Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 122 of 208
Found at i:37298330 original size:18 final size:18
Alignment explanation
Indices: 37298307--37298351 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
37298297 AAATCTGAGC
*
37298307 CTCAATTTTGAAATCGAT
1 CTCAATTTCGAAATCGAT
*
37298325 CTCAATTTCGAAATTGAT
1 CTCAATTTCGAAATCGAT
37298343 CTCAATTTC
1 CTCAATTTC
37298352 ATCCATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (18 bp):
CTCAATTTCGAAATCGAT
Found at i:37314409 original size:22 final size:22
Alignment explanation
Indices: 37314381--37314424 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
37314371 ATACATTAAA
37314381 ATTATTCAGCAAAATTATGATT
1 ATTATTCAGCAAAATTATGATT
37314403 ATTATTCAGCAAAATTATGATT
1 ATTATTCAGCAAAATTATGATT
37314425 TCTTTTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (22 bp):
ATTATTCAGCAAAATTATGATT
Found at i:37321778 original size:28 final size:28
Alignment explanation
Indices: 37321747--37321892 Score: 118
Period size: 28 Copynumber: 5.2 Consensus size: 28
37321737 TTGAAAGATC
* *
37321747 TCCACTTATATGATAGTCCTGATAGACT
1 TCCACATATAAGATAGTCCTGATAGACT
* * *
37321775 TCCACATATAAGTTAGTCTTGATGGACT
1 TCCACATATAAGATAGTCCTGATAGACT
* * * *
37321803 TCCCCAT-TAAGAT-GTTCCTAACATACT
1 TCCACATATAAGATAG-TCCTGATAGACT
*
37321830 TCCACATATAAGATAGTCTTGAT-GAACT
1 TCCACATATAAGATAGTCCTGATAG-ACT
* * * **
37321858 TCCACATATGAGATAATCCTAACGGACT
1 TCCACATATAAGATAGTCCTGATAGACT
37321886 TCCACAT
1 TCCACAT
37321893 TTACGGCAAT
Statistics
Matches: 91, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
26 1 0.01
27 18 0.20
28 70 0.77
29 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (28 bp):
TCCACATATAAGATAGTCCTGATAGACT
Found at i:37321859 original size:55 final size:56
Alignment explanation
Indices: 37321747--37321892 Score: 168
Period size: 55 Copynumber: 2.6 Consensus size: 56
37321737 TTGAAAGATC
* * * * * * *
37321747 TCCACTTATATGATAGTCCTGATAGACTTCCACATATAAGTTAGTCTTGATGGACT
1 TCCACATATAAGATAATCCTAACAGACTTCCACATATAAGATAGTCTTGATGAACT
* ** *
37321803 TCCCCAT-TAAGATGTTCCTAACATACTTCCACATATAAGATAGTCTTGATGAACT
1 TCCACATATAAGATAATCCTAACAGACTTCCACATATAAGATAGTCTTGATGAACT
* *
37321858 TCCACATATGAGATAATCCTAACGGACTTCCACAT
1 TCCACATATAAGATAATCCTAACAGACTTCCACAT
37321893 TTACGGCAAT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
55 46 0.63
56 27 0.37
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (56 bp):
TCCACATATAAGATAATCCTAACAGACTTCCACATATAAGATAGTCTTGATGAACT
Found at i:37328913 original size:10 final size:9
Alignment explanation
Indices: 37328894--37328927 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
37328884 TATTTATTCA
37328894 TTTA-TTTT
1 TTTATTTTT
37328902 TTTATTTTT
1 TTTATTTTT
37328911 TTTATTTTT
1 TTTATTTTT
*
37328920 TTTGTTTT
1 TTTATTTT
37328928 ATCTATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 4 0.17
9 20 0.83
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (9 bp):
TTTATTTTT
Found at i:37330527 original size:18 final size:19
Alignment explanation
Indices: 37330483--37330548 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 19
37330473 TCTTTGTTTT
*
37330483 ATATTTA-TTT-TTAGTTTT
1 ATATTTATTTTCTTA-TTTG
37330501 ATAATTTATTTTCATTA-TTG
1 AT-ATTTATTTTC-TTATTTG
*
37330521 ATA-TTATTGTCTTATTTG
1 ATATTTATTTTCTTATTTG
37330539 ATATTTATTT
1 ATATTTATTT
37330549 ATTTATGTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
17 3 0.08
18 15 0.38
19 11 0.28
20 7 0.18
22 3 0.08
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (19 bp):
ATATTTATTTTCTTATTTG
Found at i:37331423 original size:15 final size:15
Alignment explanation
Indices: 37331403--37331464 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
37331393 GCTCCCTCCG
* *
37331403 TTTCTTTTCTTTTCT
1 TTTCTTTGCTTTGCT
37331418 TTTCTTTGCTTTGCT
1 TTTCTTTGCTTTGCT
37331433 TTCTCCTTTGCTTT-C-
1 TT-T-CTTTGCTTTGCT
*
37331448 TTCCTTTGCTTTGCT
1 TTTCTTTGCTTTGCT
37331463 TT
1 TT
37331465 CTCCTTTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 9 0.22
14 1 0.03
15 19 0.47
16 2 0.05
17 9 0.22
ACGTcount: A:0.00, C:0.24, G:0.08, T:0.68
Consensus pattern (15 bp):
TTTCTTTGCTTTGCT
Found at i:37331443 original size:12 final size:13
Alignment explanation
Indices: 37331426--37331459 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
37331416 CTTTTCTTTG
37331426 CTTTGCTTTC-TC
1 CTTTGCTTTCTTC
37331438 CTTTGCTTTCTTC
1 CTTTGCTTTCTTC
37331451 CTTTGCTTT
1 CTTTGCTTT
37331460 GCTTTCTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.00, C:0.29, G:0.09, T:0.62
Consensus pattern (13 bp):
CTTTGCTTTCTTC
Found at i:37331457 original size:30 final size:30
Alignment explanation
Indices: 37331421--37331478 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
37331411 CTTTTCTTTT
37331421 CTTTGCTTTGCTTTCTCCTTTGCTTTCTTC
1 CTTTGCTTTGCTTTCTCCTTTGCTTTCTTC
*
37331451 CTTTGCTTTGCTTTCTCCTTTGTTTTCT
1 CTTTGCTTTGCTTTCTCCTTTGCTTTCT
37331479 CCAGTCGGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.00, C:0.28, G:0.10, T:0.62
Consensus pattern (30 bp):
CTTTGCTTTGCTTTCTCCTTTGCTTTCTTC
Found at i:37331461 original size:18 final size:17
Alignment explanation
Indices: 37331421--37331472 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 17
37331411 CTTTTCTTTT
37331421 CTTTGCTTTGCTTTCTC
1 CTTTGCTTTGCTTTCTC
37331438 CTTTGCTTT-C--T-TC
1 CTTTGCTTTGCTTTCTC
37331451 CTTTGCTTTGCTTTCTC
1 CTTTGCTTTGCTTTCTC
37331468 CTTTG
1 CTTTG
37331473 TTTTCTCCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 11 0.35
14 2 0.06
16 2 0.06
17 16 0.52
ACGTcount: A:0.00, C:0.29, G:0.12, T:0.60
Consensus pattern (17 bp):
CTTTGCTTTGCTTTCTC
Found at i:37333652 original size:18 final size:18
Alignment explanation
Indices: 37333606--37333653 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
37333596 TATAATAATA
*
37333606 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
37333622 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
37333639 TTAATTATAATATAT
1 TTAATTATAATATAT
37333654 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:37333653 original size:16 final size:16
Alignment explanation
Indices: 37333596--37333674 Score: 60
Period size: 15 Copynumber: 5.1 Consensus size: 16
37333586 TATTAAATTA
*
37333596 TATAATA-ATATTAAT
1 TATAATATATTTTAAT
37333611 TATTAATA-ATTTT-AT
1 TA-TAATATATTTTAAT
*
37333626 TAAATTATATATTTTAAT
1 T--ATAATATATTTTAAT
37333644 TATAATATA-TTTAAT
1 TATAATATATTTTAAT
* *
37333659 AATAAT-TATGTTAAT
1 TATAATATATTTTAAT
37333674 T
1 T
37333675 TATATTTTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
14 2 0.04
15 21 0.40
16 20 0.38
17 6 0.12
18 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (16 bp):
TATAATATATTTTAAT
Found at i:37333773 original size:16 final size:16
Alignment explanation
Indices: 37333752--37333793 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
37333742 TTATTAAATT
*
37333752 ATATATTTTAATTATA
1 ATATATTTTAATAATA
37333768 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
37333783 AT-TATGTTTAA
1 ATATAT-TTTAA
37333794 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:37333778 original size:15 final size:15
Alignment explanation
Indices: 37333743--37333784 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37333733 TTAAGAATTT
*
37333743 TATTAAATTAT-ATA
1 TATTTAATTATAATA
37333757 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
37333771 TATTTAATAATAAT
1 TATTTAATTATAAT
37333785 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:37334029 original size:16 final size:16
Alignment explanation
Indices: 37334010--37334061 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
37334000 GATTTGCTAT
* *
37334010 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
37334026 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
37334042 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
37334058 TACA
1 TACA
37334062 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:37340319 original size:38 final size:37
Alignment explanation
Indices: 37340269--37340345 Score: 136
Period size: 38 Copynumber: 2.1 Consensus size: 37
37340259 AATAATAAAT
*
37340269 ACTCTATTATAACCCAAAAAGTTGACTTATTGAAAGA
1 ACTCTATTATAACCCAAAAAGTTAACTTATTGAAAGA
37340306 ACTCTGATTATAACCCAAAAAGTTAACTTATTGAAAGA
1 ACTCT-ATTATAACCCAAAAAGTTAACTTATTGAAAGA
37340344 AC
1 AC
37340346 AAGAGATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 5 0.13
38 33 0.87
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (37 bp):
ACTCTATTATAACCCAAAAAGTTAACTTATTGAAAGA
Found at i:37340578 original size:21 final size:21
Alignment explanation
Indices: 37340554--37340594 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37340544 GTTTTAAAAG
*
37340554 TTTTATAATATTTT-AAAGAAT
1 TTTTAGAA-ATTTTCAAAGAAT
37340575 TTTTAGAAATTTTCAAAGAA
1 TTTTAGAAATTTTCAAAGAA
37340595 AAAGGAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (21 bp):
TTTTAGAAATTTTCAAAGAAT
Found at i:37345343 original size:22 final size:22
Alignment explanation
Indices: 37345281--37345366 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
37345271 ATTGTTCAAA
* **
37345281 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
37345303 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
37345325 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * *
37345347 CATGAGGGTTTAGTTCGTTA
1 CATGAGAGCTTAGTACGTTA
37345367 AATATATATA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:37345885 original size:41 final size:40
Alignment explanation
Indices: 37345826--37345971 Score: 136
Period size: 41 Copynumber: 3.6 Consensus size: 40
37345816 CAGACTTATT
* **
37345826 GTCTAGCAAGCTGGATGCCGGTGATATAATTCAGGCTATG
1 GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGGCTATG
* * * *
37345866 TGCCTAGCAGGCTTAATGCCGGTGA-ATTAATTCAGACTTTAC
1 -GTCTAGCAGGCTTAATGCCGGTGATA-TAATTCAGGCTAT-G
* *
37345908 GTCTAGCAGGCTTAATGCCGGTGATACATTTC-GGACTATAG
1 GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGG-CTAT-G
37345949 GTCTAGCAGGCTATAA-GCCGGTG
1 GTCTAGCAGGCT-TAATGCCGGTG
37345972 TATCGAATCA
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.02
41 81 0.93
42 4 0.05
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGGCTATG
Found at i:37347689 original size:88 final size:88
Alignment explanation
Indices: 37347535--37347706 Score: 299
Period size: 88 Copynumber: 2.0 Consensus size: 88
37347525 GGCAGGTACT
* * *
37347535 TCCTTCGAACATGCTAAGTTCACATCCTTATTCAGCATACATTTTCAATATTAACCCATTAATTC
1 TCCTTCGAACATACAAAGTTCACATCCTTATCCAGCATACATTTTCAATATTAACCCATTAATTC
37347600 TCTATATCCCTTCAAAGTTCACA
66 TCTATATCCCTTCAAAGTTCACA
* *
37347623 TCCTTCGAACATACAAAGTTCACATCCTTATCCAGCATATATTTTCAATATTAACCCATTACTTC
1 TCCTTCGAACATACAAAGTTCACATCCTTATCCAGCATACATTTTCAATATTAACCCATTAATTC
37347688 TCTATATCCCTTCAAAGTT
66 TCTATATCCCTTCAAAGTT
37347707 TTAAGAGTTC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.37
Consensus pattern (88 bp):
TCCTTCGAACATACAAAGTTCACATCCTTATCCAGCATACATTTTCAATATTAACCCATTAATTC
TCTATATCCCTTCAAAGTTCACA
Found at i:37347783 original size:27 final size:27
Alignment explanation
Indices: 37347753--37347851 Score: 121
Period size: 27 Copynumber: 3.6 Consensus size: 27
37347743 ATTGGGAGAA
37347753 TGCCATAAAGGCTATTCTTTCAGAGTT
1 TGCCATAAAGGCTATTCTTTCAGAGTT
*
37347780 TGCCATAAAGTCTATTCTTTCAGAGTT
1 TGCCATAAAGGCTATTCTTTCAGAGTT
** *
37347807 CACCACAAAGGCTATTCTTAT-AGAGTT
1 TGCCATAAAGGCTATTCTT-TCAGAGTT
37347834 TGACACA-AAAGGCTATTC
1 TG-C-CATAAAGGCTATTC
37347852 CTTCTTGACA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 47 0.76
28 13 0.21
29 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (27 bp):
TGCCATAAAGGCTATTCTTTCAGAGTT
Found at i:37353571 original size:27 final size:27
Alignment explanation
Indices: 37353541--37353643 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
37353531 TCTATATATC
* *
37353541 AGTTCACCACAAAGGCTATTCTTTCAT
1 AGTTCGCCACAAAGGCTATTCTTTCAA
* * *
37353568 AGTTCTCCACAAAGGTTATTCTATCAA
1 AGTTCGCCACAAAGGCTATTCTTTCAA
* * * * *
37353595 ATTTTGTCACAAAGGCTATTTTTTTCAG
1 AGTTCGCCACAAAGGCTA-TTCTTTCAA
* *
37353623 AGTTTGCCAGAAAGGCTATTC
1 AGTTCGCCACAAAGGCTATTC
37353644 CTTCCTGACA
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
27 38 0.64
28 21 0.36
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (27 bp):
AGTTCGCCACAAAGGCTATTCTTTCAA
Found at i:37357107 original size:21 final size:22
Alignment explanation
Indices: 37357077--37357117 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
37357067 AATTAAAAAC
*
37357077 GGGGAGAATTGGA-AAAAATTG
1 GGGGACAATTGGAGAAAAATTG
37357098 GGGGACAATTGGAGAAAAAT
1 GGGGACAATTGGAGAAAAAT
37357118 GATCCTTAGA
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:0.44, C:0.02, G:0.37, T:0.17
Consensus pattern (22 bp):
GGGGACAATTGGAGAAAAATTG
Found at i:37364997 original size:43 final size:44
Alignment explanation
Indices: 37364949--37365036 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 44
37364939 AAGGTAAATC
** *
37364949 CAACAACCCCTGTTTATCTTCTCCTCTTTTTAAA-TTCTTTTTT
1 CAACAACCCAAGTTTATCTTCTCCTCTTTTTAAATTTATTTTTT
*
37364992 CAACAACCCAAGTTTATCTTCTCCTGTTTTTAAATTTATTTTTT
1 CAACAACCCAAGTTTATCTTCTCCTCTTTTTAAATTTATTTTTT
37365036 C
1 C
37365037 TAGCATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 31 0.77
44 9 0.22
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (44 bp):
CAACAACCCAAGTTTATCTTCTCCTCTTTTTAAATTTATTTTTT
Found at i:37366742 original size:57 final size:57
Alignment explanation
Indices: 37366669--37366804 Score: 236
Period size: 57 Copynumber: 2.4 Consensus size: 57
37366659 GGTCGCATAC
37366669 GTGGCACGAACTAAGTGCAGGCTACTATGCGTGTCGATATTATGTTAAGATACAGGG
1 GTGGCACGAACTAAGTGCAGGCTACTATGCGTGTCGATATTATGTTAAGATACAGGG
*
37366726 GTGGCACGAACTAAGTGCAGGCTACTATGCGTGTCGATATTCTGTTAAGATACAGGG
1 GTGGCACGAACTAAGTGCAGGCTACTATGCGTGTCGATATTATGTTAAGATACAGGG
* **
37366783 GTGGCACGGACTGTGTGCAGGC
1 GTGGCACGAACTAAGTGCAGGC
37366805 CACCAATATT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 75 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (57 bp):
GTGGCACGAACTAAGTGCAGGCTACTATGCGTGTCGATATTATGTTAAGATACAGGG
Found at i:37366833 original size:48 final size:48
Alignment explanation
Indices: 37366762--37366952 Score: 258
Period size: 48 Copynumber: 4.0 Consensus size: 48
37366752 ATGCGTGTCG
* *
37366762 ATATTCTGTTAAGATACAGGGGTGGCACGGACTGTGTGCAGGCCACCA
1 ATATTCTGTTAAGATACAAGGGTGGCACGAACTGTGTGCAGGCCACCA
*
37366810 ATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCA
1 ATATTCTGTTAAGATACAAGGGTGGCACGAACTGTGTGCAGGCCACCA
* *
37366858 ATATTCTGTTAAGATACAAGGGTGGCACGAACTATGTGTAGGCCACCA
1 ATATTCTGTTAAGATACAAGGGTGGCACGAACTGTGTGCAGGCCACCA
* ** * * * *
37366906 AGAGTT-TGTTATTACACAAAGGTGGTACGAACTGTGTGTAGGCCACC
1 ATA-TTCTGTTAAGATACAAGGGTGGCACGAACTGTGTGCAGGCCACC
37366953 GAGAAATTTG
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
48 129 0.98
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
ATATTCTGTTAAGATACAAGGGTGGCACGAACTGTGTGCAGGCCACCA
Found at i:37368181 original size:3 final size:3
Alignment explanation
Indices: 37368173--37368216 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
37368163 AATATTACTG
* **
37368173 TAT TAT TAT TAG TATT TAT TAT TAT TAT GGT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37368217 TCAATACATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:37368424 original size:26 final size:26
Alignment explanation
Indices: 37368395--37368457 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
37368385 GTAGTTTTCT
* *
37368395 TATATATATTTTATAATCTAAATATA
1 TATACATATTTTATAATATAAATATA
* *
37368421 TATACATTTTTTATAATATATATATA
1 TATACATATTTTATAATATAAATATA
*
37368447 CATACACTATT
1 TATACA-TATT
37368458 CAAAATTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 27 0.90
27 3 0.10
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (26 bp):
TATACATATTTTATAATATAAATATA
Found at i:37370597 original size:29 final size:29
Alignment explanation
Indices: 37370555--37370613 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
37370545 ACCAACCTAC
37370555 CAAACACTGCTACGGTACTCGATCAAAAA
1 CAAACACTGCTACGGTACTCGATCAAAAA
37370584 CAAACACTGCTACGGTACTCGATCAAAAA
1 CAAACACTGCTACGGTACTCGATCAAAAA
37370613 C
1 C
37370614 TAAAGACCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.29, G:0.14, T:0.17
Consensus pattern (29 bp):
CAAACACTGCTACGGTACTCGATCAAAAA
Found at i:37374804 original size:43 final size:44
Alignment explanation
Indices: 37374629--37374802 Score: 251
Period size: 44 Copynumber: 4.0 Consensus size: 44
37374619 CGATGACCCC
*
37374629 AGTCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
*
37374673 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGTTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* * * *
37374717 AATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* * * *
37374761 AGTCCTATCTCCCCGGTTA-CAGCGGAATAGGTTGAAGATTGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGT
37374803 GAATCTTACT
Statistics
Matches: 120, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
43 22 0.18
44 98 0.82
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
Found at i:37375082 original size:168 final size:168
Alignment explanation
Indices: 37374804--37375115 Score: 561
Period size: 168 Copynumber: 1.9 Consensus size: 168
37374794 GAAGATTGTG
* *
37374804 AATCTTACTTCCCTGACGTTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCTCT
1 AATCTTACTTCCCTGACATTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCT
* *
37374869 AGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATTCTATCTCT
66 AGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTAT
37374934 TTGGCATTACAGTGAAATAGAATAAAGCCAAAATGGCA
131 TTGGCATTACAGTGAAATAGAATAAAGCCAAAATGGCA
* *
37374972 AATCTTACTTCCCTGACATTGTAGCGGAGTAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCT
1 AATCTTACTTCCCTGACATTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCT
*
37375037 GGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTAT
66 AGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTAT
37375102 TTGGCATTACAGTG
131 TTGGCATTACAGTG
37375116 GAGCAGATTA
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
168 137 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (168 bp):
AATCTTACTTCCCTGACATTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCT
AGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTAT
TTGGCATTACAGTGAAATAGAATAAAGCCAAAATGGCA
Found at i:37375146 original size:168 final size:167
Alignment explanation
Indices: 37374803--37375154 Score: 544
Period size: 168 Copynumber: 2.1 Consensus size: 167
37374793 TGAAGATTGT
* *
37374803 GAATCTTACTTCCCTGACGTTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCTC
1 GAATCTTACTTCCCTGACATTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCC
* *
37374868 TAGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATTCTATCTC
66 TAGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTA
*
37374933 TTTGGCATTACAGTGAAATAGAATAAAGCCAAAATGGC
131 TTTGGCATTACAGTGAAACAGAATAAAGCCAAAA-GGC
* * *
37374971 AAATCTTACTTCCCTGACATTGTAGCGGAGTAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCC
1 GAATCTTACTTCCCTGACATTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCC
*
37375036 TGGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTA
66 TAGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTA
* * * *
37375101 TTTGGCATTACAGTGGAGCAGATTAAAGCTGCAACA-GC
131 TTTGGCATTACAGTGAAACAGAATAAAGC--CAAAAGGC
*
37375139 GAATCTTACTCCCCTG
1 GAATCTTACTTCCCTG
37375155 GTGGTGTAGT
Statistics
Matches: 167, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
168 163 0.98
170 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (167 bp):
GAATCTTACTTCCCTGACATTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCC
TAGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTA
TTTGGCATTACAGTGAAACAGAATAAAGCCAAAAGGC
Found at i:37375493 original size:50 final size:49
Alignment explanation
Indices: 37375439--37375596 Score: 120
Period size: 50 Copynumber: 3.2 Consensus size: 49
37375429 AGTAGAACAA
37375439 ATTGAAGCTACGACGGTGAATCTCGTTTCCACAACATTGCAATTAAAAAG
1 ATTGAAGCTACGACGGTGAATCTCGTTTCC-CAACATTGCAATTAAAAAG
** * * ** *** *** * * ** *
37375489 ATTGAAGCCGCAACAGAAAATCTTACTTCCC-TGGTGGTGTAGTGGAACAG
1 ATTGAAGCTACGACGGTGAATCTCGTTTCCCAACAT--TGCAATTAAAAAG
37375539 ATTGAAGCTACGACGGTGAATCTCGTTTCCCCAACATTGCAATTAAAAAG
1 ATTGAAGCTACGACGGTGAATCTCGTTT-CCCAACATTGCAATTAAAAAG
37375589 ATTGAAGC
1 ATTGAAGC
37375597 CGCAACGGCG
Statistics
Matches: 70, Mismatches: 34, Indels: 8
0.62 0.30 0.07
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 64 0.91
51 3 0.04
52 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (49 bp):
ATTGAAGCTACGACGGTGAATCTCGTTTCCCAACATTGCAATTAAAAAG
Found at i:37375495 original size:267 final size:268
Alignment explanation
Indices: 37374971--37375522 Score: 793
Period size: 267 Copynumber: 2.1 Consensus size: 268
37374961 CCAAAATGGC
* * * * * *
37374971 AAATCTTACTTCCCTGACATTGTAGCGGAGTAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCC
1 AAATCTTACTTCCCTGGCATTGTAGCGGAGCACATTAAAGCTCACGACAGCGAATCTTATCTCCC
**
37375036 TGGCGTTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTA
66 TGGCGTTAAGACTTGAAATAGCTGAAGCGGAGCAAATTAAAGCTGTGGGCAGCGAATCCTATCTA
* * * *
37375101 TTTGGCATTACAGTGGAGCAGATTAAAGCTGCAACAGCGAATCTTACTCCCCTGGTGGTGTAGTG
131 TTTGGCATTACAGTGGAGCAGATTAAAGCCGCAACAGCGAATCTTACTCCCCTGGAGGCGTAGTA
* * * * *
37375166 GAACAGATTGAAGCTACGACGGTGAATCTCATTTCCCCAACATTGTAATTTAAAATATTGAAGCC
196 GAACAAATTGAAGCTACGACGGTGAATCTCATTTCCACAACATTGCAATTAAAAAGATTGAAGCC
37375231 GCAAC-GA
261 GCAACAGA
* * * *
37375238 CGAATCTTATTTCCCTGGCATTGTAGCGGAGCACATTGAAGC-CACTACAGCGAATCTTATCTCC
1 -AAATCTTACTTCCCTGGCATTGTAGCGGAGCACATTAAAGCTCACGACAGCGAATCTTATCTCC
* * * * * *
37375302 CTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCAAATTGAAGCTGTGGGCAGTGAATCCTATCT
65 CTGGCGTTAAGACTTGAAATAGCTGAAGCGGAGCAAATTAAAGCTGTGGGCAGCGAATCCTATCT
* * * *
37375367 CTTTGGCATTACAGTGGAGCAGATTTAAGCCGCAACGGTGAATCTTACTCCCCTGGAGGCGTAGT
130 ATTTGGCATTACAGTGGAGCAGATTAAAGCCGCAACAGCGAATCTTACTCCCCTGGAGGCGTAGT
*
37375432 AGAACAAATTGAAGCTACGACGGTGAATCTCGTTTCCACAACATTGCAATTAAAAAGATTGAAGC
195 AGAACAAATTGAAGCTACGACGGTGAATCTCATTTCCACAACATTGCAATTAAAAAGATTGAAGC
37375497 CGCAACAGA
260 CGCAACAGA
37375506 AAATCTTACTTCCCTGG
1 AAATCTTACTTCCCTGG
37375523 TGGTGTAGTG
Statistics
Matches: 249, Mismatches: 34, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
267 212 0.85
268 37 0.15
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (268 bp):
AAATCTTACTTCCCTGGCATTGTAGCGGAGCACATTAAAGCTCACGACAGCGAATCTTATCTCCC
TGGCGTTAAGACTTGAAATAGCTGAAGCGGAGCAAATTAAAGCTGTGGGCAGCGAATCCTATCTA
TTTGGCATTACAGTGGAGCAGATTAAAGCCGCAACAGCGAATCTTACTCCCCTGGAGGCGTAGTA
GAACAAATTGAAGCTACGACGGTGAATCTCATTTCCACAACATTGCAATTAAAAAGATTGAAGCC
GCAACAGA
Found at i:37375511 original size:100 final size:100
Alignment explanation
Indices: 37375387--37375695 Score: 447
Period size: 100 Copynumber: 3.1 Consensus size: 100
37375377 ACAGTGGAGC
* * * * * *
37375387 AGATTTAAGCCGCAACGGTGAATCTTACTCCCCTGGAGGCGTAGTAGAACAAATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGAGAATCTTACTTCCCTGGAGGTGTAGTGGAACAGATTGAAGCTACGA
*
37375452 CGGTGAATCTCGTTTCCACAACATTGCAATTAAAA
66 CGGTGAATCTCGTTTCCCCAACATTGCAATTAAAA
* * *
37375487 AGATTGAAGCCGCAACAGAAAATCTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGAGAATCTTACTTCCCTGGAGGTGTAGTGGAACAGATTGAAGCTACGA
37375552 CGGTGAATCTCGTTTCCCCAACATTGCAATTAAAA
66 CGGTGAATCTCGTTTCCCCAACATTGCAATTAAAA
* * *
37375587 AGATTGAAGCCGCAACGGCGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGAGAATCTTACTTCCCTGGAGGTGTAGTGGAACAGATTGAAGCTACGA
** * * *
37375652 CGACGAATCTTGTTTCCCCAACATTGTAATTTAAA
66 CGGTGAATCTCGTTTCCCCAACATTGCAATTAAAA
*
37375687 AGAATGAAG
1 AGATTGAAG
37375696 ATGGCAAGTC
Statistics
Matches: 188, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 188 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGGAGAATCTTACTTCCCTGGAGGTGTAGTGGAACAGATTGAAGCTACGA
CGGTGAATCTCGTTTCCCCAACATTGCAATTAAAA
Found at i:37375669 original size:50 final size:50
Alignment explanation
Indices: 37375515--37375669 Score: 130
Period size: 50 Copynumber: 3.1 Consensus size: 50
37375505 AAAATCTTAC
* * *
37375515 TTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTCGT
1 TTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGT
*** ** * * ** * ** * * **
37375565 TTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATTTTAC
1 TTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGT
*
37375615 TTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGACGAATCTTGT
1 TTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGT
37375665 TTCCC
1 TTCCC
37375670 CAACATTGTA
Statistics
Matches: 69, Mismatches: 36, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (50 bp):
TTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGT
Found at i:37377209 original size:3 final size:3
Alignment explanation
Indices: 37377201--37377256 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
37377191 TATTAAATTG
* **
37377201 TTA TTA TTA CTA -TA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TGG
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
37377246 TTA TTA TTA TT
1 TTA TTA TTA TT
37377257 TCAATACATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:37377249 original size:21 final size:19
Alignment explanation
Indices: 37377201--37377256 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
37377191 TATTAAATTG
*
37377201 TTATTA-TTACTA-TATTA
1 TTATTATTTATTATTATTA
37377218 TTATTATTTATTATTATTA
1 TTATTATTTATTATTATTA
37377237 TTATTATGGTTATTATTATT
1 TTATTAT--TTATTATTATT
37377257 TCAATACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 12 0.35
21 11 0.32
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (19 bp):
TTATTATTTATTATTATTA
Found at i:37378730 original size:26 final size:27
Alignment explanation
Indices: 37378658--37378724 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
37378648 ATATGAAATG
37378658 AAATATTAATGAGTCTATTTTTACATA
1 AAATATTAATGAGTCTATTTTTACATA
* * *
37378685 AAATATCACTAAGTCTATTTTTACATA
1 AAATATTAATGAGTCTATTTTTACATA
37378712 AAATATTAATGAG
1 AAATATTAATGAG
37378725 ATATTTGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (27 bp):
AAATATTAATGAGTCTATTTTTACATA
Found at i:37383866 original size:48 final size:48
Alignment explanation
Indices: 37383795--37383975 Score: 236
Period size: 48 Copynumber: 3.8 Consensus size: 48
37383785 ATGCATACCG
* * *
37383795 ATATTCTCTTAAGATACAAGGGTGGCACGGACTGTGTGCAAGCCACCA
1 ATATTCTATTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCA
*
37383843 ATATTTTATTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCA
1 ATATTCTATTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCA
* *
37383891 ATATTCTGTTAAGATACAAGGGTGGCACGGACTATGTGTAGGCCACCA
1 ATATTCTATTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCA
* * * ** * * *
37383939 AGAGTCTGTTATTACACAAAGGTGGTACGGACTATGT
1 ATATTCTATTAAGATACAAGGGTGGCACGGACTATGT
37383976 ATAGGCTACC
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
ATATTCTATTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCACCA
Found at i:37386130 original size:20 final size:19
Alignment explanation
Indices: 37386107--37386145 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
37386097 ATTTTTTCTC
37386107 TTCTTCTTT-TATTAGTTTTT
1 TTCTT-TTTCTATT-GTTTTT
37386127 TTCTTTTTCTATTGTTTTT
1 TTCTTTTTCTATTGTTTTT
37386146 CTTATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.08, C:0.10, G:0.05, T:0.77
Consensus pattern (19 bp):
TTCTTTTTCTATTGTTTTT
Found at i:37390657 original size:43 final size:44
Alignment explanation
Indices: 37390609--37390695 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 44
37390599 AGGGTAAACC
* * *
37390609 CAACAACCCATGTTTATCTTTTCCTCTTTTTAAATTC-TTTTTT
1 CAACAACCCAAGCTTATCTTCTCCTCTTTTTAAATTCATTTTTT
37390652 CAACAACCCAAGCTTATCTTCTCCTCTTTTTAAATTCATTTTTT
1 CAACAACCCAAGCTTATCTTCTCCTCTTTTTAAATTCATTTTTT
37390696 TTTTGCATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 34 0.85
44 6 0.15
ACGTcount: A:0.23, C:0.25, G:0.02, T:0.49
Consensus pattern (44 bp):
CAACAACCCAAGCTTATCTTCTCCTCTTTTTAAATTCATTTTTT
Found at i:37391001 original size:22 final size:22
Alignment explanation
Indices: 37390982--37391059 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
37390972 GACCCATGTT
* * *
37390982 TAACGAACTAAACCCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
37391004 TAACGTACTAAGCTCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
**
37391026 TAACGTACTAAGCTCTCATGTT
1 TAACGTACTAAGCTCTCATGGC
*
37391048 TCACGTACTAAG
1 TAACGTACTAAG
37391060 GAAACTATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (22 bp):
TAACGTACTAAGCTCTCATGGC
Found at i:37399922 original size:32 final size:31
Alignment explanation
Indices: 37399886--37399947 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
37399876 ATAAAGACTT
* *
37399886 TCTTTT-CTTTTTGCTTTTTTTTCTTCACAATC
1 TCTTTTCCTTTTT-CATTTCTTTC-TCACAATC
37399918 TCTTTTCCTTTTTCATTTCTTTCTCACAAT
1 TCTTTTCCTTTTTCATTTCTTTCTCACAAT
37399948 TCTCAACCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 7 0.26
32 14 0.52
33 6 0.22
ACGTcount: A:0.11, C:0.24, G:0.02, T:0.63
Consensus pattern (31 bp):
TCTTTTCCTTTTTCATTTCTTTCTCACAATC
Found at i:37400010 original size:10 final size:10
Alignment explanation
Indices: 37399997--37400037 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
37399987 TTTCCACTAT
37399997 TTTTTCTTTA
1 TTTTTCTTTA
37400007 TTTTTACTTTA
1 TTTTT-CTTTA
* *
37400018 ATTTTCTTTC
1 TTTTTCTTTA
37400028 TTTTTCTTTA
1 TTTTTCTTTA
37400038 GATTCTCTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:37400023 original size:21 final size:20
Alignment explanation
Indices: 37399998--37400037 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
37399988 TTCCACTATT
37399998 TTTTCTTTATTTTTACTTTAA
1 TTTTCTTTATTTTT-CTTTAA
*
37400019 TTTTCTTTCTTTTTCTTTA
1 TTTTCTTTATTTTTCTTTA
37400038 GATTCTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTCTTTATTTTTCTTTAA
Found at i:37400050 original size:21 final size:21
Alignment explanation
Indices: 37400007--37400051 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
37399997 TTTTTCTTTA
* *
37400007 TTTTTACTTTAATTTTCTTTC
1 TTTTTACTTTAATTCTCTCTC
37400028 TTTTT-CTTTAGATTCTCTCTC
1 TTTTTACTTTA-ATTCTCTCTC
37400049 TTT
1 TTT
37400052 CTTGTTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTTACTTTAATTCTCTCTC
Found at i:37402770 original size:21 final size:21
Alignment explanation
Indices: 37402746--37402795 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
37402736 TATCTAATGG
* *
37402746 TGTTCACACATGCCATAATCA
1 TGTTCACACATGACATAACCA
* *
37402767 TGTTCACACTTGACATTACCA
1 TGTTCACACATGACATAACCA
37402788 TGTTCACA
1 TGTTCACA
37402796 TTAAAGCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (21 bp):
TGTTCACACATGACATAACCA
Found at i:37405224 original size:25 final size:24
Alignment explanation
Indices: 37405188--37405235 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
37405178 TTTGATTATG
37405188 ATAAACATGATAAATGTGAGTGTGC
1 ATAAACATGAT-AATGTGAGTGTGC
*
37405213 ATAAACCA-GATAATGTGTGTGTG
1 ATAAA-CATGATAATGTGAGTGTG
37405236 ACATGGATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 8 0.38
26 2 0.10
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (24 bp):
ATAAACATGATAATGTGAGTGTGC
Found at i:37417023 original size:18 final size:18
Alignment explanation
Indices: 37417002--37417046 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
37416992 GATGATGATG
* *
37417002 ATGATGAGGATGAGGAGA
1 ATGAGGAGGAAGAGGAGA
*
37417020 ATGAGGAGGAAGAGGAGG
1 ATGAGGAGGAAGAGGAGA
*
37417038 AGGAGGAGG
1 ATGAGGAGG
37417047 TTACCCTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.53, T:0.09
Consensus pattern (18 bp):
ATGAGGAGGAAGAGGAGA
Found at i:37419886 original size:12 final size:12
Alignment explanation
Indices: 37419869--37419916 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
37419859 ATTTAACAAG
37419869 ATTTAATATTAA
1 ATTTAATATTAA
37419881 ATTTAATGA-TAA
1 ATTTAAT-ATTAA
37419893 ATATT-ATATT-A
1 AT-TTAATATTAA
37419904 ATTTAATATTAA
1 ATTTAATATTAA
37419916 A
1 A
37419917 AGTGATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 2 0.06
11 9 0.29
12 17 0.55
13 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:37424272 original size:23 final size:23
Alignment explanation
Indices: 37424221--37424365 Score: 107
Period size: 23 Copynumber: 6.2 Consensus size: 23
37424211 TAAAACTATC
* * *
37424221 ACCCACCAAACACAACTA-ATTT
1 ACCCTCCAAACACAACCATATAT
*
37424243 ACCCTCCAAACACAACCATATGT
1 ACCCTCCAAACACAACCATATAT
* *
37424266 ACCCTCCAAACATAACCAAATAT
1 ACCCTCCAAACACAACCATATAT
* *
37424289 ACCTTCCAAACAAAACCATATATATAT
1 ACCCTCCAAACACAACC----ATATAT
** ***
37424316 AAGCTTTGAACACAACCA-AGTAT
1 ACCCTCCAAACACAACCATA-TAT
37424339 ACCCTCCAAACACAACCA-ATAT
1 ACCCTCCAAACACAACCATATAT
37424361 ACCCT
1 ACCCT
37424366 TCAACATATC
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
22 25 0.26
23 56 0.58
27 15 0.16
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.19
Consensus pattern (23 bp):
ACCCTCCAAACACAACCATATAT
Found at i:37425834 original size:9 final size:9
Alignment explanation
Indices: 37425791--37425838 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
37425781 TTTTTAATTC
37425791 TAATTATTT
1 TAATTATTT
37425800 TAA-TATTT
1 TAATTATTT
*
37425808 TATTTA-TT
1 TAATTATTT
*
37425816 T-ATT-TCT
1 TAATTATTT
37425823 TAATTATTT
1 TAATTATTT
37425832 TAATTAT
1 TAATTAT
37425839 CTAACCCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
7 4 0.13
8 13 0.42
9 14 0.45
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TAATTATTT
Found at i:37426366 original size:20 final size:22
Alignment explanation
Indices: 37426341--37426387 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
37426331 AATTTTATTT
37426341 AAAAATTTGAA-T-AAAAATTA
1 AAAAATTTGAATTCAAAAATTA
*
37426361 AAAAATTTTAATTCCAAAAATTA
1 AAAAATTTGAATT-CAAAAATTA
37426384 AAAA
1 AAAA
37426388 TAAATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 1 0.04
23 12 0.52
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAAATTTGAATTCAAAAATTA
Found at i:37426504 original size:3 final size:3
Alignment explanation
Indices: 37426496--37426534 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
37426486 TTCTCTATTA
37426496 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
37426535 AGGGTCTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:37426721 original size:12 final size:12
Alignment explanation
Indices: 37426704--37426728 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37426694 GTTTTTGTAA
37426704 TTTTTTAAATTT
1 TTTTTTAAATTT
37426716 TTTTTTAAATTT
1 TTTTTTAAATTT
37426728 T
1 T
37426729 AAAAAGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTAAATTT
Found at i:37427730 original size:12 final size:12
Alignment explanation
Indices: 37427713--37427780 Score: 64
Period size: 12 Copynumber: 5.5 Consensus size: 12
37427703 AAAAAAATAT
37427713 AATATTTATTTA
1 AATATTTATTTA
*
37427725 AATATTTATATA
1 AATATTTATTTA
*
37427737 TAATATTAATTTA
1 -AATATTTATTTA
* *
37427750 CATATTTATATA
1 AATATTTATTTA
*
37427762 TAATATTAATTTA
1 -AATATTTATTTA
*
37427775 TATATT
1 AATATT
37427781 AATTAATTAC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
12 25 0.57
13 19 0.43
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (12 bp):
AATATTTATTTA
Found at i:37427741 original size:25 final size:25
Alignment explanation
Indices: 37427709--37427780 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
37427699 CCATAAAAAA
*
37427709 ATATAATATTTATTTAAATATTTAT
1 ATATAATATTAATTTAAATATTTAT
*
37427734 ATATAATATTAATTTACATATTTAT
1 ATATAATATTAATTTAAATATTTAT
*
37427759 ATATAATATTAATTTATATATT
1 ATATAATATTAATTTAAATATT
37427781 AATTAATTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (25 bp):
ATATAATATTAATTTAAATATTTAT
Found at i:37427773 original size:17 final size:16
Alignment explanation
Indices: 37427753--37427788 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
37427743 TAATTTACAT
37427753 ATTTATATATAATATTA
1 ATTTATATATAA-ATTA
*
37427770 ATTTATATATTAATTA
1 ATTTATATATAAATTA
37427786 ATT
1 ATT
37427789 ACTTCAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTATATATAAATTA
Found at i:37431314 original size:2 final size:2
Alignment explanation
Indices: 37431307--37431337 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37431297 TAGGACATTA
37431307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37431338 ACAAATTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37444019 original size:11 final size:9
Alignment explanation
Indices: 37443986--37444021 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
37443976 TCTTGAAAGG
37443986 AAAAGAAAA
1 AAAAGAAAA
37443995 AAAAGAAAA
1 AAAAGAAAA
37444004 AAAAGAGAAA
1 AAAAGA-AAA
37444014 TAAAAGAA
1 -AAAAGAA
37444022 TTCATGACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 15 0.60
10 4 0.16
11 6 0.24
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:37446639 original size:23 final size:24
Alignment explanation
Indices: 37446593--37446639 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
37446583 GATTTCCTAT
*
37446593 AAGGAGACATAAGGAAGGTGAGTG
1 AAGGAGAAATAAGGAAGGTGAGTG
*
37446617 AAGGAGAAATAA-GAGGGTGAGTG
1 AAGGAGAAATAAGGAAGGTGAGTG
37446640 GGAAAGGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.43, C:0.02, G:0.43, T:0.13
Consensus pattern (24 bp):
AAGGAGAAATAAGGAAGGTGAGTG
Found at i:37447239 original size:16 final size:15
Alignment explanation
Indices: 37447218--37447261 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
37447208 GTTTAAAGGT
*
37447218 TAATTAAGTAATTTGG
1 TAATTAAGTAA-ATGG
*
37447234 TAATTAAGTTAAATGT
1 TAATTAAG-TAAATGG
37447250 TAATTAAGTAAA
1 TAATTAAGTAAA
37447262 AGATGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 18 0.72
17 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (15 bp):
TAATTAAGTAAATGG
Found at i:37448117 original size:80 final size:80
Alignment explanation
Indices: 37448026--37448208 Score: 217
Period size: 80 Copynumber: 2.3 Consensus size: 80
37448016 GTATGATTGA
* *
37448026 ACTTACGTGCCCTTGATTGTTCTTCGGTACCCATGATTGCACTTACATG-TCC-CTGTTTGTACT
1 ACTTACGTGCCCTTGATTATACTTCGGTACCCATGATTGCACTT--ATGTTCCTCTGTTTGTACT
* *
37448089 TCGATACCCCTGATTAC
64 TCGATACCCCTAAATAC
* * * * *
37448106 ACTTACGTGCCCCTGTTTATACTTTGGTACCCTTGATTGCACTTATGTTCCTCTGTTTGTACTTT
1 ACTTACGTGCCCTTGATTATACTTCGGTACCCATGATTGCACTTATGTTCCTCTGTTTGTACTTC
* *
37448171 GGTACCCCTAAATGC
66 GATACCCCTAAATAC
* *
37448186 ACTTATGTGCCCTTGTTTATACT
1 ACTTACGTGCCCTTGATTATACT
37448209 CTAGTAACTC
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 3 0.03
79 3 0.03
80 82 0.93
ACGTcount: A:0.17, C:0.27, G:0.16, T:0.40
Consensus pattern (80 bp):
ACTTACGTGCCCTTGATTATACTTCGGTACCCATGATTGCACTTATGTTCCTCTGTTTGTACTTC
GATACCCCTAAATAC
Found at i:37448187 original size:40 final size:40
Alignment explanation
Indices: 37448019--37448208 Score: 182
Period size: 40 Copynumber: 4.8 Consensus size: 40
37448009 AATTATTGTA
* * * * * * *
37448019 TGATTGAACTTACGTGCCCTTGATTGTTCTTCGGTACCCA
1 TGATTGCACTTATGTGCCCCTGTTTGTACTTTGGTACCCC
** * * *
37448059 TGATTGCACTTACATGTCCCTGTTTGTACTTCGATACCCC
1 TGATTGCACTTATGTGCCCCTGTTTGTACTTTGGTACCCC
* * * *
37448099 TGATTACACTTACGTGCCCCTGTTTATACTTTGGTACCCT
1 TGATTGCACTTATGTGCCCCTGTTTGTACTTTGGTACCCC
* *
37448139 TGATTGCACTTATGTTCCTCTGTTTGTACTTTGGTACCCC
1 TGATTGCACTTATGTGCCCCTGTTTGTACTTTGGTACCCC
* * * *
37448179 TAAATGCACTTATGTGCCCTTGTTTATACT
1 TGATTGCACTTATGTGCCCCTGTTTGTACT
37448209 CTAGTAACTC
Statistics
Matches: 123, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.41
Consensus pattern (40 bp):
TGATTGCACTTATGTGCCCCTGTTTGTACTTTGGTACCCC
Found at i:37448222 original size:40 final size:40
Alignment explanation
Indices: 37448143--37448223 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
37448133 TACCCTTGAT
* * * * *
37448143 TGCACTTATGTTCCTCTGTTTGTACTTTGGTACCCCTAAA
1 TGCACTTATGTCCCTCTGTTTATACTCTAGTAACCCTAAA
*
37448183 TGCACTTATGTGCCCT-TGTTTATACTCTAGTAACTCTAAA
1 TGCACTTATGT-CCCTCTGTTTATACTCTAGTAACCCTAAA
37448223 T
1 T
37448224 CAAATAGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 31 0.91
41 3 0.09
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (40 bp):
TGCACTTATGTCCCTCTGTTTATACTCTAGTAACCCTAAA
Found at i:37448509 original size:19 final size:19
Alignment explanation
Indices: 37448485--37448522 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37448475 GAAGTTTATG
37448485 TTGAATTGGTAATTGCAAT
1 TTGAATTGGTAATTGCAAT
*
37448504 TTGAATTTGTAATTGCAAT
1 TTGAATTGGTAATTGCAAT
37448523 GTCTTACCAA
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:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGAATTGGTAATTGCAAT
Found at i:37449984 original size:50 final size:50
Alignment explanation
Indices: 37449923--37450021 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
37449913 TAGTCTGAGG
37449923 ATGTCGCGACACACCCTTGAAGACAACC-TGAAGATGAAACACACTGCCCT
1 ATGTCGCGACACACCCTTGAAGAC-ACCTTGAAGATGAAACACACTGCCCT
* * * * *
37449973 ATGTCGTGACACACCCTTTAAGACACCTTGAAGCTGAAGCATACTGCCC
1 ATGTCGCGACACACCCTTGAAGACACCTTGAAGATGAAACACACTGCCC
37450022 AGGATATCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 3 0.07
50 40 0.93
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.19
Consensus pattern (50 bp):
ATGTCGCGACACACCCTTGAAGACACCTTGAAGATGAAACACACTGCCCT
Found at i:37452101 original size:82 final size:82
Alignment explanation
Indices: 37451982--37452144 Score: 308
Period size: 82 Copynumber: 2.0 Consensus size: 82
37451972 TTCTTAAGTA
*
37451982 TATCTACTAACTATGTGAAGTGTTGTGGATAGGAAAGGAAAATATGCTTGTGATCTAATGAACAA
1 TATCTACTAACTATGTGAAGTGTTGTGGATAGGAAAGGAAAATATCCTTGTGATCTAATGAACAA
37452047 TGTTTGAATGATTTAAG
66 TGTTTGAATGATTTAAG
37452064 TATCTACTAACTATGTGAAGTGTTGTGGATAGGAAAGGAAAATATCCTTGTGATCTAATGAACAA
1 TATCTACTAACTATGTGAAGTGTTGTGGATAGGAAAGGAAAATATCCTTGTGATCTAATGAACAA
*
37452129 TTTTTGAATGATTTAA
66 TGTTTGAATGATTTAA
37452145 TCGTTTTATG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (82 bp):
TATCTACTAACTATGTGAAGTGTTGTGGATAGGAAAGGAAAATATCCTTGTGATCTAATGAACAA
TGTTTGAATGATTTAAG
Found at i:37453920 original size:23 final size:23
Alignment explanation
Indices: 37453887--37454044 Score: 145
Period size: 23 Copynumber: 6.8 Consensus size: 23
37453877 TCATGCATTT
* *
37453887 TAGTATCAAAATTAGTTTGGTAT
1 TAGTATCAAAATTAGTTCGGTAA
* * **
37453910 TAGTATAAAAAAATAGTTTTGTAA
1 TAGTAT-CAAAATTAGTTCGGTAA
* *
37453934 TAGTATCATAATCAGTTCGGTAA
1 TAGTATCAAAATTAGTTCGGTAA
* * * *
37453957 CAATATCAAAATCAGTTCGGTAG
1 TAGTATCAAAATTAGTTCGGTAA
* * * *
37453980 TAGTATGAAAATCAGTTTGATAA
1 TAGTATCAAAATTAGTTCGGTAA
*
37454003 TAGTATCAAAATTGGTTCGGTAA
1 TAGTATCAAAATTAGTTCGGTAA
*
37454026 CAGTATCAAAATTAGTTCG
1 TAGTATCAAAATTAGTTCG
37454045 ATAACAGTTT
Statistics
Matches: 107, Mismatches: 27, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
23 88 0.82
24 19 0.18
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGTATCAAAATTAGTTCGGTAA
Found at i:37453926 original size:24 final size:23
Alignment explanation
Indices: 37453886--37453939 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
37453876 TTCATGCATT
* *
37453886 TTAGTATCAAAATTAGTTTGGTA
1 TTAGTATAAAAAATAGTTTGGTA
*
37453909 TTAGTATAAAAAAATAGTTTTGTA
1 TTAGTAT-AAAAAATAGTTTGGTA
*
37453933 ATAGTAT
1 TTAGTAT
37453940 CATAATCAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.43
Consensus pattern (23 bp):
TTAGTATAAAAAATAGTTTGGTA
Found at i:37454009 original size:69 final size:69
Alignment explanation
Indices: 37453890--37454044 Score: 197
Period size: 69 Copynumber: 2.2 Consensus size: 69
37453880 TGCATTTTAG
* * *
37453890 TATCAAAATTAGTTTGGTATTAGTATAAAAAAATAGTTTTGTAATAGTATCATAATCAGTTCGGT
1 TATCAAAATTAGTTCGGTAGTAGTAT-AAAAAATAGTTTTGTAATAGTATCAAAATCAGTTCGGT
37453955 AACAA
65 AACAA
* * **
37453960 TATCAAAATCAGTTCGGTAGTAGTAT-GAAAATCAG-TTTGATAATAGTATCAAAATTGGTTCGG
1 TATCAAAATTAGTTCGGTAGTAGTATAAAAAAT-AGTTTTG-TAATAGTATCAAAATCAGTTCGG
*
37454023 TAACAG
64 TAACAA
37454029 TATCAAAATTAGTTCG
1 TATCAAAATTAGTTCG
37454045 ATAACAGTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
68 9 0.12
69 42 0.57
70 23 0.31
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (69 bp):
TATCAAAATTAGTTCGGTAGTAGTATAAAAAATAGTTTTGTAATAGTATCAAAATCAGTTCGGTA
ACAA
Found at i:37458927 original size:19 final size:18
Alignment explanation
Indices: 37458894--37458930 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
37458884 GTTATTGAGT
*
37458894 TCATATATGAAACATATA
1 TCATATATCAAACATATA
37458912 TCATATTATCAAACATATA
1 TCATA-TATCAAACATATA
37458931 CATGAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.35
Consensus pattern (18 bp):
TCATATATCAAACATATA
Found at i:37460092 original size:52 final size:52
Alignment explanation
Indices: 37460014--37460119 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
37460004 CAATAAAATT
*
37460014 ACCCTGAGTATCGATACTCATGATAGGGTATCGATACCAATTTACAATTCTA
1 ACCCTGAGTATCGATACTCATGATAGGGTATAGATACCAATTTACAATTCTA
* *
37460066 ACCCTGAGTATTGATACTCATGATAGGGTATAGATACCAATTTACGATTCTA
1 ACCCTGAGTATCGATACTCATGATAGGGTATAGATACCAATTTACAATTCTA
37460118 AC
1 AC
37460120 TTCCAGCGCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (52 bp):
ACCCTGAGTATCGATACTCATGATAGGGTATAGATACCAATTTACAATTCTA
Found at i:37460778 original size:39 final size:39
Alignment explanation
Indices: 37460735--37460910 Score: 228
Period size: 39 Copynumber: 4.5 Consensus size: 39
37460725 TTCACTTTTG
* * * *
37460735 AGCATACATCACATTACACATATAATCACATAACATTTA
1 AGCATATATCACAATACTCATATAATCACATAACATTCA
*
37460774 AGCATATATCACAATACTCATATAATTACAT-ACAGTTCA
1 AGCATATATCACAATACTCATATAATCACATAACA-TTCA
* * *
37460813 AGCACATATCGCAATACTCATATGATCACATAACATTCA
1 AGCATATATCACAATACTCATATAATCACATAACATTCA
* *
37460852 AGCATATATCGCAATACTTATATAATCACATAACATTCA
1 AGCATATATCACAATACTCATATAATCACATAACATTCA
* *
37460891 AGCATATGTCGCAATACTCA
1 AGCATATATCACAATACTCA
37460911 AAAACATGTT
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 3 0.02
39 115 0.95
40 3 0.02
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (39 bp):
AGCATATATCACAATACTCATATAATCACATAACATTCA
Found at i:37473435 original size:26 final size:26
Alignment explanation
Indices: 37473406--37473488 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 26
37473396 TAAGTAGTGC
*
37473406 TAAAATCGTCAAAATTTTATCAGGGG
1 TAAAATTGTCAAAATTTTATCAGGGG
*
37473432 TAAAATTGTCAAAATTTTATCGGGGG
1 TAAAATTGTCAAAATTTTATCAGGGG
* *
37473458 AAAAATTGTCAAAATTTTAT-TGGGG
1 TAAAATTGTCAAAATTTTATCAGGGG
37473483 TAAAAT
1 TAAAAT
37473489 AGGGATGAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
25 9 0.17
26 43 0.83
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (26 bp):
TAAAATTGTCAAAATTTTATCAGGGG
Found at i:37480778 original size:28 final size:28
Alignment explanation
Indices: 37480746--37480808 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
37480736 TACCCAAGTT
37480746 AGTCTTCAG-CAGACTTACC-TCCTAAAAG
1 AGTCTTCAGACAGAC-T-CCGTCCTAAAAG
*
37480774 AGTCTT-TGACAGACTCCGTTCCTAAAAG
1 AGTCTTCAGACAGACTCCG-TCCTAAAAG
37480802 AGTCTTC
1 AGTCTTC
37480809 GATGAAACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 2 0.07
27 2 0.07
28 26 0.87
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (28 bp):
AGTCTTCAGACAGACTCCGTCCTAAAAG
Found at i:37483891 original size:275 final size:274
Alignment explanation
Indices: 37483400--37484084 Score: 1045
Period size: 275 Copynumber: 2.5 Consensus size: 274
37483390 ACATAGATAA
37483400 AATTAATATATGAATTTGATTCATACTAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATAC-AAATATTAATTGTATATATTTTACCGAATTTATTAATA
37483465 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAAAAATATTCTTTTGGAA
65 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAAAAATATTCTTTTGGAA
* *
37483530 AGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATTGAGTTT
130 AGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTT
* *
37483595 ATTAATATAAATAGTTATATTAATTAATTTATGTCAAAATATAAAAGACATAGAAA-TTAATATT
195 ATTAATATAAACAGTTATATTAATTAATTTAGGTCAAAATATAAAAGACA-AGAAACTTAATATT
37483659 CTTTTCGA-AAGAATAT
259 CTTTTCGACAA-AATAT
* * *
37483675 AATTAATATATGATTTTG-TTCATACAAATTATTAATTGTATATATTTTAACTAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAA-TATTAATTGTATATATTTTACCGAATTTATTAATA
* * **
37483739 TAAACAGTTATATTAATTAATTTTTGTCAAAATATAAAATG-CATGGAAATTAATATTCTTTTGG
65 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAA-GACAT-GAAAAAAATATTCTTTTGG
* * *
37483803 AAAGAATATAATTAATATATGAATTTGGTTTATACAAAATATTACTTGTATATATTTTATCGAAT
128 AAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAAT
* * *
37483868 TTATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAGGACACGAAACTTAATAT
193 TTATTAATATAAACAGTTATATTAATTAATTTAGGTCAAAATATAAAAGACAAGAAACTTAATAT
*
37483933 TCTTTTGGACAAAATAT
258 TCTTTTCGACAAAATAT
* *
37483950 AATTAATATATGAATATGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATTAATA
1 AATTAATATATGAATTTGATTCATAC-AAATATTAATTGTATATATTTTACCGAATTTATTAATA
* *** *
37484015 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAGGACATGAAGATGGATATTATTTTGGA
65 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAA-AAAAATATTCTTTTGGA
37484080 AAGAA
129 AAGAA
37484085 AAAAAATTCA
Statistics
Matches: 372, Mismatches: 29, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
273 3 0.01
274 84 0.23
275 183 0.49
276 99 0.27
277 3 0.01
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.41
Consensus pattern (274 bp):
AATTAATATATGAATTTGATTCATACAAATATTAATTGTATATATTTTACCGAATTTATTAATAT
AAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAAAAATATTCTTTTGGAAA
GAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTA
TTAATATAAACAGTTATATTAATTAATTTAGGTCAAAATATAAAAGACAAGAAACTTAATATTCT
TTTCGACAAAATAT
Found at i:37483898 original size:138 final size:137
Alignment explanation
Indices: 37483400--37484084 Score: 1036
Period size: 138 Copynumber: 5.0 Consensus size: 137
37483390 ACATAGATAA
*
37483400 AATTAATATATGAATTTGATTCATACTAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
**
37483465 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAAAAATATTCTTTTGGAA
66 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAATTAATATTCTTTTGGAA
37483530 AGAATAT
131 AGAATAT
** *
37483537 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATTGAGTTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
*
37483602 TAAATAGTTATATTAATTAATTTAT-GTCAAAATATAAAAGACATAGAAATTAATATTCTTTTCG
66 TAAATAGTTATATTAATTAATTT-TGGTCAAAATATAAAAGACAT-GAAATTAATATTCTTTTGG
37483666 AAAGAATAT
129 AAAGAATAT
* * * *
37483675 AATTAATATATGATTTTG-TTCATACAAATTATTAATTGTATATATTTTAACTAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* *
37483739 TAAACAGTTATATTAATTAATTTTTGTCAAAATATAAAATG-CATGGAAATTAATATTCTTTTGG
66 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAA-GACAT-GAAATTAATATTCTTTTGG
37483803 AAAGAATAT
129 AAAGAATAT
* * * *
37483812 AATTAATATATGAATTTGGTTTATACAAAATATTACTTGTATATATTTTATCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * * *
37483877 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAGGACACGAAACTTAATATTCTTTTGGA
66 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAA-TTAATATTCTTTTGGA
37483942 CAA-AATAT
130 -AAGAATAT
* *
37483950 AATTAATATATGAATATGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* ** *
37484015 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAGGACATGAAGATGGATATTATTTTGGA
66 TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAA-ATTAATATTCTTTTGGA
37484080 AAGAA
130 AAGAA
37484085 AAAAAATTCA
Statistics
Matches: 500, Mismatches: 38, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
136 1 0.00
137 234 0.47
138 262 0.52
139 3 0.01
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.41
Consensus pattern (137 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
TAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAATTAATATTCTTTTGGAA
AGAATAT
Found at i:37486202 original size:18 final size:19
Alignment explanation
Indices: 37486181--37486230 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
37486171 TCGCAAGGAC
*
37486181 AAGGGCAAAGG-AAAGGCT
1 AAGGGCAAAGGCAAAGCCT
*
37486199 AA-GGCTAAGGCAAAGCCT
1 AAGGGCAAAGGCAAAGCCT
* *
37486217 AAGGACAATGGCAA
1 AAGGGCAAAGGCAA
37486231 CGCCAAGCCC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 7 0.28
18 10 0.40
19 8 0.32
ACGTcount: A:0.44, C:0.16, G:0.32, T:0.08
Consensus pattern (19 bp):
AAGGGCAAAGGCAAAGCCT
Found at i:37490785 original size:136 final size:137
Alignment explanation
Indices: 37490539--37490821 Score: 433
Period size: 136 Copynumber: 2.1 Consensus size: 137
37490529 ACATAGATAA
* * * * *
37490539 AATTAATATATGAATTTGATTCATACGAAGTATTATTTGGATATATTTTACAAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATACTAATT-GATATATATTACAAAATTTATTAATA
* * *
37490604 TAAATAGTTATATTAATTTATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTTTGA
65 TAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTTAGA
37490669 AAGAATAT
130 AAGAATAT
*
37490677 AATTAATATATGAATTTGATTCATACAAAATACTAATT-ATATATATTACCAAATTTATTAATAT
1 AATTAATATATGAATTTGATTCATACAAAATACTAATTGATATATATTACAAAATTTATTAATAT
* * *
37490741 AAACAGTTATATTAATTAATTTTGGTCAAAATATAAAATACATGGAAATTAATATTCTTTTAGAA
66 AAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAA
37490806 AGAATAT
131 AGAATAT
*
37490813 AATTCATAT
1 AATTAATAT
37490822 TTTGTAGCTT
Statistics
Matches: 132, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
136 98 0.74
138 34 0.26
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (137 bp):
AATTAATATATGAATTTGATTCATACAAAATACTAATTGATATATATTACAAAATTTATTAATAT
AAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAA
AGAATAT
Found at i:37492221 original size:29 final size:29
Alignment explanation
Indices: 37492179--37492277 Score: 144
Period size: 29 Copynumber: 3.4 Consensus size: 29
37492169 TGATCGTCCA
* *
37492179 ATGAAAAGCGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCAACTATCGAAT
*
37492208 ATGAAAAGGGATAGCTTCAACTATCGAAA
1 ATGAAAAGGGATAGCTTCAACTATCGAAT
* * *
37492237 ATGAAAAGGGATAGCTTCAATTGTCGATT
1 ATGAAAAGGGATAGCTTCAACTATCGAAT
37492266 ATGAAAAGGGAT
1 ATGAAAAGGGAT
37492278 GGTAACGATC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCAACTATCGAAT
Found at i:37492457 original size:29 final size:29
Alignment explanation
Indices: 37492201--37492467 Score: 134
Period size: 29 Copynumber: 9.1 Consensus size: 29
37492191 AGCTTCAGCT
* *
37492201 ATCGAATATGAAAAGGGATAGCTT-CAACT
1 ATCGAATATGAAAAGGGAT-GGTTACAACC
* * **
37492230 ATCGAAAATGAAAAGGGATAGCTT-CAATT
1 ATCGAATATGAAAAGGGAT-GGTTACAACC
* * * * *
37492259 GTCGATTATGAAAAGGGATGGTAACGATC
1 ATCGAATATGAAAAGGGATGGTTACAACC
* * *
37492288 ATC-AACTAGGAAAAGGGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTTACAACC
* ** *
37492317 ATCGAATATGAAAAGGGATAGCTT-CTGCT
1 ATCGAATATGAAAAGGGAT-GGTTACAACC
* *** * * *
37492346 ATC-AATTATAAAAAAATAATAGTGACGACC
1 ATCGAA-TAT-GAAAAGGGATGGTTACAACC
* *
37492376 ATCG-ATAATGAAAAGGGATGGTGAGAACC
1 ATCGAAT-ATGAAAAGGGATGGTTACAACC
* *
37492405 ATC-AAGTAATGAAAAGGAATGGTTTCAACC
1 ATCGAA-T-ATGAAAAGGGATGGTTACAACC
*
37492435 ATCGAATATGAAAAGGGATGGTTCCAACC
1 ATCGAATATGAAAAGGGATGGTTACAACC
37492464 ATCG
1 ATCG
37492468 TTTAGCACAC
Statistics
Matches: 183, Mismatches: 43, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
28 5 0.03
29 134 0.73
30 42 0.23
31 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTTACAACC
Found at i:37495785 original size:24 final size:24
Alignment explanation
Indices: 37495753--37495802 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
37495743 CAGAAGTTAG
37495753 TCTGCATCTGGCTTTCACGTTGGA
1 TCTGCATCTGGCTTTCACGTTGGA
37495777 TCTGCATCTGGCTTTCACGTTGGA
1 TCTGCATCTGGCTTTCACGTTGGA
37495801 TC
1 TC
37495803 ACCCATGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (24 bp):
TCTGCATCTGGCTTTCACGTTGGA
Found at i:37498150 original size:26 final size:26
Alignment explanation
Indices: 37498096--37498172 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 26
37498086 AAACCAATAT
* * * * *
37498096 CGCAGCAAAGCTGCCAGTAATAATGA
1 CGCAACAAAGCTACCAGTAACAGTAA
* *
37498122 CGCAATAAAGCTACTAGTAACAGTAA
1 CGCAACAAAGCTACCAGTAACAGTAA
* *
37498148 CGCAACAAAGTTTCCAGTAACAGTA
1 CGCAACAAAGCTACCAGTAACAGTA
37498173 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (26 bp):
CGCAACAAAGCTACCAGTAACAGTAA
Found at i:37498403 original size:27 final size:27
Alignment explanation
Indices: 37498363--37498795 Score: 482
Period size: 27 Copynumber: 16.1 Consensus size: 27
37498353 TTACCCTATG
* *
37498363 GGGTATTTCGGTCATTTTACCCTTTAA
1 GGGTATTTCAGTCATTTTACCCTTCAA
* *
37498390 GGGTATTTCAGTCATTTTACCCTGCGA
1 GGGTATTTCAGTCATTTTACCCTTCAA
* * **
37498417 GGGGATTTCGGTCATTTTACCCTTCGG
1 GGGTATTTCAGTCATTTTACCCTTCAA
**
37498444 GGGTATTTTGGTCATTTTACCCTTCAA
1 GGGTATTTCAGTCATTTTACCCTTCAA
37498471 GGGTATTTC-GATCATTTTACCCTTCAA
1 GGGTATTTCAG-TCATTTTACCCTTCAA
* *
37498498 GGGTTTTTC-GATCATTTTA-CCTTCGA
1 GGGTATTTCAG-TCATTTTACCCTTCAA
* * *
37498524 GGGCATTTCAATCATTTTACCCTTTAA
1 GGGTATTTCAGTCATTTTACCCTTCAA
37498551 GGGTATTTCAGTCATTTTACCCTTCAA
1 GGGTATTTCAGTCATTTTACCCTTCAA
* *
37498578 GGGCATTT-TGTTCATTTTACCCTTCAA
1 GGGTATTTCAG-TCATTTTACCCTTCAA
* * * **
37498605 GGGCATTTCGGTTATTTTACCCTTTGA
1 GGGTATTTCAGTCATTTTACCCTTCAA
** *
37498632 GGGTATTTTGGTCATTTTACCCTTTAA
1 GGGTATTTCAGTCATTTTACCCTTCAA
* *
37498659 GGGTATTTTAGTCATTTTACCCTTCGA
1 GGGTATTTCAGTCATTTTACCCTTCAA
*
37498686 GGGTATTTC-GATCATTTTACCCTTCGA
1 GGGTATTTCAG-TCATTTTACCCTTCAA
*
37498713 GGGTATTTC-GATCATTTTACCCTTCCA
1 GGGTATTTCAG-TCATTTTACCCTTCAA
* *
37498740 GGGCATTTCAGTAATTTTACCCTTCAA
1 GGGTATTTCAGTCATTTTACCCTTCAA
* *
37498767 GGGCATTTCTGTCATTTTACCCTTCAA
1 GGGTATTTCAGTCATTTTACCCTTCAA
37498794 GG
1 GG
37498796 CATTTTGGTC
Statistics
Matches: 356, Mismatches: 43, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
26 24 0.07
27 330 0.93
28 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (27 bp):
GGGTATTTCAGTCATTTTACCCTTCAA
Found at i:37498431 original size:54 final size:54
Alignment explanation
Indices: 37498349--37498810 Score: 531
Period size: 54 Copynumber: 8.6 Consensus size: 54
37498339 GTATAACAGC
*
37498349 CATTTTACCCTAT-G-GGGTATTTCGGTCATTTTACCCTTTAAGGGTATTTCAGT
1 CATTTTACCCT-TCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGT
* * ** **
37498402 CATTTTACCCTGCGAGGGGATTTCGGTCATTTTACCCTTCGGGGGTATTTTGGT
1 CATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGT
* * *
37498456 CATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCAAGGGTTTTTC-GAT
1 CATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAG-T
* ** *
37498510 CATTTTA-CCTTCGAGGGCATTTCAATCATTTTACCCTTTAAGGGTATTTCAGT
1 CATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGT
* * * * * *
37498563 CATTTTACCCTTCAAGGGCATTTTGTTCATTTTACCCTTCAAGGGCATTTCGGT
1 CATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGT
* * * * *
37498617 TATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTTAAGGGTATTTTAGT
1 CATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGT
* *
37498671 CATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTC-GAT
1 CATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAG-T
* * * * * *
37498725 CATTTTACCCTTCCAGGGCATTTCAGTAATTTTACCCTTCAAGGGCATTTCTGT
1 CATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGT
* * *
37498779 CATTTTACCCTTC-AAGGCATTTTGGTCATTTT
1 CATTTTACCCTTCGAGGGTATTTCGGTCATTTT
37498811 CCCATGAATC
Statistics
Matches: 348, Mismatches: 54, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
53 75 0.22
54 272 0.78
55 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (54 bp):
CATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGT
Found at i:37509282 original size:21 final size:21
Alignment explanation
Indices: 37509256--37509299 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
37509246 GAAGTATAAA
*
37509256 CAGGGGCACGTATGTGTAATT
1 CAGGGGCACGTATGTGCAATT
*
37509277 CAGGGGCACGTATTTGCAATT
1 CAGGGGCACGTATGTGCAATT
37509298 CA
1 CA
37509300 AAGGTACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (21 bp):
CAGGGGCACGTATGTGCAATT
Found at i:37511183 original size:12 final size:12
Alignment explanation
Indices: 37511166--37511193 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
37511156 TTCGATCATG
37511166 TGTGTAGTACTA
1 TGTGTAGTACTA
37511178 TGTGTAGTACTA
1 TGTGTAGTACTA
37511190 TGTG
1 TGTG
37511194 AAGGCTACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (12 bp):
TGTGTAGTACTA
Found at i:37524767 original size:18 final size:17
Alignment explanation
Indices: 37524738--37524771 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
37524728 ACAAAAACTC
37524738 TATTTTATTTTATTATA
1 TATTTTATTTTATTATA
37524755 TATTTTAATTTTATTAT
1 TATTTT-ATTTTATTAT
37524772 GCACACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTATTTTATTATA
Found at i:37533069 original size:46 final size:46
Alignment explanation
Indices: 37532953--37533163 Score: 228
Period size: 46 Copynumber: 4.6 Consensus size: 46
37532943 GGGCGTTACA
* * *
37532953 TGGTCACCCGTTAGGGTTGAACCTACATGAATCAAATAATAGTGCT
1 TGGTCACCCGTTAGGGTTGAACCTACACGAATCGAATAATAGTGCC
** *
37532999 TGACCA-CC-TATAGGGTTGAACCTACACGAATCGGATAATAGTGCC
1 TGGTCACCCGT-TAGGGTTGAACCTACACGAATCGAATAATAGTGCC
* * *
37533044 TGGTCACCCGTTAGGGTTGAACCTACACAAATCGGATAATAGTGTC
1 TGGTCACCCGTTAGGGTTGAACCTACACGAATCGAATAATAGTGCC
* ** * * *
37533090 TAGTCATTCGTTAGGGTTGAACATACATGAATCGAACAATAGTGCC
1 TGGTCACCCGTTAGGGTTGAACCTACACGAATCGAATAATAGTGCC
* * * *
37533136 TGGTCACTCATTTGGGATGAACCTACAC
1 TGGTCACCCGTTAGGGTTGAACCTACAC
37533164 AACAAATAGC
Statistics
Matches: 136, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
44 1 0.01
45 37 0.27
46 97 0.71
47 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (46 bp):
TGGTCACCCGTTAGGGTTGAACCTACACGAATCGAATAATAGTGCC
Found at i:37562939 original size:30 final size:30
Alignment explanation
Indices: 37562905--37562968 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
37562895 TTAATTTCTG
*
37562905 AGTTTTGGGGCAAAAGTGTAAATATGCAAA
1 AGTTTTAGGGCAAAAGTGTAAATATGCAAA
* * * *
37562935 AG-TTTAGGGCAAAATTGTAATTTTGCCAA
1 AGTTTTAGGGCAAAAGTGTAAATATGCAAA
37562964 AGTTT
1 AGTTT
37562969 GAGTCAAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (30 bp):
AGTTTTAGGGCAAAAGTGTAAATATGCAAA
Found at i:37562945 original size:29 final size:29
Alignment explanation
Indices: 37562912--37562968 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
37562902 CTGAGTTTTG
37562912 GGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTA
* * * *
37562941 GGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
37562969 GAGTCAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (29 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:37568009 original size:27 final size:26
Alignment explanation
Indices: 37567942--37568010 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
37567932 ACACGTTAGA
*
37567942 AAAGAAAGCCTTTGTGGAAAACCATG
1 AAAGAAAGCCTTTGTGAAAAACCATG
*
37567968 AAAAAAAGCCTTTGTGAAAAACCATG
1 AAAGAAAGCCTTTGTGAAAAACCATG
**
37567994 TAGTGAAAGCCTTTGTG
1 -AAAGAAAGCCTTTGTG
37568011 GCAACATCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 24 0.65
27 13 0.35
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (26 bp):
AAAGAAAGCCTTTGTGAAAAACCATG
Found at i:37568099 original size:27 final size:27
Alignment explanation
Indices: 37568069--37568135 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
37568059 CTCTATTGTA
* * * *
37568069 AACTCTAAAGGAATGGTATTCATGGTG
1 AACTCTGAAGGAACGGTATGCATGGCG
37568096 AACTCTGAAGGAACGGTATGCATGGCG
1 AACTCTGAAGGAACGGTATGCATGGCG
*
37568123 AACTATGAAGGAA
1 AACTCTGAAGGAA
37568136 ATACCCTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.22
Consensus pattern (27 bp):
AACTCTGAAGGAACGGTATGCATGGCG
Found at i:37568498 original size:15 final size:17
Alignment explanation
Indices: 37568478--37568511 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
37568468 ATGAGTTAGA
37568478 AATGAAGTC-T-GATGG
1 AATGAAGTCATCGATGG
37568493 AATGAAGTCATCGATGG
1 AATGAAGTCATCGATGG
37568510 AA
1 AA
37568512 CTATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24
Consensus pattern (17 bp):
AATGAAGTCATCGATGG
Found at i:37572344 original size:16 final size:16
Alignment explanation
Indices: 37572323--37572353 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37572313 GTTTTGTTGC
*
37572323 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
37572339 TAATTTCACTTTTTC
1 TAATTTCACTTTTTC
37572354 GCTTTCAATC
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:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:37572643 original size:51 final size:51
Alignment explanation
Indices: 37572572--37572772 Score: 221
Period size: 51 Copynumber: 4.0 Consensus size: 51
37572562 ATTAATGATA
* * *
37572572 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* * *
37572623 CCGATACACGTAGCAGCCTGCACATAGTACTACACACGTGATCGA--ATCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * * * *
37572674 CCGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACTTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC-CATCACTAT
* *
37572724 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACATGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
37572773 TTCACTTTCA
Statistics
Matches: 122, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 76 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:37572798 original size:101 final size:102
Alignment explanation
Indices: 37572572--37572764 Score: 273
Period size: 102 Copynumber: 1.9 Consensus size: 102
37572562 ATTAATGATA
* *
37572572 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGC
1 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGC
* *
37572637 AGCCTGCACATAGTACTACACACGTGATCGAATCTAT
66 AGCCTGCACATAGTACTACACACATGATCCAATCTAT
* * * * *
37572674 CCGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACTTATCA-T-TCTGGTACACGTAG
1 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGCGAC-CATCACTATCCGATACACGTAG
*
37572737 TAGCCTGCACATAGTACTACACACATGA
65 CAGCCTGCACATAGTACTACACACATGA
37572765 CCATCACTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 38 0.47
102 39 0.48
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGC
AGCCTGCACATAGTACTACACACATGATCCAATCTAT
Found at i:37575282 original size:18 final size:18
Alignment explanation
Indices: 37575259--37575298 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
37575249 ATATGAGCAA
37575259 AATATTTTATAAATATCC
1 AATATTTTATAAATATCC
*
37575277 AATATTTTATAAATCTCC
1 AATATTTTATAAATATCC
37575295 AATA
1 AATA
37575299 ACATTCGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATTTTATAAATATCC
Found at i:37585054 original size:29 final size:29
Alignment explanation
Indices: 37585012--37585204 Score: 130
Period size: 29 Copynumber: 6.7 Consensus size: 29
37585002 TATTGGGGAT
37585012 TATCGAATATGAAAAGGGATAGCTTCGGC
1 TATCGAATATGAAAAGGGATAGCTTCGGC
* * **
37585041 TATCGACTATGAAAAGGAATAATTTCGGC
1 TATCGAATATGAAAAGGGATAGCTTCGGC
* * *
37585070 TATCAAATATGAAAAGAGATAGCTTCAGC
1 TATCGAATATGAAAAGGGATAGCTTCGGC
* *
37585099 TATCG-ATCATGAAAA-GGAT-GGTGAT-GAC
1 TATCGAAT-ATGAAAAGGGATAGCT--TCGGC
* * * * *
37585127 CATC-AACTATGAAAAGGAAT-GGTGACGAC
1 TATCGAA-TATGAAAAGGGATAGCT-TCGGC
* *
37585156 TATCGAATATAAAAAGGAATAGCTTCGGC
1 TATCGAATATGAAAAGGGATAGCTTCGGC
*
37585185 TATCG-ATCATGAAAACGGAT
1 TATCGAAT-ATGAAAAGGGAT
37585205 GGTGACGACC
Statistics
Matches: 126, Mismatches: 28, Indels: 20
0.72 0.16 0.11
Matches are distributed among these distances:
27 2 0.02
28 19 0.15
29 101 0.80
30 4 0.03
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
TATCGAATATGAAAAGGGATAGCTTCGGC
Found at i:37585146 original size:86 final size:87
Alignment explanation
Indices: 37585046--37585230 Score: 257
Period size: 86 Copynumber: 2.1 Consensus size: 87
37585036 TCGGCTATCG
** * *
37585046 ACTATGAAAAGGAATAATTTCGGCTATCAAATATGAAAA-GAGATAGCTTCAGCTATCGATCATG
1 ACTATGAAAAGGAATAATGACGACTATCAAATATAAAAAGGA-ATAGCTTCAGCTATCGATCATG
*
37585110 AAAA-GGATGGTGATGACCATCA
65 AAAACGGATGGTGACGACCATCA
** * *
37585132 ACTATGAAAAGGAATGGTGACGACTATCGAATATAAAAAGGAATAGCTTCGGCTATCGATCATGA
1 ACTATGAAAAGGAATAATGACGACTATCAAATATAAAAAGGAATAGCTTCAGCTATCGATCATGA
*
37585197 AAACGGATGGTGACGACCATTA
66 AAACGGATGGTGACGACCATCA
37585219 ACTATGAAAAGG
1 ACTATGAAAAGG
37585231 GATGGTGACG
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
86 57 0.66
87 30 0.34
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (87 bp):
ACTATGAAAAGGAATAATGACGACTATCAAATATAAAAAGGAATAGCTTCAGCTATCGATCATGA
AAACGGATGGTGACGACCATCA
Found at i:37585248 original size:87 final size:86
Alignment explanation
Indices: 37585075--37585248 Score: 269
Period size: 87 Copynumber: 2.0 Consensus size: 86
37585065 TCGGCTATCA
* *
37585075 AATATGAAAAGAGATAGCTTCAGCTATCGATCATGAAAAGGATGGTGATGACCATCAACTATGAA
1 AATATAAAAAGAGATAGCTTCAGCTATCGATCATGAAAAGGATGGTGACGACCATCAACTATGAA
*
37585140 AAGGAATGGTGACGACTATCG
66 AAGGAATGGTGACGACCATCG
* *
37585161 AATATAAAAAG-GAATAGCTTCGGCTATCGATCATGAAAACGGATGGTGACGACCATTAACTATG
1 AATATAAAAAGAG-ATAGCTTCAGCTATCGATCATGAAAA-GGATGGTGACGACCATCAACTATG
*
37585225 AAAAGGGATGGTGACGACCATCG
64 AAAAGGAATGGTGACGACCATCG
37585248 A
1 A
37585249 TTAATGAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
85 1 0.01
86 35 0.44
87 44 0.55
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (86 bp):
AATATAAAAAGAGATAGCTTCAGCTATCGATCATGAAAAGGATGGTGACGACCATCAACTATGAA
AAGGAATGGTGACGACCATCG
Found at i:37585296 original size:29 final size:29
Alignment explanation
Indices: 37585107--37585306 Score: 151
Period size: 29 Copynumber: 6.9 Consensus size: 29
37585097 GCTATCGATC
* *
37585107 ATGAAAA-GGATGGTGATGACCATC-AACT
1 ATGAAAAGGGATGGTTACGACCATCGAA-T
* * *
37585135 ATGAAAAGGAATGGTGACGACTATCGAAT
1 ATGAAAAGGGATGGTTACGACCATCGAAT
* * * * *
37585164 ATAAAAAGGAATAGCTT-CGGCTATCG-AT
1 ATGAAAAGGGAT-GGTTACGACCATCGAAT
* * *
37585192 CATGAAAACGGATGGTGACGACCAT-TAACT
1 -ATGAAAAGGGATGGTTACGACCATCGAA-T
* *
37585222 ATGAAAAGGGATGGTGACGACCATCGATT
1 ATGAAAAGGGATGGTTACGACCATCGAAT
*
37585251 AATGAAAAGGGATGGTTTCGACCATCGAAT
1 -ATGAAAAGGGATGGTTACGACCATCGAAT
*
37585281 ATGAAAAGGGACGGTTAC-AGCCATCG
1 ATGAAAAGGGATGGTTACGA-CCATCG
37585307 TTTAACATAC
Statistics
Matches: 139, Mismatches: 23, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
28 12 0.09
29 95 0.68
30 32 0.23
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.21
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTACGACCATCGAAT
Found at i:37594009 original size:20 final size:19
Alignment explanation
Indices: 37593982--37594023 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
37593972 CTTTCCAAAT
37593982 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
37594001 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
37594021 TTT
1 TTT
37594024 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:37594835 original size:25 final size:25
Alignment explanation
Indices: 37594784--37594861 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
37594774 GAATTAGTAT
*
37594784 GCTCTTATGAG-T-TGTAATCGGTAA
1 GCTCATATGAGCTGTGTAA-CGGTAA
37594808 GCTCATATGAGCTGTGTAACGGTAA
1 GCTCATATGAGCTGTGTAACGGTAA
** ** *
37594833 GCTCATGCGAGCTGAATATCGGTAA
1 GCTCATATGAGCTGTGTAACGGTAA
37594858 GCTC
1 GCTC
37594862 TCTCGAGCTG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 10 0.22
25 31 0.67
26 5 0.11
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (25 bp):
GCTCATATGAGCTGTGTAACGGTAA
Found at i:37594868 original size:25 final size:26
Alignment explanation
Indices: 37594800--37594907 Score: 100
Period size: 25 Copynumber: 4.3 Consensus size: 26
37594790 ATGAGTTGTA
* **
37594800 ATCGGTAAGCTCATAT-GAGCTGTGT
1 ATCGGTAAGCTCATCTCGAGCTGAAT
* *
37594825 AACGGTAAGCTCAT-GCGAGCTGAAT
1 ATCGGTAAGCTCATCTCGAGCTGAAT
37594850 ATCGGTAAGCTC-TCTCGAGCTGAAT
1 ATCGGTAAGCTCATCTCGAGCTGAAT
** *
37594875 ATCATTAAGCT-TTCTCGAGCTGAGA-
1 ATCGGTAAGCTCATCTCGAGCTGA-AT
37594900 ATCGGTAA
1 ATCGGTAA
37594908 CCTTAATGAC
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
24 1 0.01
25 67 0.97
26 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
ATCGGTAAGCTCATCTCGAGCTGAAT
Found at i:37602524 original size:16 final size:17
Alignment explanation
Indices: 37602497--37602530 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
37602487 TCTATTAACT
37602497 TTAAACCCAAAATTGAC
1 TTAAACCCAAAATTGAC
37602514 TTAAA-CCAAAATTGAC
1 TTAAACCCAAAATTGAC
37602530 T
1 T
37602531 AAAATACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (17 bp):
TTAAACCCAAAATTGAC
Found at i:37603866 original size:30 final size:28
Alignment explanation
Indices: 37603796--37603868 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 28
37603786 TGTATTTTGT
* *
37603796 TTTTTTAATTTAATAAATGGATAAATTAG
1 TTTTTT-ATTAAATAAATGAATAAATTAG
37603825 TTTTGTATATTAAATAAATGAATAAATTAG
1 TTTT-T-TATTAAATAAATGAATAAATTAG
37603855 TAATTTTTATTAAA
1 T--TTTTTATTAAA
37603869 AATTTTATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 4 0.11
30 29 0.76
31 2 0.05
32 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (28 bp):
TTTTTTATTAAATAAATGAATAAATTAG
Found at i:37604671 original size:7 final size:8
Alignment explanation
Indices: 37604647--37604687 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
37604637 TAGTTTGCAC
37604647 TTTAAAAT
1 TTTAAAAT
37604655 TTTAAAAT
1 TTTAAAAT
*
37604663 TTTAAATT
1 TTTAAAAT
37604671 TTTAAAAAAT
1 TTT--AAAAT
37604681 TTTAAAA
1 TTTAAAA
37604688 AAAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 22 0.76
10 7 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
TTTAAAAT
Found at i:37604746 original size:31 final size:29
Alignment explanation
Indices: 37604709--37604779 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
37604699 GTTCAAAATT
37604709 TTATACTTTTAAAGTTTTTAAAATATTTTAA
1 TTATACTTTTAAA-TTTTTAAAA-ATTTTAA
* *
37604740 TTATACTCTTTTTAATTTTTGAAAATTTTAA
1 TTATA--CTTTTAAATTTTTAAAAATTTTAA
*
37604771 TTAAACTTT
1 TTATACTTT
37604780 CTTAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 4 0.11
31 16 0.46
32 8 0.23
33 7 0.20
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (29 bp):
TTATACTTTTAAATTTTTAAAAATTTTAA
Found at i:37606160 original size:6 final size:6
Alignment explanation
Indices: 37606149--37606199 Score: 65
Period size: 6 Copynumber: 9.2 Consensus size: 6
37606139 AAAAATGTCG
*
37606149 TCTTTT TC-TTT TC--TT TCCTTT TC-TTT TCTTTT TCTTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
37606193 TCTTTT T
1 TCTTTT T
37606200 GTTAGGCAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.10
5 10 0.24
6 28 0.67
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:37606162 original size:5 final size:5
Alignment explanation
Indices: 37606152--37606198 Score: 58
Period size: 5 Copynumber: 8.8 Consensus size: 5
37606142 AATGTCGTCT
*
37606152 TTTTC TTTTC TTTCC TTTTC TTTTC TTTTTC TTTTTC TTTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC -TTTTC -TTTTC TTTT
37606199 TGTTAGGCAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 22 0.56
6 17 0.44
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:37606176 original size:11 final size:11
Alignment explanation
Indices: 37606149--37606198 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
37606139 AAAAATGTCG
*
37606149 TCTTTTTCTTT
1 TCTTTTCCTTT
37606160 TC-TTTCCTTT
1 TCTTTTCCTTT
*
37606170 TCTTTTCTTTT
1 TCTTTTCCTTT
*
37606181 TCTTTTTCTTTT
1 TC-TTTTCCTTT
37606193 TCTTTT
1 TCTTTT
37606199 TGTTAGGCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 9 0.26
11 15 0.43
12 11 0.31
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTTCCTTT
Found at i:37606818 original size:129 final size:130
Alignment explanation
Indices: 37606661--37606911 Score: 334
Period size: 133 Copynumber: 1.9 Consensus size: 130
37606651 TTTGTTCAAT
* * *
37606661 ACCAGATTTGCCTTTATTCCCAGTGAAGC-AG-AG-A-A-ATATATAGAATACATA-TAGATATT
1 ACCAGATTTGCCTTTACTCCCAGTGAAGCAAGTAGTACACATA-ATA-AATACACATTAGATA-C
37606720 ATATATAAAAACTAATGGAACATTCATCAATATCCATGCTCACTAGTCATCATAATTGACTTAGT
63 ATATATAAAAACTAATGGAACATTCATC-A-ATCCATGCTCACTAGTCATCATAATTGACTTAGT
37606785 TTCAC
126 TTCAC
* *
37606790 ACCAGATTTGCCTTTACTCCTAGTGAAGCATAGTAGTACACATAATACATACACATTAGATACAT
1 ACCAGATTTGCCTTTACTCCCAGTGAAGCA-AGTAGTACACATAATAAATACACATTAGATACAT
* * *
37606855 ATATAAAACCTAATGGAACATTCATCAATCCGTGCTCACTAGTTATCATAATTGACT
65 ATATAAAAACTAATGGAACATTCATCAATCCATGCTCACTAGTCATCATAATTGACT
37606912 GATTAATTAA
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
129 27 0.25
131 30 0.28
132 3 0.03
133 34 0.32
134 10 0.09
135 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (130 bp):
ACCAGATTTGCCTTTACTCCCAGTGAAGCAAGTAGTACACATAATAAATACACATTAGATACATA
TATAAAAACTAATGGAACATTCATCAATCCATGCTCACTAGTCATCATAATTGACTTAGTTTCAC
Found at i:37609385 original size:18 final size:17
Alignment explanation
Indices: 37609353--37609387 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37609343 CATTTTGTAC
*
37609353 TATTTATATTATTGAAT
1 TATTTATAATATTGAAT
37609370 TATTTAATAATATTGAAT
1 TATTT-ATAATATTGAAT
37609388 CTTTATCATT
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:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TATTTATAATATTGAAT
Found at i:37614562 original size:551 final size:548
Alignment explanation
Indices: 37613514--37614616 Score: 1938
Period size: 551 Copynumber: 2.0 Consensus size: 548
37613504 TGATGCCATG
* *
37613514 TGAATCTCTAGAAACATGTGAAGTGTATGGTCCAATATTGAAATAATTTTATAGGTTTTCCCTGA
1 TGAATCGCTAGAAACATGTGAAGTGTATGGTCCAATATTGAAATAATTTTAGAGGTTTTCCCTGA
*
37613579 CTTTGTTCGTGTCAAAAACAATTCGAAATGCCTCGACTCTTTTAGAAGAGGTTTGGGTGAAATAG
66 CTTTGTTCGTGTCAAAAACAATTCGAAATGCCTCGACTCTTTTAGAAGAGGTTTGGGTCAAATAG
* * *
37613644 CAATGATTCGAAGTATTTTTTTACACTATTTCGGAAACCCAAGGACTCAATCGTATGGATATGTA
131 CAATGATTCGAAGCATTTTTTTACACTATTTCGAAAACCCAAGGACTCAATCGTATGGATACGTA
* *
37613709 AAATATAGGATTTCCAGTCCTAGTAGGAAAGGGAAGGAAACGGATACTCAATTTAAAGTGAGTAA
196 AAATACAGGATTTCCAGTCCTAGCAGGAAAGGGAAGGAAACGGATACTCAATTTAAAGTGAGTAA
* *
37613774 ACAGAATTCCATTCTCGATCTCATAGATACATATGAAATTCTGTGGAAAACCGTATTCGATGAAA
261 ACAAAATTCCATTCTCGATCTCATAGATACATATAAAATTCTGTGGAAAACCGTATTCGATGAAA
37613839 GTCGTATGTACGATTTGGAGGGAGATCTTTCATATCTTTCGAGATCCACCCTACAATATGGGGTC
326 GTCGTATGTACGATTTGGAGGGAGATCTTTCATATCTTTCGAGATCCACCCTACAATATGGGGTC
37613904 AAAAAGCCAAAATAAATTATTTTAGCCCTTATAAAAAGAAAATGGATTCTTGAACCCTTTCACGC
391 AAAAAGCCAAAATAAATTATTTTAGCCCTTATAAAAAGAAAATGGATTCTTGAACCCTTTCACGC
* * *
37613969 TCATGTCACATCAAGGTACTGCAAAAGAAAAAACTACAAAATCTGATCTAATTTATCGTAATCGA
456 TCATGTCACATCAAGGTACTGCAAAAGAAAAAACTACAAAATCTGATCCAATTGATCATAATCGA
* *
37614034 TTAGTTAACATATTGGTTAACCGTATTC
521 TTAGATAACATAATGGTTAACCGTATTC
37614062 TGAATCGCTAGAAACATGTGAAGTGTATGGTCCAATATTGAAATAATTTTAGAGGTTTTCCCTGA
1 TGAATCGCTAGAAACATGTGAAGTGTATGGTCCAATATTGAAATAATTTTAGAGGTTTTCCCTGA
*
37614127 CTTTGTTCGTGTCAAAAAACAATTTGAAATGCCTCGACTCTTTTAGAAGAGGTTTGGGTCAAATA
66 CTTTGTTCGTGTC-AAAAACAATTCGAAATGCCTCGACTCTTTTAGAAGAGGTTTGGGTCAAATA
*
37614192 GCAATGATTCGAAGCACTTTTTTTTACACTATTTCGAAAACCTAAGGACTCAATCGTATGGATAC
130 GCAATGATTCGAAGCA--TTTTTTTACACTATTTCGAAAACCCAAGGACTCAATCGTATGGATAC
*
37614257 GTAAAATACATGATTTCCAGTCCTAGCAGGAAAGGGAAGGAAACGGATACTCAATTTAAAGTGAG
193 GTAAAATACAGGATTTCCAGTCCTAGCAGGAAAGGGAAGGAAACGGATACTCAATTTAAAGTGAG
37614322 TAAACAAAATTCCATTCTCGATCTCATAGATACATATAAAATTCTGTGGAAAACCGTATTCGATG
258 TAAACAAAATTCCATTCTCGATCTCATAGATACATATAAAATTCTGTGGAAAACCGTATTCGATG
37614387 AAAGTCGTATGTAC-AGTTTGGAGGGAGATCTTTCATATCTTTCGAGATCCACCCTACAATATGG
323 AAAGTCGTATGTACGA-TTTGGAGGGAGATCTTTCATATCTTTCGAGATCCACCCTACAATATGG
*
37614451 GGTCAAAAAGCCAAAATAAATTATTTTAGCCCTTATAAAAGGAAAATGGATTCTTGAACCCTTTC
387 GGTCAAAAAGCCAAAATAAATTATTTTAGCCCTTATAAAAAGAAAATGGATTCTTGAACCCTTTC
* * * * *
37614516 ACGCTCATGTCACGTCAAGGTACTGTAGAAGAAAAAATTGCAAAATCTGATCCAATTGATCATAA
452 ACGCTCATGTCACATCAAGGTACTGCAAAAGAAAAAACTACAAAATCTGATCCAATTGATCATAA
*
37614581 TCGATTAGATAACATAATGGTTAATCGTATTC
517 TCGATTAGATAACATAATGGTTAACCGTATTC
37614613 TGAA
1 TGAA
37614617 ACACGAAAAA
Statistics
Matches: 526, Mismatches: 25, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
548 76 0.14
549 64 0.12
550 1 0.00
551 385 0.73
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.30
Consensus pattern (548 bp):
TGAATCGCTAGAAACATGTGAAGTGTATGGTCCAATATTGAAATAATTTTAGAGGTTTTCCCTGA
CTTTGTTCGTGTCAAAAACAATTCGAAATGCCTCGACTCTTTTAGAAGAGGTTTGGGTCAAATAG
CAATGATTCGAAGCATTTTTTTACACTATTTCGAAAACCCAAGGACTCAATCGTATGGATACGTA
AAATACAGGATTTCCAGTCCTAGCAGGAAAGGGAAGGAAACGGATACTCAATTTAAAGTGAGTAA
ACAAAATTCCATTCTCGATCTCATAGATACATATAAAATTCTGTGGAAAACCGTATTCGATGAAA
GTCGTATGTACGATTTGGAGGGAGATCTTTCATATCTTTCGAGATCCACCCTACAATATGGGGTC
AAAAAGCCAAAATAAATTATTTTAGCCCTTATAAAAAGAAAATGGATTCTTGAACCCTTTCACGC
TCATGTCACATCAAGGTACTGCAAAAGAAAAAACTACAAAATCTGATCCAATTGATCATAATCGA
TTAGATAACATAATGGTTAACCGTATTC
Found at i:37617605 original size:45 final size:45
Alignment explanation
Indices: 37617538--37617677 Score: 136
Period size: 45 Copynumber: 3.1 Consensus size: 45
37617528 TTTGTCTAAG
* * *
37617538 AATGAGTAAGACCATAGCTGAAAGATACTATGGCGTCATGATAAA
1 AATGAGAAAGAACATAGCTGAAAGATACTATGGCATCATGATAAA
* * ***
37617583 AATGAGAAAGAACATAGTTGAAAGATGCTATGGCATCATGACGGA
1 AATGAGAAAGAACATAGCTGAAAGATACTATGGCATCATGATAAA
* * * * * * *
37617628 AATGAGTAAGACCATGGCTGAAAAACACCATGACATCATGATAAA
1 AATGAGAAAGAACATAGCTGAAAGATACTATGGCATCATGATAAA
*
37617673 CATGA
1 AATGA
37617678 CTAATGTAAT
Statistics
Matches: 74, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
45 74 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (45 bp):
AATGAGAAAGAACATAGCTGAAAGATACTATGGCATCATGATAAA
Found at i:37618817 original size:28 final size:29
Alignment explanation
Indices: 37618770--37618827 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
37618760 ATGAATGCCA
*
37618770 TTTCTTTGGATGTTCACCACAGA-GACAT
1 TTTCTTTGGATGTTCACCACAAAGGACAT
*
37618798 TTTCTTTGGATGGTT-GCCACAAAGGACAT
1 TTTCTTTGGAT-GTTCACCACAAAGGACAT
37618827 T
1 T
37618828 ATTTAGAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (29 bp):
TTTCTTTGGATGTTCACCACAAAGGACAT
Found at i:37618870 original size:27 final size:28
Alignment explanation
Indices: 37618839--37618942 Score: 84
Period size: 28 Copynumber: 3.8 Consensus size: 28
37618829 TTTAGAGTAC
**
37618839 ACCATAAAGG-TTTTTTTTTCGTAGATA
1 ACCATAAAGGCTTCCTTTTTCGTAGATA
*
37618866 ACCATAAAGGCTTCCTTTTTCGTAGATC
1 ACCATAAAGGCTTCCTTTTTCGTAGATA
* * * ** * *
37618894 GCCACAAAGCCTTTATTTTTCATAGATC
1 ACCATAAAGGCTTCCTTTTTCGTAGATA
* * *
37618922 ACCACAAAGACTTTCTTTTTC
1 ACCATAAAGGCTTCCTTTTTC
37618943 TGGCATGTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 10 0.16
28 54 0.84
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (28 bp):
ACCATAAAGGCTTCCTTTTTCGTAGATA
Done.