA
Statistics
Matches: 82, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
41 43 0.52
42 34 0.41
43 5 0.06
ACGTcount: A:0.31, C:0.36, G:0.12, T:0.20
Consensus pattern (41 bp):
CCAAACAGTTCTATTCCAGCCCAGAATGCCATATCCTGCAG
Found at i:5083044 original size:118 final size:118
Alignment explanation
Indices: 5082836--5083048 Score: 390
Period size: 118 Copynumber: 1.8 Consensus size: 118
5082826 TGTTTTCCAT
* *
5082836 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
5082901 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
**
5082954 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
5083019 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
5083049 TTGGGTAATA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 91 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
Found at i:5083206 original size:5 final size:5
Alignment explanation
Indices: 5083193--5083239 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
5083183 ATAAAATTTT
*
5083193 AAAAA AAAAG AAAAG AAAAAG AAAAG AAAAAG AAAAAG AAAA- AAAAG
1 AAAAG AAAAG AAAAG -AAAAG AAAAG -AAAAG -AAAAG AAAAG AAAAG
5083240 TACTAATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
4 4 0.11
5 18 0.47
6 16 0.42
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:5083211 original size:11 final size:11
Alignment explanation
Indices: 5083193--5083235 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
5083183 ATAAAATTTT
5083193 AAAA-AAAAAG
1 AAAAGAAAAAG
5083203 AAAAGAAAAAG
1 AAAAGAAAAAG
5083214 AAAAGAAAAAG
1 AAAAGAAAAAG
5083225 AAAAAGAAAAA
1 -AAAAGAAAAA
5083236 AAAGTACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 4 0.13
11 17 0.55
12 10 0.32
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:5083212 original size:6 final size:6
Alignment explanation
Indices: 5083193--5083235 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
5083183 ATAAAATTTT
5083193 AAAA-A AAAAG- AAAAGA AAAAG- AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
5083236 AAAGTACTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 14 0.40
6 21 0.60
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:5086602 original size:19 final size:21
Alignment explanation
Indices: 5086564--5086612 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
5086554 TATATTTATC
5086564 TATACTATATGTTATAAAAAA
1 TATACTATATGTTATAAAAAA
*
5086585 TATACT-TAT-TTTTAAAAAA
1 TATACTATATGTTATAAAAAA
* *
5086604 AATATTATA
1 TATACTATA
5086613 ATTTTTGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 13 0.54
20 5 0.21
21 6 0.25
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (21 bp):
TATACTATATGTTATAAAAAA
Found at i:5086616 original size:21 final size:21
Alignment explanation
Indices: 5086579--5086618 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5086569 TATATGTTAT
*
5086579 AAAAAATATACTTATTTTTAA
1 AAAAAATATACTAATTTTTAA
5086600 AAAAAATATTA-TAATTTTT
1 AAAAAATA-TACTAATTTTT
5086619 GTCATATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAAAATATACTAATTTTTAA
Found at i:5091359 original size:21 final size:21
Alignment explanation
Indices: 5091335--5091375 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5091325 TAACGTGTCA
* *
5091335 TTATTACTATTATTTTTATTT
1 TTATTACCATTATTATTATTT
5091356 TTATTACCATTATTATTATT
1 TTATTACCATTATTATTATT
5091376 ATACTTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATTACCATTATTATTATTT
Found at i:5091455 original size:3 final size:3
Alignment explanation
Indices: 5091447--5091595 Score: 108
Period size: 3 Copynumber: 48.7 Consensus size: 3
5091437 TATTTCTAAC
* *
5091447 TAT TAT TAT TTT TAT GTAT ATAT TAT TAT T-T ATAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * * *
5091494 TAC TAT TAT TAAA TAT TCT TAT TAT TAC TAT TAT TTT TAT TCCT T-T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
* * *
5091540 TAT TAT TGTT TAT TAT CAT TA- TAT TAT TAT TACT T-C TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
5091585 TAT TAT TAT TA
1 TAT TAT TAT TA
5091596 CTTTTTTTGT
Statistics
Matches: 114, Mismatches: 22, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
2 6 0.05
3 93 0.82
4 15 0.13
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:5092206 original size:25 final size:25
Alignment explanation
Indices: 5092178--5092226 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
5092168 ATTTCATTTA
*
5092178 TCATCAT-ATTTATTTCATTTTGTTC
1 TCATCATCA-TTATTTCATTATGTTC
*
5092203 TCATTATCATTATTTCATTATGTT
1 TCATCATCATTATTTCATTATGTT
5092227 TATTCGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.59
Consensus pattern (25 bp):
TCATCATCATTATTTCATTATGTTC
Found at i:5093282 original size:24 final size:26
Alignment explanation
Indices: 5093244--5093293 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
5093234 AATAACGAGA
5093244 ATAAATAAAAGTAAT-ATGTAAAAAAT
1 ATAAATAAAAGTAATGA-GTAAAAAAT
5093270 ATAAAT-AAA-TAATGAGTAAAAAAT
1 ATAAATAAAAGTAATGAGTAAAAAAT
5093294 GTACAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 13 0.57
25 4 0.17
26 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (26 bp):
ATAAATAAAAGTAATGAGTAAAAAAT
Found at i:5093301 original size:22 final size:21
Alignment explanation
Indices: 5093276--5093323 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
5093266 AAATATAAAT
5093276 AAATAATGAGTAAAAAATGTAC
1 AAATAATGAGT-AAAAATGTAC
* * *
5093298 AAATAATGGGTGAAAATGTAT
1 AAATAATGAGTAAAAATGTAC
5093319 AAATA
1 AAATA
5093324 TGAATAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.17, T:0.25
Consensus pattern (21 bp):
AAATAATGAGTAAAAATGTAC
Found at i:5093358 original size:4 final size:4
Alignment explanation
Indices: 5093344--5093377 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
5093334 AAATACAAGG
*
5093344 TAAA GAAA TAAA TAAA T-AA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
5093378 TAGTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:5093389 original size:15 final size:15
Alignment explanation
Indices: 5093349--5093379 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5093339 CAAGGTAAAG
5093349 AAATAAATAAATAAT
1 AAATAAATAAATAAT
5093364 AAATAAATAAATAAT
1 AAATAAATAAATAAT
5093379 A
1 A
5093380 GTAAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAATAAATAAT
Found at i:5093540 original size:13 final size:14
Alignment explanation
Indices: 5093524--5093561 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
5093514 GGGTAAATCA
5093524 AAATAAAATAAAT-
1 AAATAAAATAAATG
*
5093537 AAATTAAAT-AATG
1 AAATAAAATAAATG
5093550 AAATAAAATAAA
1 AAATAAAATAAA
5093562 GGACCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 3 0.14
13 16 0.76
14 2 0.10
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATAAAATAAATG
Found at i:5094784 original size:19 final size:19
Alignment explanation
Indices: 5094756--5094793 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5094746 ATACCTAACT
*
5094756 GAATCGATGTCTAAATGAC
1 GAATCAATGTCTAAATGAC
5094775 GAATCAATGTCTAAATGAC
1 GAATCAATGTCTAAATGAC
5094794 TTGTGATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (19 bp):
GAATCAATGTCTAAATGAC
Found at i:5095537 original size:88 final size:82
Alignment explanation
Indices: 5095377--5095547 Score: 261
Period size: 83 Copynumber: 2.0 Consensus size: 82
5095367 CCCTATTCTT
5095377 TTATATATAAAGAAAGACTCTAAACAGATTTTTTTTTTATATATATATATTTTCAACCAACTTGA
1 TTATATATAAAGAAAGACTCTAAACAGATTTTTTTTTTATATATATATATTTTCAACCAACTTGA
*
5095442 AGTTAAACAAACATAATC
66 AGCTAAACAAA-ATAATC
*
5095460 TTATATATAAAGAAAGACTTTAAACAGATTTTCTTTTATATATATATATATATATATTCAACCAA
1 TTATATATAAAGAAAGACTCTAAACAGATTTT-TTTT-T-TATATATATATAT-T-TTCAACCAA
*
5095525 GTTGAAGCTAAACAAAATAATC
61 CTTGAAGCTAAACAAAATAATC
5095547 T
1 T
5095548 CTTCAATCAT
Statistics
Matches: 80, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
83 31 0.39
84 4 0.05
85 1 0.01
86 13 0.16
87 8 0.10
88 23 0.29
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.38
Consensus pattern (82 bp):
TTATATATAAAGAAAGACTCTAAACAGATTTTTTTTTTATATATATATATTTTCAACCAACTTGA
AGCTAAACAAAATAATC
Found at i:5096020 original size:13 final size:13
Alignment explanation
Indices: 5095997--5096047 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
5095987 ATATCTTCAT
*
5095997 TGCTTTTGAAAAG
1 TGCTTTGGAAAAG
* *
5096010 TGCTGTGGAAAAA
1 TGCTTTGGAAAAG
* *
5096023 TGCTTTTGAGAAG
1 TGCTTTGGAAAAG
5096036 TGCTTTGGAAAA
1 TGCTTTGGAAAA
5096048 ATTTAAGGGT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.33
Consensus pattern (13 bp):
TGCTTTGGAAAAG
Found at i:5096036 original size:26 final size:26
Alignment explanation
Indices: 5095997--5096049 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
5095987 ATATCTTCAT
5095997 TGCTTTTGAAAAGTGCTGTGGAAAAA
1 TGCTTTTGAAAAGTGCTGTGGAAAAA
* *
5096023 TGCTTTTGAGAAGTGCTTTGGAAAAA
1 TGCTTTTGAAAAGTGCTGTGGAAAAA
5096049 T
1 T
5096050 TTAAGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCTGTGGAAAAA
Found at i:5097901 original size:17 final size:17
Alignment explanation
Indices: 5097875--5097907 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5097865 AATATTTAAT
5097875 TTTAAATTTAGAAAATA
1 TTTAAATTTAGAAAATA
*
5097892 TTTAATTTTAGAAAAT
1 TTTAAATTTAGAAAAT
5097908 TAGGTGGCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TTTAAATTTAGAAAATA
Found at i:5101350 original size:15 final size:15
Alignment explanation
Indices: 5101330--5101373 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
5101320 AATAAAGAGT
5101330 AATAATAATAATAAG
1 AATAATAATAATAAG
5101345 AATAATGAA-AATAAG
1 AATAAT-AATAATAAG
* *
5101360 AGTAATATTAATAA
1 AATAATAATAATAA
5101374 TACATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 22 0.88
16 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (15 bp):
AATAATAATAATAAG
Found at i:5101725 original size:3 final size:3
Alignment explanation
Indices: 5101719--5101762 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
5101709 TATAATGATG
5101719 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5101763 GAGCGACAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5101944 original size:19 final size:19
Alignment explanation
Indices: 5101907--5101945 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5101897 AAATAATCAT
*
5101907 AGTAATAATAATAAGTTAA
1 AGTAATAATAATAAATTAA
5101926 AGTAATAATAA-AATATTAA
1 AGTAATAATAATAA-ATTAA
5101945 A
1 A
5101946 TATGTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (19 bp):
AGTAATAATAATAAATTAA
Found at i:5104175 original size:32 final size:31
Alignment explanation
Indices: 5104138--5104203 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
5104128 TTATATAAAA
5104138 TTATTTTACTTCATA-AAACTTAAATTCATAAT
1 TTATTTTAC-TCATACAAAC-TAAATTCATAAT
* * *
5104170 TTATTTTTCTCATACTAACTCAATTCATAAT
1 TTATTTTACTCATACAAACTAAATTCATAAT
5104201 TTA
1 TTA
5104204 GTTCATGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 19 0.63
32 11 0.37
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (31 bp):
TTATTTTACTCATACAAACTAAATTCATAAT
Found at i:5105510 original size:18 final size:17
Alignment explanation
Indices: 5105475--5105507 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5105465 CTTTTTATTC
5105475 TTTTATTATTTCATTTA
1 TTTTATTATTTCATTTA
5105492 TTTTACTTATTT-ATTT
1 TTTTA-TTATTTCATTT
5105508 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTCATTTA
Found at i:5112240 original size:44 final size:44
Alignment explanation
Indices: 5112170--5112364 Score: 171
Period size: 44 Copynumber: 4.5 Consensus size: 44
5112160 ATTTCTAGCT
* * *
5112170 TGTTACCCTACTGCATAGGGGTTTAAGGCCCATCGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATC
***** *** *
5112214 TGTTTCCCTACTGCTTAGGGGGTTAAGATTTGT-AAATTC-AGCC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGA-TC
* * *
5112257 TGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATC
* * * *
5112301 TGTTTCCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGATT
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATC
*
5112345 TG-CTCCACTACTGCTTAGGG
1 TGTTTCC-CTACTGCTTAGGG
5112365 AGACAAGATC
Statistics
Matches: 117, Mismatches: 30, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
42 1 0.01
43 34 0.29
44 81 0.69
45 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (44 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATC
Found at i:5112297 original size:87 final size:88
Alignment explanation
Indices: 5112150--5112327 Score: 313
Period size: 87 Copynumber: 2.0 Consensus size: 88
5112140 TCAGAGAGAA
* *
5112150 AAGATTTGTAATTTCTAGCTTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCGCCTTCGATCT
1 AAGATTTGTAAATTCTAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCGCCTTCGATCT
5112215 GTTTCCCTACTGCTTAGGGGGTT
66 GTTTCCCTACTGCTTAGGGGGTT
* *
5112238 AAGATTTGTAAATTC-AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCT
1 AAGATTTGTAAATTCTAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCGCCTTCGATCT
5112302 GTTTCCCTACTGCTTAGGGGGTT
66 GTTTCCCTACTGCTTAGGGGGTT
5112325 AAG
1 AAG
5112328 GCCCTTCGTC
Statistics
Matches: 86, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 72 0.84
88 14 0.16
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (88 bp):
AAGATTTGTAAATTCTAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCGCCTTCGATCT
GTTTCCCTACTGCTTAGGGGGTT
Found at i:5112391 original size:87 final size:87
Alignment explanation
Indices: 5112300--5112502 Score: 361
Period size: 87 Copynumber: 2.3 Consensus size: 87
5112290 CGCCTTCGAT
* * *
5112300 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGATTTGCTCCACTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCACTACTACTTAGGG
5112365 AGACAAGATCTGTAAATTCAGC
66 AGACAAGATCTGTAAATTCAGC
* *
5112387 CTGTTACCCTACTGTTTAAGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCACTACTACTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCACTACTACTTAGGG
5112452 AGACAAGATCTGTAAATTCAGC
66 AGACAAGATCTGTAAATTCAGC
5112474 CTGTTACCCTACTGCTTAGGGGGTTAAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGG
5112503 TCTGTGAATT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 109 1.00
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.33
Consensus pattern (87 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCACTACTACTTAGGG
AGACAAGATCTGTAAATTCAGC
Found at i:5112414 original size:131 final size:131
Alignment explanation
Indices: 5112170--5112430 Score: 346
Period size: 131 Copynumber: 2.0 Consensus size: 131
5112160 ATTTCTAGCT
* * *
5112170 TGTTACCCTACTGCATAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGG
1 TGTTACCCTACTGCATAGGGGGTTAAGGCCCATCGCCTTCGATCTGTCTCCCTACTGCTTAGGGA
** * *
5112235 GTTAAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGAT
66 GACAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGAT
5112300 C
131 C
* * * * * *
5112301 TGTTTCCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTTGATTTG-CTCCACTACTGCTTAGGG
1 TGTTACCCTACTGCATAGGGGGTTAAGGCCCATCGCCTTCGATCTGTCTCC-CTACTGCTTAGGG
* * *
5112365 AGACAAGATCTGTAAATTCAGCCTGTTACCCTACTGTTTAAGGGG-TTAAGGCCCTTCGTCTTCG
65 AGACAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTT-AGGGGTTTAAGGCCCATCGCCTTCG
5112429 AT
129 AT
5112431 TTGCTCCACT
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
130 3 0.03
131 104 0.93
132 5 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (131 bp):
TGTTACCCTACTGCATAGGGGGTTAAGGCCCATCGCCTTCGATCTGTCTCCCTACTGCTTAGGGA
GACAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGAT
C
Found at i:5117307 original size:46 final size:46
Alignment explanation
Indices: 5117206--5117333 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 46
5117196 AATTGAGATC
* * *
5117206 CGAACTCGTTGAGCTGCGTTCCGAGTTCACCTATGGATGCAAGCATT
1 CGAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAGCACT
*
5117253 CGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA-CAC-
1 CGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGC-AAGCACT
* *
5117298 CTGAGCTCGTTGAGTTGCATTCCGAGTTCATTATGG
1 C-GAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
5117334 GTGAGATTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
45 1 0.01
46 42 0.58
47 29 0.40
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAGCACT
Found at i:5119188 original size:7 final size:7
Alignment explanation
Indices: 5119187--5119219 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
5119177 ATTTTTGTTT
5119187 TTTTTTA
1 TTTTTTA
*
5119194 AT-TTTA
1 TTTTTTA
5119200 TTTTTTA
1 TTTTTTA
5119207 TTTTTTA
1 TTTTTTA
5119214 TTTTTT
1 TTTTTT
5119220 TTATAAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:5119233 original size:31 final size:29
Alignment explanation
Indices: 5119170--5119233 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
5119160 ACCTTTGTTC
* * *
5119170 ATTTTTCATTTTTGTTTTTTTTTAATTTT
1 ATTTTTCATTTTTATTTTTTTTTAAATCT
*
5119199 ATTTTTTATTTTTTATTTTTTTTATAAATCT
1 ATTTTTCA-TTTTTATTTTTTTT-TAAATCT
5119230 ATTT
1 ATTT
5119234 CAAACAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.24
30 13 0.45
31 9 0.31
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.77
Consensus pattern (29 bp):
ATTTTTCATTTTTATTTTTTTTTAAATCT
Found at i:5120254 original size:20 final size:20
Alignment explanation
Indices: 5120217--5120256 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5120207 AAGATTAATA
*
5120217 TGATATTTATTTTCATACAT
1 TGATATTTATTATCATACAT
5120237 TGATATTTATATAT-ATACAT
1 TGATATTTAT-TATCATACAT
5120257 AATTTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (20 bp):
TGATATTTATTATCATACAT
Found at i:5122492 original size:15 final size:16
Alignment explanation
Indices: 5122469--5122502 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
5122459 ATTTTAATTT
*
5122469 AAAATTTAATAA-GAA
1 AAAAATTAATAATGAA
5122484 AAAAATTAATAATGAA
1 AAAAATTAATAATGAA
5122500 AAA
1 AAA
5122503 GGAAATGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAAATTAATAATGAA
Found at i:5123921 original size:56 final size:58
Alignment explanation
Indices: 5123798--5123921 Score: 166
Period size: 56 Copynumber: 2.2 Consensus size: 58
5123788 TATTGCTCTA
* *
5123798 TTTCTTTTTTAGTCACTCAACTATTATTTTTTTAATTTGATCATCTAACTATTGTACTT
1 TTTCTTTTTTAGTCACTCAAC-ATTATTTTTTTAATTTGATCATCTAACTATTGAAATT
*
5123857 TTTCTTTTTTGGTCACTCAAC-TT-TTTTTTTAATTTGATCATAC-AACTAATTGAAATT
1 TTTCTTTTTTAGTCACTCAACATTATTTTTTTAATTTGATCAT-CTAACT-ATTGAAATT
5123914 TTT-TTTTT
1 TTTCTTTTT
5123922 CATTTCCATT
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
56 27 0.45
57 13 0.22
59 20 0.33
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.57
Consensus pattern (58 bp):
TTTCTTTTTTAGTCACTCAACATTATTTTTTTAATTTGATCATCTAACTATTGAAATT
Found at i:5124109 original size:14 final size:14
Alignment explanation
Indices: 5124090--5124122 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
5124080 ATGGCACTTG
5124090 ACAAAAATATACCA
1 ACAAAAATATACCA
5124104 ACAAAAATATACCA
1 ACAAAAATATACCA
5124118 A-AAAA
1 ACAAAA
5124123 GAAAATCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.70, C:0.18, G:0.00, T:0.12
Consensus pattern (14 bp):
ACAAAAATATACCA
Found at i:5126711 original size:28 final size:29
Alignment explanation
Indices: 5126680--5126751 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
5126670 AATTCAATGC
5126680 TTAAATAT-TCAAACACACGCTTAAAATT
1 TTAAATATATCAAACACACGCTTAAAATT
* *
5126708 TT-AATTTATCAAACACGCGCTTAAAATT
1 TTAAATATATCAAACACACGCTTAAAATT
*
5126736 TT-AATTTATCAAACAC
1 TTAAATATATCAAACAC
5126752 GCGTTTAACT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 4 0.10
28 37 0.90
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (29 bp):
TTAAATATATCAAACACACGCTTAAAATT
Found at i:5126752 original size:28 final size:28
Alignment explanation
Indices: 5126688--5126759 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
5126678 GCTTAAATAT
*
5126688 TCAAACACACGCTTAAAATTTTAATTTA
1 TCAAACACGCGCTTAAAATTTTAATTTA
5126716 TCAAACACGCGCTTAAAATTTTAATTTA
1 TCAAACACGCGCTTAAAATTTTAATTTA
*
5126744 TCAAACACGCGTTTAA
1 TCAAACACGCGCTTAA
5126760 CTAGATAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (28 bp):
TCAAACACGCGCTTAAAATTTTAATTTA
Found at i:5128416 original size:25 final size:25
Alignment explanation
Indices: 5128375--5128422 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
5128365 CATTTTTTAA
* *
5128375 ATTTTTTTGTAATAATAAGAAAATT
1 ATTTTTTTATAAAAATAAGAAAATT
5128400 ATTTTTTTATAAAAATAAGAAAA
1 ATTTTTTTATAAAAATAAGAAAA
5128423 AAATTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (25 bp):
ATTTTTTTATAAAAATAAGAAAATT
Found at i:5128428 original size:25 final size:25
Alignment explanation
Indices: 5128373--5128428 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
5128363 GACATTTTTT
* *
5128373 AAATTTTTTTGTAATAATAAGAAAA
1 AAATTTTTTTATAAAAATAAGAAAA
**
5128398 TTATTTTTTTATAAAAATAAGAAAA
1 AAATTTTTTTATAAAAATAAGAAAA
5128423 AAATTT
1 AAATTT
5128429 AATAATAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (25 bp):
AAATTTTTTTATAAAAATAAGAAAA
Found at i:5137183 original size:109 final size:105
Alignment explanation
Indices: 5136977--5137200 Score: 313
Period size: 107 Copynumber: 2.1 Consensus size: 105
5136967 AACTCATGCA
* * *
5136977 TTGAAATTTTAAAAGGATATTCGATTGTTCAGTCAAACGATAAATTGAAACCCAGCACGTAGGGC
1 TTGAAAATTTAAAAGGATATTCGATTATTCAGTCAAACGAAAAATTGAAACCCAGCACGTAGGGC
*
5137042 ACGATCTCTCGAGTTTCCAAACACGGAATATTGCCTTTAACT
66 ACGATCTCTCGAATTTCCAAACACGGAATATTGCC-TT-ACT
* * **
5137084 TTGAAAATTTAAAAGGTTATTCGGTTATTTGGATCAAACGAAAAATTGAAACCCAGCACGTTAGG
1 TTGAAAATTTAAAAGGATATTCGATTATTCAG-TCAAACGAAAAATTGAAACCCAGCACG-TAGG
* * *
5137149 GCACGATCTGTTGAATTTCCAAACACGGAATATTGCCTTATT
64 GCACGATCTCTCGAATTTCCAAACACGGAATATTGCCTTACT
5137191 TTGAAAATTT
1 TTGAAAATTT
5137201 TATTTTTGCG
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
107 38 0.37
108 28 0.27
109 38 0.37
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (105 bp):
TTGAAAATTTAAAAGGATATTCGATTATTCAGTCAAACGAAAAATTGAAACCCAGCACGTAGGGC
ACGATCTCTCGAATTTCCAAACACGGAATATTGCCTTACT
Found at i:5137395 original size:21 final size:20
Alignment explanation
Indices: 5137371--5137412 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
5137361 TTATAAAATA
5137371 AATAATAAC-AATGATAACAAC
1 AATAA-AACTAATGATAA-AAC
*
5137392 AATAACACTAATGATAAAAC
1 AATAAAACTAATGATAAAAC
5137412 A
1 A
5137413 TGCACATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.62, C:0.14, G:0.05, T:0.19
Consensus pattern (20 bp):
AATAAAACTAATGATAAAAC
Found at i:5137601 original size:3 final size:3
Alignment explanation
Indices: 5137587--5138044 Score: 281
Period size: 3 Copynumber: 150.7 Consensus size: 3
5137577 GTAAATAAAC
* * *
5137587 AAT AAT AGAT AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AGAA AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * * *
5137634 AAT AAT AGT AAAT AAT AAT AAT AAT AAT AAAT AAT TAG CA- AAT GAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * **
5137680 AAT AAT AAT AAT AA- AAT GAAG GAT ACATT AAT AAT AAT AA- AAT CAGG
1 AAT AAT AAT AAT AAT AAT -AAT AAT A-A-T AAT AAT AAT AAT AAT -AAT
* * * * * * * *
5137727 AAT AAT AAC AAC AAC AAC AAC AAC AAC AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* **
5137775 AAT AAT AAT AAT AAT AAT AAT AAT AGT ACATT AAT AAT AAT ATAT GTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT A-AT AAT
* * * *
5137823 AAT AAC AAT AAT AAT -AT AA- AAA AAGA AAT AAT AAT -AT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* * *
5137866 AAG AAT AAT AAT AGGTT AAT AAT AAT AGT AAAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT A--AT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * * * *
5137913 ATT AAT AAG GAG GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
5137961 AGT AGT AGT -AT ACT AAT AA- ATAT AAT AGT AAT AAT AAT AAG CAG
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* *
5138005 GAG AAT AAT AAT AAT ATAT AA- AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
5138045 CGATATTAAT
Statistics
Matches: 369, Mismatches: 58, Indels: 56
0.76 0.12 0.12
Matches are distributed among these distances:
2 19 0.05
3 317 0.86
4 27 0.07
5 6 0.02
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:5149073 original size:26 final size:26
Alignment explanation
Indices: 5149044--5149151 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
5149034 TGGTATAAAT
5149044 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
5149070 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5149096 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5149122 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5149148 TGAT
1 TGAT
5149152 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:5155120 original size:15 final size:16
Alignment explanation
Indices: 5155097--5155131 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5155087 ATTTTAATTT
*
5155097 AAAATTTAATAA-GAA
1 AAAAATTAATAATGAA
5155112 AAAAATTAATAATGAA
1 AAAAATTAATAATGAA
5155128 AAAA
1 AAAA
5155132 GAAATGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAAATTAATAATGAA
Found at i:5156394 original size:58 final size:58
Alignment explanation
Indices: 5156325--5156437 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
5156315 TAGAGGAACC
* *
5156325 AAAATTAACTTTGACCTGTATATTAATATAATAGGGTAAACTACACCAGAGATCAACT
1 AAAATTAACTTTGACCTGTATACTAATATAATAGGGTAAACTACACCACAGATCAACT
* *
5156383 AAAATTAACTTTGACTTGTCTACTAATATAATAGGGTAAACTACACCACAGATCA
1 AAAATTAACTTTGACCTGTATACTAATATAATAGGGTAAACTACACCACAGATCA
5156438 CCCAATCATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (58 bp):
AAAATTAACTTTGACCTGTATACTAATATAATAGGGTAAACTACACCACAGATCAACT
Found at i:5167638 original size:9 final size:10
Alignment explanation
Indices: 5167613--5167641 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
5167603 ATCATTTTAA
5167613 TTAAAAAATT
1 TTAAAAAATT
5167623 TTAAAAAATT
1 TTAAAAAATT
5167633 TTAAAAAAT
1 TTAAAAAAT
5167642 ATTTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTAAAAAATT
Found at i:5174957 original size:18 final size:16
Alignment explanation
Indices: 5174925--5174966 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
5174915 ATTTACATAT
5174925 TTATATTAT-ATTATAAA
1 TTATATT-TGATTAT-AA
5174942 TTATCATTTGATTATAA
1 TTAT-ATTTGATTATAA
5174959 TTATATTT
1 TTATATTT
5174967 ATATAAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TTATATTTGATTATAA
Found at i:5188484 original size:35 final size:35
Alignment explanation
Indices: 5188438--5188509 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
5188428 AAGGTAACCC
5188438 ATAAAGCTACTAGTTTCCAGAAATGGTTTTGGACT
1 ATAAAGCTACTAGTTTCCAGAAATGGTTTTGGACT
5188473 ATAAAGCTACTAGTTTCCAGAAATGGTTTTGGACT
1 ATAAAGCTACTAGTTTCCAGAAATGGTTTTGGACT
5188508 AT
1 AT
5188510 CTTCGGCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (35 bp):
ATAAAGCTACTAGTTTCCAGAAATGGTTTTGGACT
Found at i:5192890 original size:20 final size:21
Alignment explanation
Indices: 5192827--5192874 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
5192817 ACATGAATTA
5192827 AAAAATTCA-AAAAAACTTA-TT
1 AAAAATT-ATAAAAAA-TTATTT
5192848 AAAAATTATAAAAAATTATTT
1 AAAAATTATAAAAAATTATTT
5192869 AAAAAT
1 AAAAAT
5192875 ATAGAGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAATTATAAAAAATTATTT
Found at i:5198863 original size:15 final size:15
Alignment explanation
Indices: 5198843--5198877 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5198833 ATTTTAATAA
* *
5198843 TTAAATTTACATTTT
1 TTAAATTTAAAATTT
5198858 TTAAATTTAAAATTT
1 TTAAATTTAAAATTT
5198873 TTAAA
1 TTAAA
5198878 AAATTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAAATTTAAAATTT
Found at i:5200358 original size:24 final size:24
Alignment explanation
Indices: 5200330--5200507 Score: 135
Period size: 26 Copynumber: 7.1 Consensus size: 24
5200320 CCAAAATATT
* * *
5200330 ATATAAAACAATTTGAAGTCAATA
1 ATATAAAACAATTTAAAATAAATA
* *
5200354 ATATAAAACAATTTCAAGTAAATA
1 ATATAAAACAATTTAAAATAAATA
5200378 ATATGCAAAACAAATTTAAAATAAATA
1 ATAT--AAAAC-AATTTAAAATAAATA
*
5200405 ATATACAAAACAATTTAAAATGAATA
1 ATAT--AAAACAATTTAAAATAAATA
* *
5200431 ATATATAAGACACTTTAAAAT-AA-C
1 ATATA-AA-ACAATTTAAAATAAATA
* * *
5200455 ATATAAAAGAGTTTAAGATAAATA
1 ATATAAAACAATTTAAAATAAATA
* *
5200479 ATACGAAAAAGAAATTTAAAATAAATA
1 ATA--TAAAA-CAATTTAAAATAAATA
5200506 AT
1 AT
5200508 GTACAAAAAC
Statistics
Matches: 128, Mismatches: 16, Indels: 17
0.80 0.10 0.11
Matches are distributed among these distances:
22 9 0.07
23 4 0.03
24 35 0.27
25 4 0.03
26 38 0.30
27 38 0.30
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.28
Consensus pattern (24 bp):
ATATAAAACAATTTAAAATAAATA
Found at i:5200430 original size:26 final size:26
Alignment explanation
Indices: 5200323--5200590 Score: 147
Period size: 27 Copynumber: 10.2 Consensus size: 26
5200313 ATATGCACCA
* * * *
5200323 AAATATTATATAAAACAATTTGAAGT
1 AAATAATATACAAAACAATTTAAAAT
* * *
5200349 CAATAATAT--AAAACAATTTCAAGT
1 AAATAATATACAAAACAATTTAAAAT
*
5200373 AAATAATATGCAAAACAAATTTAAAAT
1 AAATAATATACAAAAC-AATTTAAAAT
5200400 AAATAATATACAAAACAATTTAAAAT
1 AAATAATATACAAAACAATTTAAAAT
* * * *
5200426 GAATAATATATAAGACACTTTAAAAT
1 AAATAATATACAAAACAATTTAAAAT
* * * *
5200452 -AA-CATAT--AAAAGAGTTTAAGAT
1 AAATAATATACAAAACAATTTAAAAT
* *
5200474 AAATAATACGA-AAAAGAAATTTAAAAT
1 AAATAATA-TACAAAA-CAATTTAAAAT
* *
5200501 AAATAATGTACAAAAACAGTTTAAAAAT
1 AAATAATATAC-AAAACAATTT-AAAAT
* * **
5200529 AATATATATATATATAAATAATAAAAAAT
1 AA-ATA-ATATACA-AAACAATTTAAAAT
* * *
5200558 GAATGATATATATAAAA-AGTTTAAAAT
1 AAAT-A-ATATACAAAACAATTTAAAAT
5200585 AAATAA
1 AAATAA
5200591 CATTTAAAAT
Statistics
Matches: 191, Mismatches: 36, Indels: 31
0.74 0.14 0.12
Matches are distributed among these distances:
22 11 0.06
23 2 0.01
24 29 0.15
25 3 0.02
26 50 0.26
27 52 0.27
28 16 0.08
29 19 0.10
30 9 0.05
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (26 bp):
AAATAATATACAAAACAATTTAAAAT
Found at i:5200477 original size:101 final size:103
Alignment explanation
Indices: 5200354--5200540 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 103
5200344 GAAGTCAATA
* *
5200354 ATATAAAACAATTTCAAGTAAATAATATGCAAAACAAATTTAAAATAAATAATATAC-AAAACAA
1 ATATAAAACAATTTCAAGTAAATAATACGAAAAACAAATTTAAAATAAATAATATACAAAAACAA
5200418 TTT-AAAATGAATA-ATATATAAGACACTTTAAAATAAC
66 TTTAAAAAT-AATATATATATAAGACACTTTAAAATAAC
* * * *
5200455 ATATAAAAGAGTTT-AAGATAAATAATACGAAAAAGAAATTTAAAATAAATAATGTACAAAAACA
1 ATATAAAACAATTTCAAG-TAAATAATACGAAAAACAAATTTAAAATAAATAATATACAAAAACA
*
5200519 GTTTAAAAATAATATATATATA
65 ATTTAAAAATAATATATATATA
5200541 TATAAATAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 3 0.04
101 47 0.63
102 13 0.17
103 12 0.16
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (103 bp):
ATATAAAACAATTTCAAGTAAATAATACGAAAAACAAATTTAAAATAAATAATATACAAAAACAA
TTTAAAAATAATATATATATAAGACACTTTAAAATAAC
Found at i:5200582 original size:29 final size:27
Alignment explanation
Indices: 5200513--5200583 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 27
5200503 ATAATGTACA
5200513 AAAACAGTTT-AAAAATAATATATATAT
1 AAAA-AGTTTAAAAAATAATATATATAT
*
5200540 ATATAAA-TAATAAAAAATGAATGATATATAT
1 A-A-AAAGT-TTAAAAAAT-AAT-ATATATAT
5200571 AAAAAGTTTAAAA
1 AAAAAGTTTAAAA
5200584 TAAATAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
27 2 0.06
28 3 0.09
29 16 0.46
30 5 0.14
31 9 0.26
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAAAGTTTAAAAAATAATATATATAT
Found at i:5200657 original size:25 final size:25
Alignment explanation
Indices: 5200620--5200710 Score: 96
Period size: 25 Copynumber: 3.6 Consensus size: 25
5200610 TGATAATAGT
* *
5200620 TTAAAATACATAATATGTGAAAAAC
1 TTAAAATAAATAATATATGAAAAAC
* *
5200645 TTAAAACAAATAATA-AT-AAAACAGT
1 TTAAAATAAATAATATATGAAAA-A-C
*
5200670 TTAAAATAAATAATATAAGAAAAAAC
1 TTAAAATAAATAATATATG-AAAAAC
5200696 TTAAAATAAATAATA
1 TTAAAATAAATAATA
5200711 ATAACAAAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.07
24 2 0.04
25 27 0.50
26 16 0.30
27 1 0.02
28 4 0.07
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.26
Consensus pattern (25 bp):
TTAAAATAAATAATATATGAAAAAC
Found at i:5200676 original size:50 final size:51
Alignment explanation
Indices: 5200617--5200714 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
5200607 ACTTGATAAT
* **
5200617 AGTTTAAAATACATAATATGTG-AAAAACTTAAAACAAATAATAATAAAAC
1 AGTTTAAAATAAATAATATAAGAAAAAACTTAAAACAAATAATAATAAAAC
*
5200667 AGTTTAAAATAAATAATATAAGAAAAAACTTAAAATAAATAATAATAA
1 AGTTTAAAATAAATAATATAAGAAAAAACTTAAAACAAATAATAATAA
5200715 CAAAACAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 19 0.44
51 24 0.56
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (51 bp):
AGTTTAAAATAAATAATATAAGAAAAAACTTAAAACAAATAATAATAAAAC
Found at i:5202257 original size:44 final size:44
Alignment explanation
Indices: 5202204--5202500 Score: 199
Period size: 44 Copynumber: 6.8 Consensus size: 44
5202194 GCTTCAATCC
* * *
5202204 ACTCCACTGCAACTTTAGGGAGATTAG-TCTTGTAGCTTCAATCT
1 ACTCCACTGCAACTTTAGGGAGATAAGAT-TTGTAGCATCAACCT
* ** * * *
5202248 TCTTTACTGCAACTTCAGGAAGATAAGATTTGTGGCATCAACCT
1 ACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCATCAACCT
* ** **
5202292 ACTCCACTGCAACTTTAGGGAGATAAGGTTTGT-GGTTTTACTCT
1 ACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCATCAAC-CT
* * * * * *
5202336 GCTCCACTGCAA-TTTCAGGGAGATAAGATTAGTGGCTTAAATCT
1 ACTCCACTGCAACTTT-AGGGAGATAAGATTTGTAGCATCAACCT
* * * * * *
5202380 GCTCCACTACAACTTCAGGGAGATAAGATTCGCCA-CTTCAACCT
1 ACTCCACTGCAACTTTAGGGAGATAAGATTTG-TAGCATCAACCT
* * * **
5202424 GCTCCAGTGCAACTTTAGGGAGATAAGGTTTGT-GGTTCTAACCT
1 ACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCATC-AACCT
* * * *
5202468 GCTCCGCTGTAACTTCAGGGAGATAAGATTTGT
1 ACTCCACTGCAACTTTAGGGAGATAAGATTTGT
5202501 GACTTTAATC
Statistics
Matches: 200, Mismatches: 45, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
43 10 0.05
44 183 0.92
45 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
ACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCATCAACCT
Found at i:5202442 original size:132 final size:132
Alignment explanation
Indices: 5202205--5202512 Score: 370
Period size: 132 Copynumber: 2.3 Consensus size: 132
5202195 CTTCAATCCA
* * * * ** *
5202205 CTCCACTGCAACTTT-AGGGAGATTAG-TCTTGTAGCTTCAATCTTCTTTACTGCAACTTCAGGA
1 CTCCACTGCAA-TTTCAGGGAGATAAGAT-TTGTGGCTTAAATCTGCTCCACTACAACTTCAGGA
* *** *
5202268 AGATAAGATTTGTGGCATCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTT-TTA
64 AGATAAGATTCGCCACATCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTTCTAA
5202332 CTCTG
129 C-CTG
* *
5202337 CTCCACTGCAATTTCAGGGAGATAAGATTAGTGGCTTAAATCTGCTCCACTACAACTTCAGGGAG
1 CTCCACTGCAATTTCAGGGAGATAAGATTTGTGGCTTAAATCTGCTCCACTACAACTTCAGGAAG
* * *
5202402 ATAAGATTCGCCACTTCAACCTGCTCCAGTGCAACTTTAGGGAGATAAGGTTTGTGGTTCTAACC
66 ATAAGATTCGCCACATCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTTCTAACC
5202467 TG
131 TG
* * * * *
5202469 CTCCGCTGTAACTTCAGGGAGATAAGATTTGTGACTTTAATCTG
1 CTCCACTGCAATTTCAGGGAGATAAGATTTGTGGCTTAAATCTG
5202513 TTTCGCTGTA
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
131 3 0.02
132 143 0.95
133 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (132 bp):
CTCCACTGCAATTTCAGGGAGATAAGATTTGTGGCTTAAATCTGCTCCACTACAACTTCAGGAAG
ATAAGATTCGCCACATCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTTCTAACC
TG
Found at i:5202501 original size:44 final size:43
Alignment explanation
Indices: 5202253--5202501 Score: 255
Period size: 44 Copynumber: 5.7 Consensus size: 43
5202243 AATCTTCTTT
* * * *
5202253 ACTGCAACTTCAGGAAGATAAGATTTGTGGCATCAACCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTGG-TTTAACCTGCTCC
* * *
5202297 ACTGCAACTTTAGGGAGATAAGGTTTGTGGTTTTACTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTGGTTTAAC-CTGCTCC
* * * *
5202341 ACTGCAATTTCAGGGAGATAAGATTAGTGGCTTAAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTGG-TTTAACCTGCTCC
* * *** *
5202385 ACTACAACTTCAGGGAGATAAGATTCGCCACTTCAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TGGTTTAACCTGCTCC
* * *
5202429 AGTGCAACTTTAGGGAGATAAGGTTTGTGGTTCTAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTGGTT-TAACCTGCTCC
* *
5202473 GCTGTAACTTCAGGGAGATAAGATTTGTG
1 ACTGCAACTTCAGGGAGATAAGATTTGTG
5202502 ACTTTAATCT
Statistics
Matches: 165, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
43 5 0.03
44 157 0.95
45 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (43 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTGGTTTAACCTGCTCC
Found at i:5202520 original size:44 final size:44
Alignment explanation
Indices: 5202254--5202541 Score: 238
Period size: 44 Copynumber: 6.5 Consensus size: 44
5202244 ATCTTCTTTA
* * * * * * *
5202254 CTGCAACTTCAGGAAGATAAGATTTGTGGCATCAACCTACTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGCTCCG
* * ** * *
5202298 CTGCAACTTTAGGGAGATAAGGTTTGTGGTTTTACTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGCTCCG
* * * * *
5202342 CTGCAATTTCAGGGAGATAAGATTAGTGGCTTAAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGCTCCG
* * ** * *
5202386 CTACAACTTCAGGGAGATAAGATTCGCCACTTCAACCTGCTCCAG
1 CTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGCTCC-G
* * * *
5202431 -TGCAACTTTAGGGAGATAAGGTTTGTG-GTTCTAACCTGCTCCG
1 CTGCAACTTCAGGGAGATAAGATTTGTGACTT-TAATCTGCTCCG
* * *
5202474 CTGTAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGTTTCG
1 CTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGCTCCG
* * *
5202518 CTGTAATTTCAAGGAGATAAGATT
1 CTGCAACTTCAGGGAGATAAGATT
5202542 CGTTATAGTG
Statistics
Matches: 198, Mismatches: 42, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
43 3 0.02
44 193 0.97
45 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGCTCCG
Found at i:5202534 original size:88 final size:88
Alignment explanation
Indices: 5202205--5202541 Score: 297
Period size: 88 Copynumber: 3.8 Consensus size: 88
5202195 CTTCAATCCA
* * * * *** * *
5202205 CTCCACTGCAACTTTAGGGAGATTAG-TCTTGT-AGCTTCAATCTTCTTTACTGCAACTTCAGGA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TTGTGA-CTTTAATCTGCTCCGCTGCAATTTCAGGG
* *
5202268 AGATAAGATTTGTGGCATCAACCTA
64 AGATAAGATTTGTGGCTTCAACCTG
* * ** * *
5202293 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTTTTACTCTGCTCCACTGCAATTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGCTCCGCTGCAATTTCAGGGAG
* * *
5202358 ATAAGATTAGTGGCTTAAATCTG
66 ATAAGATTTGTGGCTTCAACCTG
* * ** * *
5202381 CTCCACTACAACTTCAGGGAGATAAGATTCGCCACTTCAACCTGCTCCAG-TGCAACTTT-AGGG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGCTCC-GCTGCAA-TTTCAGGG
*
5202444 AGATAAGGTTTGTGG-TTCTAACCTG
64 AGATAAGATTTGTGGCTTC-AACCTG
* * * * * *
5202469 CTCCGCTGTAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGTTTCGCTGTAATTTCAAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGCTCCGCTGCAATTTCAGGGAG
5202534 ATAAGATT
66 ATAAGATT
5202542 CGTTATAGTG
Statistics
Matches: 198, Mismatches: 44, Indels: 14
0.77 0.17 0.05
Matches are distributed among these distances:
87 6 0.03
88 188 0.95
89 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (88 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTTAATCTGCTCCGCTGCAATTTCAGGGAG
ATAAGATTTGTGGCTTCAACCTG
Found at i:5202534 original size:132 final size:132
Alignment explanation
Indices: 5202285--5202543 Score: 358
Period size: 132 Copynumber: 2.0 Consensus size: 132
5202275 ATTTGTGGCA
* *
5202285 TCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTTTTACTCTGCTCCACTGCAATT
1 TCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTTTAACTCTGCTCCACTGCAACT
* *
5202350 TCAGGGAGATAAGATTAGTGGCTTAAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCCA
66 TCAGGGAGATAAGATTAGTGACTTAAATCTGCTCCACTACAACTTCAAGGAGATAAGATTCGCCA
5202415 CT
131 CT
* * * *
5202417 TCAACCTGCTCCAGTGCAACTTTAGGGAGATAAGGTTTGTGGTTCTAAC-CTGCTCCGCTGTAAC
1 TCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTT-TAACTCTGCTCCACTGCAAC
* * * * * ** *
5202481 TTCAGGGAGATAAGATTTGTGACTTTAATCTGTTTCGCTGTAATTTCAAGGAGATAAGATTCG
65 TTCAGGGAGATAAGATTAGTGACTTAAATCTGCTCCACTACAACTTCAAGGAGATAAGATTCG
5202544 TTATAGTGAT
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
132 107 0.97
133 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (132 bp):
TCAACCTACTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTTTAACTCTGCTCCACTGCAACT
TCAGGGAGATAAGATTAGTGACTTAAATCTGCTCCACTACAACTTCAAGGAGATAAGATTCGCCA
CT
Found at i:5210538 original size:14 final size:16
Alignment explanation
Indices: 5210511--5210542 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
5210501 TAATGTATAT
5210511 GATGAAATGTAATGCA
1 GATGAAATGTAATGCA
5210527 GATG-AATG-AATGCA
1 GATGAAATGTAATGCA
5210541 GA
1 GA
5210543 AAAAAAGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.44, C:0.06, G:0.28, T:0.22
Consensus pattern (16 bp):
GATGAAATGTAATGCA
Found at i:5212416 original size:24 final size:24
Alignment explanation
Indices: 5212388--5212569 Score: 136
Period size: 26 Copynumber: 7.2 Consensus size: 24
5212378 CCAAAATATT
* * *
5212388 ATATAAAACAATTTGAAGTCAATA
1 ATATAAAACAATTTAAAATAAATA
*
5212412 ATATAAAACAATTTCAAGA-AAATA
1 ATATAAAACAATTT-AAAATAAATA
5212436 ATATGCAAAACAAATTTAAAATAAATA
1 ATAT--AAAAC-AATTTAAAATAAATA
*
5212463 ATAAACAAAACAATTTAAAATAAATA
1 AT--ATAAAACAATTTAAAATAAATA
* *
5212489 ATATATAAGACACTTTAAAAT-AA-C
1 ATATA-AA-ACAATTTAAAATAAATA
* * *
5212513 ATATAAAAGAGTTTAAGATAAATA
1 ATATAAAACAATTTAAAATAAATA
*
5212537 ATATGTAAAAAGAAATTTAAAATAAATA
1 ATA--T-AAAA-CAATTTAAAATAAATA
5212565 ATATA
1 ATATA
5212570 CAAAAACAGT
Statistics
Matches: 127, Mismatches: 16, Indels: 29
0.74 0.09 0.17
Matches are distributed among these distances:
22 9 0.07
23 4 0.03
24 32 0.25
25 6 0.05
26 38 0.30
27 21 0.17
28 16 0.13
29 1 0.01
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.27
Consensus pattern (24 bp):
ATATAAAACAATTTAAAATAAATA
Done.