Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000389.1 Hibiscus syriacus cultivar Beakdansim tig00000715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2672246
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 15
Found at i:1485826 original size:43 final size:42
Alignment explanation
Indices: 1485729--1485828 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 42
1485719 TACACCTAAC
* * * *
1485729 AGTGCATCGATGCATCTTTGAATGTGCATCGATACACCATGA
1 AGTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGA
* * *
1485771 AGGTGCACCGATGCACGCCTTGAATGTGCATCGATGCACAAGGCC
1 A-GTGCATCGATGCA-GCCTTGAATGTGCATCGATACACAAGG-A
1485816 A-TGCATCGATGCA
1 AGTGCATCGATGCA
1485829 TCCATCAGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
42 1 0.02
43 23 0.49
44 22 0.47
45 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (42 bp):
AGTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGA
Found at i:1487764 original size:14 final size:15
Alignment explanation
Indices: 1487739--1487767 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1487729 GGATTTTTTA
1487739 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
1487754 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
1487768 AAATGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:1488593 original size:64 final size:65
Alignment explanation
Indices: 1488481--1488605 Score: 191
Period size: 64 Copynumber: 1.9 Consensus size: 65
1488471 GAATGCATTT
* *
1488481 CATGCATCGATGCACTAAGGATTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCAAC
1 CATGCATCGATGCACTAAGGATTTTATGAAAACATCGAATGCACTTGATGAATCGATGCACCAAC
**
1488546 CATGCATCGATGCACTCTGGATATTT-TG-AAACATCGAATGCACTTGATGAATCGATGCAC
1 CATGCATCGATGCACTAAGGAT-TTTATGAAAACATCGAATGCACTTGATGAATCGATGCAC
1488606 TAAGGGTCCA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 30 0.55
65 22 0.40
66 3 0.05
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (65 bp):
CATGCATCGATGCACTAAGGATTTTATGAAAACATCGAATGCACTTGATGAATCGATGCACCAAC
Found at i:1491203 original size:16 final size:17
Alignment explanation
Indices: 1491169--1491208 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
1491159 TTATATGAAA
*
1491169 TGATATGTGCTTATATG
1 TGATATGTGATTATATG
*
1491186 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
1491202 TGATATG
1 TGATATG
1491209 CCATAAGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:1491808 original size:23 final size:23
Alignment explanation
Indices: 1491774--1491860 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
1491764 ACATATTATA
1491774 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
1491797 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
1491820 CGGTC-CTTCGG-GACAAAATTCTACG
1 TGG-CACTACGGTG-C--AATTCTACG
1491845 TGGCACTACGGTGCAA
1 TGGCACTACGGTGCAA
1491861 ATTTATACGA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
22 1 0.02
23 32 0.62
24 2 0.04
25 16 0.31
26 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:1496722 original size:103 final size:103
Alignment explanation
Indices: 1496497--1496714 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
1496487 GTCGAGGGTC
1496497 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
1496562 TTAATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTAATCCCTAGCATATGTATATGATTCTTAAGGAATAA
1496600 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
1496665 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAA
66 TTAATCCCTAGCATATGTATATGATTCTTAAGGAATAA
1496703 TATGTGGTCCTT
1 TATGTGGTCCTT
1496715 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTAATCCCTAGCATATGTATATGATTCTTAAGGAATAA
Found at i:1496797 original size:23 final size:23
Alignment explanation
Indices: 1496721--1496798 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
1496711 CCTTATGGAC
*
1496721 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
1496745 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
1496768 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
1496791 ATTATATG
1 ATTATATG
1496799 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:1505694 original size:22 final size:22
Alignment explanation
Indices: 1505666--1505713 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
1505656 AGTTACATGA
1505666 GTTATTTGATTTAATTCCAGGG
1 GTTATTTGATTTAATTCCAGGG
1505688 GTTATTTGATTTAATTCCAGGG
1 GTTATTTGATTTAATTCCAGGG
1505710 GTTA
1 GTTA
1505714 CATGATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (22 bp):
GTTATTTGATTTAATTCCAGGG
Found at i:1505719 original size:22 final size:22
Alignment explanation
Indices: 1505672--1505725 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
1505662 ATGAGTTATT
**
1505672 TGATTTAATTCCAGGGGTTATT
1 TGATTTAATTCCAGGGGTTACA
1505694 TGATTTAATTCCAGGGGTTACA
1 TGATTTAATTCCAGGGGTTACA
*
1505716 TGATATAATT
1 TGATTTAATT
1505726 TCGGGAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (22 bp):
TGATTTAATTCCAGGGGTTACA
Found at i:1513965 original size:2 final size:2
Alignment explanation
Indices: 1513958--1513996 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1513948 TGCTATCTGA
1513958 AT AT AT AT 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 AT AT AT AT A
1513997 CTTTGGAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1533277 original size:20 final size:20
Alignment explanation
Indices: 1533248--1533286 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1533238 ATTTCACCAC
*
1533248 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
1533268 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
1533287 TATGAGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:1538776 original size:27 final size:28
Alignment explanation
Indices: 1538746--1538800 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
1538736 AGAGTTTACT
1538746 AAGATTG-CCTATGCTATCTTTAGTTAA
1 AAGATTGCCCTATGCTATCTTTAGTTAA
1538773 AAGATTGCCCTATGCTATCTTTAGTTAA
1 AAGATTGCCCTATGCTATCTTTAGTTAA
1538801 GGGACTCGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (28 bp):
AAGATTGCCCTATGCTATCTTTAGTTAA
Found at i:1549483 original size:22 final size:21
Alignment explanation
Indices: 1549441--1549480 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1549431 GAGTTTATTT
*
1549441 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1549462 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1549481 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1559011 original size:20 final size:20
Alignment explanation
Indices: 1558988--1559034 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
1558978 GTTTCCAAAT
*
1558988 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCAAATCTGTAAA
1559008 TCGCAACGCAAATCTGTAAA
1 TCGCAACGCAAATCTGTAAA
1559028 TCGCAAC
1 TCGCAAC
1559035 AAAGAAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.19
Consensus pattern (20 bp):
TCGCAACGCAAATCTGTAAA
Found at i:1559108 original size:20 final size:19
Alignment explanation
Indices: 1559042--1559133 Score: 87
Period size: 19 Copynumber: 4.7 Consensus size: 19
1559032 AACAAAGAAG
*
1559042 TCAAATTCGCAATGCGGAATT
1 TCAAATTCGCAA--CTGAATT
1559063 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
* *
1559082 TCAAATTCGCAATTAGATTT
1 TCAAATTCGCAACT-GAATT
* *
1559102 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
1559122 T-AATTTCGCAAC
1 TCAAATTCGCAAC
1559134 AGGTTTTAGT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 28 0.47
20 20 0.33
21 12 0.20
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:1559121 original size:40 final size:40
Alignment explanation
Indices: 1559042--1559132 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 40
1559032 AACAAAGAAG
* *
1559042 TCAAATTCGCAATGCGGAATTTCAAATTCGCAACTGAATT
1 TCAAATTCGCAATGCAGAATTTCAAATTCGCAACCGAATT
* * *
1559082 TCAAATTCGCAAT-TAGATTTTCGAATTCGCAACACGAATT
1 TCAAATTCGCAATGCAGAATTTCAAATTCGCAAC-CGAATT
*
1559122 T-AATTTCGCAA
1 TCAAATTCGCAA
1559133 CAGGTTTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 25 0.57
40 19 0.43
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (40 bp):
TCAAATTCGCAATGCAGAATTTCAAATTCGCAACCGAATT
Found at i:1559134 original size:19 final size:19
Alignment explanation
Indices: 1559107--1559153 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
1559097 GATTTTCGAA
1559107 TTCGCAACACGAATTTAAT
1 TTCGCAACACGAATTTAAT
** *
1559126 TTCGCAACA-GGTTTTAGT
1 TTCGCAACACGAATTTAAT
1559144 TTCGCAACAC
1 TTCGCAACAC
1559154 ATATGTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (19 bp):
TTCGCAACACGAATTTAAT
Found at i:1559310 original size:15 final size:16
Alignment explanation
Indices: 1559290--1559327 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1559280 TCCCCATCTC
*
1559290 TAATTTT-TTTTTACA
1 TAATTTTATTTCTACA
*
1559305 TAATTTTATTTCTATA
1 TAATTTTATTTCTACA
1559321 TAATTTT
1 TAATTTT
1559328 CAATGATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (16 bp):
TAATTTTATTTCTACA
Found at i:1562412 original size:18 final size:18
Alignment explanation
Indices: 1562389--1562424 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1562379 AAGCAAAAGG
*
1562389 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
1562407 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
1562425 CAACTGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:1562773 original size:20 final size:20
Alignment explanation
Indices: 1562744--1562783 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1562734 CGAAATAAGT
*
1562744 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGACTATCGC
*
1562764 GTTGCTAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
1562784 AACGCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGC
Found at i:1562817 original size:20 final size:19
Alignment explanation
Indices: 1562792--1562830 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1562782 GCAACGCTTA
*
1562792 TTTCGCATTGTGAATTTGAC
1 TTTCGCATTGCG-ATTTGAC
1562812 TTTCGCATTGCGATTTGAC
1 TTTCGCATTGCGATTTGAC
1562831 AAAATTGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (19 bp):
TTTCGCATTGCGATTTGAC
Found at i:1563005 original size:66 final size:65
Alignment explanation
Indices: 1562923--1563098 Score: 257
Period size: 66 Copynumber: 2.6 Consensus size: 65
1562913 AATTTAAAAC
1562923 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATC-AATT
1562988 A
65 A
* *
1562989 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAATTA
1563053 AACAAATCAACTTTCAATGTA-AAATTCAATTAAACAAGCAAAAAAA
1 AACAAATCAAC-TT---T-TACAAA-TCAATTAAACAAGCAAAAAAA
1563099 GTGTACCCCA
Statistics
Matches: 101, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
64 16 0.16
65 25 0.25
66 34 0.34
68 4 0.04
69 16 0.16
70 6 0.06
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (65 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAATTA
Found at i:1564542 original size:42 final size:42
Alignment explanation
Indices: 1564426--1564544 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
1564416 GTGAATCGGG
** * * *
1564426 CTCTTGAACGGCAGGTGGGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATAGGAGGGGCCTCTTGAATGATGACAGGGGC
* * * *
1564468 CTCTTGAACGGTGGGAGGGGCCTCCTCG-ATGATGAGAGGGGC
1 CTCTTGAACGATAGGAGGGGCCT-CTTGAATGATGACAGGGGC
*
1564510 CTCTTGAACGATAGGAGGTGCCTCTTGAATGATGA
1 CTCTTGAACGATAGGAGGGGCCTCTTGAATGATGA
1564545 TAGGTGCATC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.05
42 58 0.91
43 3 0.05
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGATAGGAGGGGCCTCTTGAATGATGACAGGGGC
Found at i:1564551 original size:21 final size:21
Alignment explanation
Indices: 1564446--1564544 Score: 103
Period size: 21 Copynumber: 4.7 Consensus size: 21
1564436 GCAGGTGGGA
*
1564446 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
1564467 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
1564488 CCTCCTCG-ATGATGAGAGGGG
1 CCT-CTTGAACGATGAGAGGGG
*
1564509 CCTCTTGAACGAT-AGGAGGTG
1 CCTCTTGAACGATGA-GAGGGG
*
1564530 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
1564545 TAGGTGCATC
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
20 4 0.06
21 55 0.87
22 4 0.06
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.22
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:1566797 original size:20 final size:20
Alignment explanation
Indices: 1566758--1566797 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1566748 TGCGATTTTG
* * *
1566758 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
1566778 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
1566798 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:1567161 original size:22 final size:22
Alignment explanation
Indices: 1567132--1567188 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
1567122 GATGGAGATA
*
1567132 GACGGATTTTGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* * *
1567154 GATGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
*
1567176 GACGGATGTCGCC
1 GACGGATTTCGCC
1567189 GTAGAGAGTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.16, G:0.42, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:1567344 original size:20 final size:20
Alignment explanation
Indices: 1567294--1567550 Score: 202
Period size: 20 Copynumber: 12.7 Consensus size: 20
1567284 ATATTGTGTT
*
1567294 TCGCGTTGCGAATTTGA-AA
1 TCGCGTTGCGAATTTGACTA
*
1567313 TTCAGTGTTGCGAATTTGACTA
1 -TC-GCGTTGCGAATTTGACTA
*
1567335 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTA
* * * *
1567355 TTGTGTTGTGCGAATTTGCCTT
1 TCGCG-T-TGCGAATTTGACTA
* *
1567377 TTGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
1567397 TCGCGTTGCGAATTTGACT-
1 TCGCGTTGCGAATTTGACTA
** *
1567416 TCTGTATTGCG-ATTT-ACAAA
1 TC-GCGTTGCGAATTTGAC-TA
*
1567436 TTCGCGTTGCG-ATTT-ACAGA
1 -TCGCGTTGCGAATTTGAC-TA
*
1567456 TTCGCGTTACGAATTTGACTA
1 -TCGCGTTGCGAATTTGACTA
*
1567477 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTA
* * *
1567497 TTGTGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTA
* * *
1567517 TTGTGTTACGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
1567537 TCGCGTTGCGAATT
1 TCGCGTTGCGAATT
1567551 GGAAACTGGG
Statistics
Matches: 199, Mismatches: 28, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
18 2 0.01
19 6 0.03
20 145 0.73
21 25 0.13
22 21 0.11
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTA
Found at i:1567548 original size:60 final size:60
Alignment explanation
Indices: 1567294--1567550 Score: 245
Period size: 60 Copynumber: 4.2 Consensus size: 60
1567284 ATATTGTGTT
* ** * *
1567294 TCGCGTTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTG-ACTTTTGTGTTGCGAATTTGACTATCGCGTTACGAATTTGACTA
* * * *
1567355 TTGTGTTGTGCGAATTTGCCTTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACT-
1 TCGCG-T-TGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTACGAATTTGACTA
** * * * *
1567416 TCTGTATTGCG-ATTT-ACAAATTCGCGTTGCG-ATTT-ACAGATTCGCGTTACGAATTTGACTA
1 TC-GCGTTGCGAATTTGAC--TTTTGTGTTGCGAATTTGAC-TA-TCGCGTTACGAATTTGACTA
* * *
1567477 TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTTTGTGTTACGAATTTGACTA
1 TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTACGAATTTGACTA
1567537 TCGCGTTGCGAATT
1 TCGCGTTGCGAATT
1567551 GGAAACTGGG
Statistics
Matches: 161, Mismatches: 23, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
58 3 0.02
59 9 0.06
60 78 0.48
61 15 0.09
62 46 0.29
63 10 0.06
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (60 bp):
TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTACGAATTTGACTA
Found at i:1567757 original size:20 final size:20
Alignment explanation
Indices: 1567702--1567759 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
1567692 ACAATAATAT
*
1567702 AATTCATTTATACTATATAA
1 AATTCATTTATATTATATAA
*
1567722 AATTCATTTATTTTATATAA
1 AATTCATTTATATTATATAA
1567742 AATTCATATT-TATTATAT
1 AATTCAT-TTATATTATAT
1567760 TAATCGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTCATTTATATTATATAA
Found at i:1569301 original size:17 final size:18
Alignment explanation
Indices: 1569281--1569327 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
1569271 ATGTATTTAT
*
1569281 AATAATATTTTTTAA-TA
1 AATAATATATTTTAATTA
1569298 AATAGA-ATATTTTAATTA
1 AATA-ATATATTTTAATTA
*
1569316 AATTATATATTT
1 AATAATATATTT
1569328 ATAAAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
AATAATATATTTTAATTA
Found at i:1582202 original size:25 final size:25
Alignment explanation
Indices: 1582174--1582225 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1582164 ACTCTTAGAA
1582174 AGTTGAATAGATAAGGATAACTACT
1 AGTTGAATAGATAAGGATAACTACT
1582199 AGTTGAATAGATAAGGATAACTACT
1 AGTTGAATAGATAAGGATAACTACT
1582224 AG
1 AG
1582226 ATAGTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (25 bp):
AGTTGAATAGATAAGGATAACTACT
Found at i:1582231 original size:29 final size:29
Alignment explanation
Indices: 1582169--1582231 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 29
1582159 TACTAACTCT
*
1582169 TAGAAAGTTGAATAGATAAGGATAACTAC
1 TAGATAGTTGAATAGATAAGGATAACTAC
1582198 ----TAGTTGAATAGATAAGGATAACTAC
1 TAGATAGTTGAATAGATAAGGATAACTAC
1582223 TAGATAGTT
1 TAGATAGTT
1582232 TATTTCTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
25 24 0.83
29 5 0.17
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (29 bp):
TAGATAGTTGAATAGATAAGGATAACTAC
Found at i:1587641 original size:103 final size:103
Alignment explanation
Indices: 1587455--1587669 Score: 367
Period size: 103 Copynumber: 2.1 Consensus size: 103
1587445 GAGGGTCTAC
* *
1587455 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
1 GTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTA
* * *
1587520 ATCCTTGGCATATGTATATGATTCTTAAGGAATGATAT
66 ATCCCTAGCATATATATATGATTCTTAAGGAATGATAT
1587558 GTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTA
1 GTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTA
*
1587623 ATCCCTAGTATATATATATGATTCTTAAGGAATGATAT
66 ATCCCTAGCATATATATATGATTCTTAAGGAATGATAT
*
1587661 GTAGTCCTT
1 GTGGTCCTT
1587670 ATGGACATTA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36
Consensus pattern (103 bp):
GTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTA
ATCCCTAGCATATATATATGATTCTTAAGGAATGATAT
Found at i:1587721 original size:23 final size:23
Alignment explanation
Indices: 1587686--1587753 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
1587676 ATTATTATAT
*
1587686 GGCACTACAGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1587709 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
1587732 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
1587754 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1591499 original size:30 final size:29
Alignment explanation
Indices: 1591424--1591499 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
1591414 TAAAATTATC
*
1591424 TTTATTTTTGTTTTAACTTATTAAATATT
1 TTTATTTTTGTTTTAATTTATTAAATATT
*
1591453 TTTATTTTTGTCTTAATTTATTAAATATTT
1 TTTATTTTTGTTTTAATTTATTAAATA-TT
*
1591483 TTTATTTTTATTTTAAT
1 TTTATTTTTGTTTTAAT
1591500 GTAAAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 25 0.60
30 17 0.40
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTATTTTTGTTTTAATTTATTAAATATT
Found at i:1591509 original size:29 final size:29
Alignment explanation
Indices: 1591403--1591499 Score: 101
Period size: 29 Copynumber: 3.3 Consensus size: 29
1591393 ATATGTTATA
*
1591403 TATTTAAATT-TTAAA-ATTATCTTTATTTT
1 TATTTTAATTATTAAATATT-T-TTTATTTT
*
1591432 TGTTTTAACTTATTAAATA-TTTTTATTTT
1 TATTTTAA-TTATTAAATATTTTTTATTTT
* *
1591461 TGTCTTAATTTATTAAATATTTTTTATTTT
1 TATTTTAA-TTATTAAATATTTTTTATTTT
1591491 TATTTTAAT
1 TATTTTAAT
1591500 GTAAAAATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
29 32 0.55
30 19 0.33
31 6 0.10
32 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (29 bp):
TATTTTAATTATTAAATATTTTTTATTTT
Found at i:1591614 original size:31 final size:31
Alignment explanation
Indices: 1591576--1591654 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
1591566 ATATATTTAA
1591576 ATATTTTATTATTAATTT-AA-TATAAAAATAT
1 ATATTTTATTATT-ATTTAAATTA-AAAAATAT
* *
1591607 ATATTTTACTCTTATTTAAATTAAAAAATAT
1 ATATTTTATTATTATTTAAATTAAAAAATAT
*
1591638 ATAATATTTATTCTTAT
1 AT-AT-TTTATTATTAT
1591655 AAAAATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.10
31 23 0.56
32 4 0.10
33 10 0.24
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (31 bp):
ATATTTTATTATTATTTAAATTAAAAAATAT
Found at i:1591763 original size:37 final size:37
Alignment explanation
Indices: 1591673--1591846 Score: 289
Period size: 37 Copynumber: 4.7 Consensus size: 37
1591663 ATTTTATTCT
* *
1591673 TATTTTTAAAAGTTAAGATAATAATAAGAATAAAATA
1 TATTTTTATAATTTAAGATAATAATAAGAATAAAATA
1591710 TATTTTTTATAATTTAAGATAATAATAAGAATAAAATA
1 TA-TTTTTATAATTTAAGATAATAATAAGAATAAAATA
1591748 TATTTTTATAATTTAAGATAATAATAAGAATAAAATA
1 TATTTTTATAATTTAAGATAATAATAAGAATAAAATA
1591785 TATTTTTATAATTTAAGATAATAATAAGAATAAAATA
1 TATTTTTATAATTTAAGATAATAATAAGAATAAAATA
* *
1591822 TA-TTTT-TAATTTAAAATAAGAATAA
1 TATTTTTATAATTTAAGATAATAATAA
1591847 ATATATTTTT
Statistics
Matches: 132, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
35 17 0.13
36 4 0.03
37 76 0.58
38 35 0.27
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (37 bp):
TATTTTTATAATTTAAGATAATAATAAGAATAAAATA
Found at i:1591826 original size:28 final size:26
Alignment explanation
Indices: 1591795--1591854 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 26
1591785 TATTTTTATA
1591795 ATTTAAGATAATAATAAGAATAAAATAT
1 ATTTAAGATAA-AATAAGAAT-AAATAT
**
1591823 ATTTTTAATTTAAAATAAGAATAAATAT
1 A--TTTAAGATAAAATAAGAATAAATAT
1591851 ATTT
1 ATTT
1591855 TTATAAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
26 3 0.11
28 8 0.29
29 9 0.32
30 8 0.29
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (26 bp):
ATTTAAGATAAAATAAGAATAAATAT
Found at i:1591843 original size:66 final size:63
Alignment explanation
Indices: 1591695--1592001 Score: 240
Period size: 66 Copynumber: 4.7 Consensus size: 63
1591685 TTAAGATAAT
1591695 AATAAGAATAAAATATATTTTTTATAATTTAAGATAATAATAAGAATAAAATATATTTTTATAAT
1 AATAAGAATAAAATATA-TTTTTAT-A-TTAAGATAATAATAA-AATAAAATATA-TTTT-TAA-
1591760 TTAAGATAA
59 TT----TAA
1591769 TAATAAGAATAAAATATATTTTTATAATTTAAGATAATAATAAGAATAAAATATATTTTTAATTT
1 -AATAAGAATAAAATATATTTTTAT-A-TTAAGATAATAATAA-AATAAAATATATTTTTAATTT
1591834 AA
62 AA
* * *
1591836 AATAAGAAT-AAATATA-TTTT-TA-TAAG--AATAA-AATATTATATAT-TTTTTAATTTAA
1 AATAAGAATAAAATATATTTTTATATTAAGATAATAATAAAATAAAATATATTTTTAATTTAA
* *
1591891 AATAAGAGTAAAATATATATTTTATATTAA-ATTAATAATAAAATATTTAAATATA-TTTCAATT
1 AATAAGAATAAAATATAT-TTTTATATTAAGA-TAATAATAAAATA---AAATATATTTTTAATT
1591954 TAA
61 TAA
* ** * * *
1591957 GATATTTAAAAAAATATATTTTTACATTAAAATAA-AATCAAAATA
1 AATA-AGAATAAAATATATTTTTATATTAAGATAATAAT-AAAATA
1592002 TATTTAATAA
Statistics
Matches: 202, Mismatches: 14, Indels: 41
0.79 0.05 0.16
Matches are distributed among these distances:
55 20 0.10
56 14 0.07
57 2 0.01
58 9 0.04
59 2 0.01
60 7 0.03
62 6 0.03
63 5 0.02
64 4 0.02
65 10 0.05
66 46 0.23
67 14 0.07
71 2 0.01
72 3 0.01
73 4 0.02
74 37 0.18
75 17 0.08
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (63 bp):
AATAAGAATAAAATATATTTTTATATTAAGATAATAATAAAATAAAATATATTTTTAATTTAA
Found at i:1591866 original size:55 final size:57
Alignment explanation
Indices: 1591802--1591916 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 57
1591792 ATAATTTAAG
*
1591802 ATAATAATAAGAATAAAATATA-TTTTTAATTTAAAATAAGAAT-AAATATAT-TTTT
1 ATAAGAATAA-AATAAAATATATTTTTTAATTTAAAATAAGAATAAAATATATATTTT
** *
1591857 ATAAGAATAAAATATTATATATTTTTTAATTTAAAATAAGAGTAAAATATATATTTT
1 ATAAGAATAAAATAAAATATATTTTTTAATTTAAAATAAGAATAAAATATATATTTT
1591914 ATA
1 ATA
1591917 TTAAATTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 9 0.17
55 29 0.55
56 8 0.15
57 7 0.13
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (57 bp):
ATAAGAATAAAATAAAATATATTTTTTAATTTAAAATAAGAATAAAATATATATTTT
Found at i:1591914 original size:30 final size:28
Alignment explanation
Indices: 1591807--1591936 Score: 133
Period size: 30 Copynumber: 4.6 Consensus size: 28
1591797 TTAAGATAAT
1591807 AATAAGAATAAAATATATTTTTAATTTAA
1 AATAAGAATAAAATATATTTTT-ATTTAA
1591836 AATAAGAAT-AAATATATTTTTA--TAA
1 AATAAGAATAAAATATATTTTTATTTAA
**
1591861 GAATAA-AATATTATATATTTTTTAATTTAA
1 -AATAAGAATAAAATATA-TTTTT-ATTTAA
*
1591891 AATAAGAGTAAAATATATATTTTATATTAA
1 AATAAGAATAAAATATAT-TTTTAT-TTAA
* *
1591921 ATTAATAATAAAATAT
1 AATAAGAATAAAATAT
1591937 TTAAATATAT
Statistics
Matches: 84, Mismatches: 8, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
25 6 0.07
26 10 0.12
27 6 0.07
28 13 0.15
29 17 0.20
30 32 0.38
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (28 bp):
AATAAGAATAAAATATATTTTTATTTAA
Found at i:1591940 original size:55 final size:54
Alignment explanation
Indices: 1591808--1591940 Score: 120
Period size: 55 Copynumber: 2.5 Consensus size: 54
1591798 TAAGATAATA
1591808 ATAAGAATAAAATATAT----T-TTTAATTTAAAATAAGAATAAATATATTTTT
1 ATAAGAATAAAATATATAAAATATTTAATTTAAAATAAGAATAAATATATTTTT
* * * *
1591857 ATAAGAATAAAATATTATATATTTTTTAATTTAAAATAAGAGTAAAATATATATTTT
1 ATAAGAATAAAATA-TATAAAATATTTAATTTAAAATAAGAAT-AAATATAT-TTTT
*
1591914 ATATTA-AAT-TAATA-ATAAAATATTTAA
1 ATA--AGAATAAAATATATAAAATATTTAA
1591941 ATATATTTCA
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
49 14 0.20
50 3 0.04
54 1 0.01
55 28 0.41
56 8 0.12
57 11 0.16
58 3 0.04
59 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (54 bp):
ATAAGAATAAAATATATAAAATATTTAATTTAAAATAAGAATAAATATATTTTT
Found at i:1591980 original size:123 final size:123
Alignment explanation
Indices: 1591734--1591956 Score: 280
Period size: 121 Copynumber: 1.8 Consensus size: 123
1591724 TAAGATAATA
* *
1591734 ATAAGAATAAAATATATTTTTATAATTTAAGATAATAATAAGAATAAAATATATTTTTATAATTT
1 ATAAGAATAAAATATATATATATAATTTAAGATAATAATAAGAATAAAATATATTTTTATAATTT
*
1591799 AAGATAATAATAAGAATAAAATATATTTTTAATTTAAAATAAGAATAAATATATTTTT
66 AAGATAATAATAAGAATAAAATATATTTTCAATTTAAAATAAGAATAAATATATTTTT
** ** *
1591857 ATAAGAATAAAATAT-TATATATTTTTTAATTTAA-AATAAGAGTAAAATATATATTTTAT-A-T
1 ATAAGAATAAAATATATATATATAATTTAAGATAATAATAAGAATAAAATATAT-TTTTATAATT
1591918 TAA-ATTAATAATAA-AATATTTAAATATA-TTTCAATTTAA
65 TAAGA-TAATAATAAGAATA---AAATATATTTTCAATTTAA
1591957 GATATTTAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
119 5 0.06
120 13 0.15
121 28 0.32
122 26 0.30
123 15 0.17
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (123 bp):
ATAAGAATAAAATATATATATATAATTTAAGATAATAATAAGAATAAAATATATTTTTATAATTT
AAGATAATAATAAGAATAAAATATATTTTCAATTTAAAATAAGAATAAATATATTTTT
Found at i:1592024 original size:25 final size:25
Alignment explanation
Indices: 1591996--1592051 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
1591986 AAATAAAATC
*
1591996 AAAATATATTTAATAAATCAAGACA
1 AAAATATATTTAATAAATCAAAACA
* * *
1592021 AAAAAATATTTAATAAGTTAAAACA
1 AAAATATATTTAATAAATCAAAACA
1592046 AAAATA
1 AAAATA
1592052 AAGATAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (25 bp):
AAAATATATTTAATAAATCAAAACA
Found at i:1592398 original size:30 final size:33
Alignment explanation
Indices: 1592331--1592399 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
1592321 CTTCCAATAT
*
1592331 AATGATCACATGTGTAATCACAGGTGTGTAACT
1 AATGATCACATGTGTAATCACAGGTGTGTAACC
*
1592364 AATGA-CACATGTGTCATCACA-G-GTGTAACC
1 AATGATCACATGTGTAATCACAGGTGTGTAACC
1592394 AATGAT
1 AATGAT
1592400 ATATAGTAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 12 0.36
31 1 0.03
32 15 0.45
33 5 0.15
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (33 bp):
AATGATCACATGTGTAATCACAGGTGTGTAACC
Found at i:1608160 original size:16 final size:14
Alignment explanation
Indices: 1608139--1608173 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
1608129 GGCATATGTC
1608139 AAAATTTGATTATTTT
1 AAAATTT-ATT-TTTT
1608155 AAAATTTATTTTTT
1 AAAATTTATTTTTT
1608169 AAAAT
1 AAAAT
1608174 ATTAGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 3 0.16
16 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (14 bp):
AAAATTTATTTTTT
Found at i:1610551 original size:148 final size:143
Alignment explanation
Indices: 1610273--1610555 Score: 444
Period size: 148 Copynumber: 1.9 Consensus size: 143
1610263 CTCAATTCGG
* *
1610273 TTTATAAAATAGTTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGAATT
1 TTTATAAAATAGTTGACTCGAAATTTTTTCAAATTGAGTTTATAAAATTTAAATCAAGTCGAATT
*
1610338 GAATTTTTGAGTTTCTGCTTAAATTTAATTATAAATATTTATCATATTATAATATTATTTGATTC
66 GAATTTTCGAGTTTCTGCTTAAATTTAATTATAAATATTTATCATATTATAATATTATTTGATTC
1610403 TAATTCAGTTCAA
131 TAATTCAGTTCAA
1610416 TTTATAAAATAGTTGACTCGAAATTTTTTCAAATTGAGTTTATAAAATTTAAATCAAGTCGAATT
1 TTTATAAAATAGTTGACTCGAAATTTTTTCAAATTGAGTTTATAAAATTTAAATCAAGTCG-A--
* *
1610481 GATTTGAATTTTCGAGTTTTTGTTTAAATTTAATTATAAATATTTAT-ATTATTATAATATTATT
63 -A-TTGAATTTTCGAGTTTCTGCTTAAATTTAATTATAAATATTTATCA-TATTATAATATTATT
1610545 AT-ATTCTAATT
125 -TGATTCTAATT
1610556 TAAATAGTTT
Statistics
Matches: 128, Mismatches: 5, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
143 59 0.46
144 1 0.01
147 2 0.02
148 65 0.51
149 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (143 bp):
TTTATAAAATAGTTGACTCGAAATTTTTTCAAATTGAGTTTATAAAATTTAAATCAAGTCGAATT
GAATTTTCGAGTTTCTGCTTAAATTTAATTATAAATATTTATCATATTATAATATTATTTGATTC
TAATTCAGTTCAA
Found at i:1611093 original size:35 final size:35
Alignment explanation
Indices: 1611054--1611132 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
1611044 GGAATGGGCG
1611054 TGTAATTGAAGTATTTTGGAATTTGAGGCTTAGAA
1 TGTAATTGAAGTATTTTGGAATTTGAGGCTTAGAA
* * *
1611089 TGTAAGTGAAGTATTTTGGAATTTGGGGTTTAGAA
1 TGTAATTGAAGTATTTTGGAATTTGAGGCTTAGAA
1611124 TGTAATTGA
1 TGTAATTGA
1611133 TGAATGTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.30, C:0.01, G:0.28, T:0.41
Consensus pattern (35 bp):
TGTAATTGAAGTATTTTGGAATTTGAGGCTTAGAA
Found at i:1616280 original size:23 final size:23
Alignment explanation
Indices: 1616237--1616280 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1616227 TATTTGGGTT
*
1616237 TTAAAATATTAATGGGTTTAAGA
1 TTAAAATATTAATAGGTTTAAGA
*
1616260 TTAAAAT-TTATTAGGTCTTAA
1 TTAAAATATTAATAGGT-TTAA
1616281 TATTTTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (23 bp):
TTAAAATATTAATAGGTTTAAGA
Found at i:1617757 original size:30 final size:31
Alignment explanation
Indices: 1617646--1617758 Score: 111
Period size: 30 Copynumber: 3.5 Consensus size: 31
1617636 TTTTGTATTT
*
1617646 GGGTCGGATTTTTTTAAAAAAATTCGGGTTC
1 GGGTCGGATTTTTTTAAAAAAATTCGGGATC
* * *
1617677 GGGTGGGGGTTTTTTTTTAAAAAAAAATCGGGATC
1 GGGT--CGG-ATTTTTTT-AAAAAAATTCGGGATC
* * *
1617712 GGGTCAGATTGTTTT-AAAAAATTCGGGGTC
1 GGGTCGGATTTTTTTAAAAAAATTCGGGATC
*
1617742 GGGTCGGGTTTTTTTAA
1 GGGTCGGATTTTTTTAA
1617759 GCGTGATATT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
30 25 0.39
31 5 0.08
32 6 0.09
33 3 0.05
34 7 0.11
35 18 0.28
ACGTcount: A:0.25, C:0.08, G:0.30, T:0.37
Consensus pattern (31 bp):
GGGTCGGATTTTTTTAAAAAAATTCGGGATC
Found at i:1618779 original size:21 final size:23
Alignment explanation
Indices: 1618736--1618782 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
1618726 TAATTGTGGC
* *
1618736 TTCAAACCTCTTAAATTCTTAAA
1 TTCAAACCTCTTAAATCCATAAA
1618759 TTCAAA-CTC-TAAATCCATAAA
1 TTCAAACCTCTTAAATCCATAAA
1618780 TTC
1 TTC
1618783 CAATACCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 3 0.14
23 6 0.27
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.36
Consensus pattern (23 bp):
TTCAAACCTCTTAAATCCATAAA
Found at i:1619995 original size:21 final size:21
Alignment explanation
Indices: 1619965--1620005 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1619955 CGGTAAAATA
*
1619965 TTATCTAAAACATTATTTTTT
1 TTATCGAAAACATTATTTTTT
*
1619986 TTATCGAAAATATTATTTTT
1 TTATCGAAAACATTATTTTT
1620006 ACTAACTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (21 bp):
TTATCGAAAACATTATTTTTT
Found at i:1620804 original size:30 final size:30
Alignment explanation
Indices: 1620757--1620814 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
1620747 TATATTGTAT
*
1620757 TATTTAAGTATCATTTTTTGTCAAAGTAGG
1 TATTTAAGTATCATTTTTTATCAAAGTAGG
* *
1620787 TATTTAAGGTAT-TTTTTTTATCTAAGTA
1 TATTTAA-GTATCATTTTTTATCAAAGTA
1620815 CCTTAAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (30 bp):
TATTTAAGTATCATTTTTTATCAAAGTAGG
Found at i:1631740 original size:24 final size:24
Alignment explanation
Indices: 1631708--1631770 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
1631698 ATTCATAGTT
* * *
1631708 AATGCATCGATGCACATATTACAG
1 AATGTATCGATGCACATACTAAAG
*
1631732 AGTGTATCGATGCACATACTAAAG
1 AATGTATCGATGCACATACTAAAG
*
1631756 AATGTACCGATGCAC
1 AATGTATCGATGCAC
1631771 TTCAAAGGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (24 bp):
AATGTATCGATGCACATACTAAAG
Found at i:1636080 original size:24 final size:24
Alignment explanation
Indices: 1636048--1636107 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
1636038 ATGCATAGTT
* *
1636048 AATGCATCGATGCACATATTACAG
1 AATGTATCGATGCACATACTACAG
*
1636072 AGTGTATCGATGCACATACTACAG
1 AATGTATCGATGCACATACTACAG
*
1636096 AATGTACCGATG
1 AATGTATCGATG
1636108 TACTTCAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (24 bp):
AATGTATCGATGCACATACTACAG
Found at i:1637097 original size:2 final size:2
Alignment explanation
Indices: 1637090--1637139 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1637080 CTAAATTTTC
1637090 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1637132 AT AT AT AT
1 AT AT AT AT
1637140 CTTAACGCGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1637240 original size:19 final size:18
Alignment explanation
Indices: 1637204--1637251 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
1637194 GTACTAAATT
*
1637204 AAAATTATTTAAAAAAAAG
1 AAAATTA-TAAAAAAAAAG
* *
1637223 ACAATTATAAAAATAAAAT
1 AAAATTATAAAAA-AAAAG
1637242 AAAATTATAA
1 AAAATTATAA
1637252 TTAAACAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATTATAAAAAAAAAG
Found at i:1638768 original size:137 final size:136
Alignment explanation
Indices: 1638585--1639371 Score: 982
Period size: 137 Copynumber: 5.8 Consensus size: 136
1638575 CAACTGGTGT
* *
1638585 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTGAAGATATTTGAGATAACACGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
* * * * * *
1638650 CCTTCGTGATGAGGATGTCTGGTTATCTGAGGATGACTCAGCTTATACGTGATGAGTAGTTCTGG
66 CCTTCGTGATGAGGACGTCTGGTTATCTAAGGATGA-TCAGCTTCTACGTGATGAGGAATTCTGA
1638715 TCAGTGG
130 TCAGTGG
* *
1638722 ATGACATTGTTTCTTCGTGATGAGGACGTCTACCCATCTTTAAAGATATTTGAGATAACACGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
* * *
1638787 CCTTCGTGATGAGGACGTCTGGTTATCTAAGGTTGA-CACGACTCCTACGTGATGAGGAGTTCTG
66 CCTTCGTGATGAGGACGTCTGGTTATCTAAGGATGATCA-G-CTTCTACGTGATGAGGAATTCTG
*
1638851 GTCAGTGG
129 ATCAGTGG
* * * * *
1638859 ATGACTTTGTTCATTCGTGATGAGGATGTCTAACCATCTTTAAAGATATTTGAGATAACACGATT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
* * * * * * *** * *
1638924 CTTTAGTGATGAAGACGTCTGGCTATCTAAGGATGATGCTGCTCCTTTATCATAAGGAATTCTGA
66 CCTTCGTGATGAGGACGTCTGGTTATCTAAGGATGAT-CAGCTTCTACGTGATGAGGAATTCTGA
*
1638989 TCAATGG
130 TCAGTGG
* ***
1638996 ATGACATTGTTCCTTCGTGATGAGGATGTCTAGCCATCTTTAAAGATATTTGAGATAACACAACT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
* * * *
1639061 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGATGCTTCTTCATGATGAGGAATTCTGA
66 CCTTCGTGATGAGGACGTCTGGTTATCTAAGGATGATCA-GCTTCTACGTGATGAGGAATTCTGA
*
1639126 TCAATGG
130 TCAGTGG
* * * * **
1639133 ATGACATTGTTCATTCGTGTTGAGGACGTCCAACCATCTTTAAAGATATTTGAGATAACAAAGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
* * * * * * *
1639198 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGTTGCTGCTTCTTCTTGATGAGGATTTCTAA
66 CCTTCGTGATGAGGACGTCTGGTTATCTAAGGATGAT-CAGCTTCTACGTGATGAGGAATTCTGA
*
1639263 TCGGTGG
130 TCAGTGG
* * * *
1639270 ATGATATTGTTCCTTCATGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATAACATGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
*
1639335 CTTTCGTGATGAGGACGTCTGGTTATCTAAGGATGAT
66 CCTTCGTGATGAGGACGTCTGGTTATCTAAGGATGAT
1639372 GTTTCCTAAT
Statistics
Matches: 570, Mismatches: 74, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
135 2 0.00
136 1 0.00
137 565 0.99
138 1 0.00
139 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (136 bp):
ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
CCTTCGTGATGAGGACGTCTGGTTATCTAAGGATGATCAGCTTCTACGTGATGAGGAATTCTGAT
CAGTGG
Found at i:1639354 original size:411 final size:411
Alignment explanation
Indices: 1638585--1639372 Score: 1116
Period size: 411 Copynumber: 1.9 Consensus size: 411
1638575 CAACTGGTGT
* * ***
1638585 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTGAAGATATTTGAGATAACACGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACAACT
** * * * * *
1638650 CCTTCGTGATGAGGATGTCTGGTTATCTGAGGATGACTCAGCTTATACGTGATGAGTAGTTCTGG
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGACTCAGCTTATACATGATGAGGAATTCTGA
* * *
1638715 TCAGTGGATGACATTGTTTCTTCGTGATGAGGACGTCTACCCATCTTTAAAGATATTTGAGATAA
131 TCAATGGATGACATTGTTTCTTCGTGATGAGGACGTCCAACCATCTTTAAAGATATTTGAGATAA
** * *
1638780 CACGGTTCCTTCGTGATGAGGACGTCTGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGGA
196 CAAAGTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGACACGACTCCTACGTGATGAGGA
** * *
1638845 GTTCTGGTCAGTGGATGACTTTGTTCATTCGTGATGAGGATGTCTAACCATCTTTAAAGATATTT
261 GTTCTAATCAGTGGATGACTTTGTTCATTCATGATGAGGACGTCTAACCATCTTTAAAGATATTT
1638910 GAGATAACACGATTCTTTAGTGATGAAGACGTCTGGCTATCTAAGGATGATGCTGCTCCTTTATC
326 GAGATAACACGATTCTTTAGTGATGAAGACGTCTGGCTATCTAAGGATGATGCTGCTCCTTTATC
1638975 ATAAGGAATTCTGATCAATGG
391 ATAAGGAATTCTGATCAATGG
*
1638996 ATGACATTGTTCCTTCGTGATGAGGATGTCTAGCCATCTTTAAAGATATTTGAGATAACACAACT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACAACT
* * *
1639061 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGA-TGATGCTTCTTCATGATGAGGAATTCTG
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGACTCA-GCTTATACATGATGAGGAATTCTG
*
1639125 ATCAATGGATGACATTG-TTCATTCGTGTTGAGGACGTCCAACCATCTTTAAAGATATTTGAGAT
130 ATCAATGGATGACATTGTTTC-TTCGTGATGAGGACGTCCAACCATCTTTAAAGATATTTGAGAT
*** * * *
1639189 AACAAAGTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGTTGCTG-CTTCTTCTTGATGA
194 AACAAAGTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGACAC-GACTCCTACGTGATGA
* * * **
1639253 GGATTTCTAATCGGTGGATGA-TATTGTTCCTTCATGATGAGGACGTCTGGCCATCTTTAAAGAT
258 GGAGTTCTAATCAGTGGATGACT-TTGTTCATTCATGATGAGGACGTCTAACCATCTTTAAAGAT
* * * * *
1639317 ATTTGAGATAACATGGTTCTTTCGTGATGAGGACGTCTGGTTATCTAAGGATGATG
322 ATTTGAGATAACACGATTCTTTAGTGATGAAGACGTCTGGCTATCTAAGGATGATG
1639373 TTTCCTAATT
Statistics
Matches: 329, Mismatches: 44, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
410 6 0.02
411 322 0.98
412 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (411 bp):
ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACAACT
CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGACTCAGCTTATACATGATGAGGAATTCTGA
TCAATGGATGACATTGTTTCTTCGTGATGAGGACGTCCAACCATCTTTAAAGATATTTGAGATAA
CAAAGTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGACACGACTCCTACGTGATGAGGA
GTTCTAATCAGTGGATGACTTTGTTCATTCATGATGAGGACGTCTAACCATCTTTAAAGATATTT
GAGATAACACGATTCTTTAGTGATGAAGACGTCTGGCTATCTAAGGATGATGCTGCTCCTTTATC
ATAAGGAATTCTGATCAATGG
Found at i:1645450 original size:24 final size:24
Alignment explanation
Indices: 1645406--1645455 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1645396 ATAAAGAACC
*
1645406 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
1645430 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
1645454 AA
1 AA
1645456 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:1654480 original size:24 final size:24
Alignment explanation
Indices: 1654436--1654485 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1654426 ATAAAGAACC
*
1654436 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
1654460 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
1654484 AA
1 AA
1654486 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:1659387 original size:31 final size:31
Alignment explanation
Indices: 1659349--1659444 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
1659339 GAACCTCAAC
*
1659349 AACTATCCATAGGTCCCAAAGAACCTAGGTA
1 AACTATCCATAGGTCCCAAAGAACATAGGTA
* ** *
1659380 AACTATCCATATGTCCCGTAGAACATATGTA
1 AACTATCCATAGGTCCCAAAGAACATAGGTA
* ** *
1659411 AACTGTCCATATATCCTGAAAG-ACATAGGTA
1 AACTATCCATAGGTCC-CAAAGAACATAGGTA
1659442 AAC
1 AAC
1659445 CCTCGACTCT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 51 0.96
32 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.24
Consensus pattern (31 bp):
AACTATCCATAGGTCCCAAAGAACATAGGTA
Found at i:1664587 original size:31 final size:31
Alignment explanation
Indices: 1664549--1664644 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
1664539 GAACCTCGAC
* *
1664549 AACTATCCATAGGTCCCAAAGAACCTAGGTA
1 AACTATCCATATGTCCCAAAGAACATAGGTA
* **
1664580 AACTATCCATATATCCCGTAGAACATAGGTA
1 AACTATCCATATGTCCCAAAGAACATAGGTA
* *
1664611 AACTGTTCATATGTCCCGAAAG-ACATAGGTA
1 AACTATCCATATGTCCC-AAAGAACATAGGTA
1664642 AAC
1 AAC
1664645 CCTCGACTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 52 0.96
32 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (31 bp):
AACTATCCATATGTCCCAAAGAACATAGGTA
Found at i:1665466 original size:24 final size:24
Alignment explanation
Indices: 1665408--1665469 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 24
1665398 TGCACTCTTT
*
1665408 AGTGTATCGATGCATCCCTTAACG
1 AGTGCATCGATGCATCCCTTAACG
1665432 AGGTGCATCGATGCATCCCTTAACG
1 A-GTGCATCGATGCATCCCTTAACG
1665457 AGTGCATCGATGC
1 AGTGCATCGATGC
1665470 TCTATCTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 13 0.36
25 23 0.64
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AGTGCATCGATGCATCCCTTAACG
Found at i:1682883 original size:61 final size:62
Alignment explanation
Indices: 1682794--1682913 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 62
1682784 CCTCGGCAAC
*
1682794 TGTCCATAGGTCCCGAAGAACCTAGGTAAATTCTCCATATATTCT-TAGAACATAGGTATAT
1 TGTCCATAGGTCCCGAAGAACATAGGTAAATTCTCCATATATTCTGTAGAACATAGGTATAT
* * * * *
1682855 TGTCCATATGTCTCGAA-AGACATAGGTAATTTGTCCATATGTTCTGTAGAACATAGGTA
1 TGTCCATAGGTCCCGAAGA-ACATAGGTAAATTCTCCATATATTCTGTAGAACATAGGTA
1682914 AACCATCGAC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
60 1 0.02
61 37 0.73
62 13 0.25
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (62 bp):
TGTCCATAGGTCCCGAAGAACATAGGTAAATTCTCCATATATTCTGTAGAACATAGGTATAT
Found at i:1682909 original size:31 final size:31
Alignment explanation
Indices: 1682810--1682914 Score: 110
Period size: 31 Copynumber: 3.4 Consensus size: 31
1682800 TAGGTCCCGA
* * * *
1682810 AGAACCTAGGTAAATTCTCCATATATTCT-T
1 AGAACATAGGTAATTTGTCCATATGTTCTGT
1682840 AGAACATAGGT-ATATTGTCCATATG-TCTCG-
1 AGAACATAGGTAAT-TTGTCCATATGTTCT-GT
*
1682870 AAAGACATAGGTAATTTGTCCATATGTTCTGT
1 AGA-ACATAGGTAATTTGTCCATATGTTCTGT
1682902 AGAACATAGGTAA
1 AGAACATAGGTAA
1682915 ACCATCGACT
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
29 4 0.06
30 21 0.34
31 30 0.48
32 7 0.11
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (31 bp):
AGAACATAGGTAATTTGTCCATATGTTCTGT
Found at i:1683579 original size:15 final size:15
Alignment explanation
Indices: 1683555--1683593 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
1683545 ATGGACACTG
*
1683555 AACATATATCATATA
1 AACATGTATCATATA
1683570 AACATGTATCATATA
1 AACATGTATCATATA
1683585 AACATGTAT
1 AACATGTAT
1683594 TCACACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (15 bp):
AACATGTATCATATA
Found at i:1683813 original size:19 final size:19
Alignment explanation
Indices: 1683789--1683825 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1683779 TTATGATTTT
1683789 CTTATGCATCGATGCACTC
1 CTTATGCATCGATGCACTC
1683808 CTTATGCATCGATGCACT
1 CTTATGCATCGATGCACT
1683826 AATTACATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (19 bp):
CTTATGCATCGATGCACTC
Found at i:1688489 original size:3 final size:3
Alignment explanation
Indices: 1688481--1688515 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1688471 ATTTATTTTG
1688481 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1688516 TGATAGTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1689186 original size:18 final size:18
Alignment explanation
Indices: 1689163--1689198 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1689153 GAGGGATTAT
*
1689163 TAGTGGTCCTTCGGGACA
1 TAGTGGTCCTACGGGACA
1689181 TAGTGGTCCTACGGGACA
1 TAGTGGTCCTACGGGACA
1689199 AATTCTACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.33, T:0.25
Consensus pattern (18 bp):
TAGTGGTCCTACGGGACA
Found at i:1689300 original size:2 final size:2
Alignment explanation
Indices: 1689295--1689324 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1689285 TAAAAAAGAA
1689295 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1689325 TACATGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1695926 original size:23 final size:23
Alignment explanation
Indices: 1695896--1695954 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
1695886 CTCGTATAAA
1695896 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
1695919 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
1695942 TGCACTGAAGTGC
1 TGCACCGAAGTGC
1695955 TATATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:1697421 original size:30 final size:30
Alignment explanation
Indices: 1697362--1697457 Score: 149
Period size: 30 Copynumber: 3.2 Consensus size: 30
1697352 CCCGAAGGAC
* *
1697362 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1697391 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1697421 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1697451 CTGTCCA
1 CTATCCA
1697458 TATGTTCCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
29 19 0.30
30 44 0.70
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1697488 original size:31 final size:30
Alignment explanation
Indices: 1697446--1697543 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 30
1697436 AAAGATCCTC
*
1697446 GGTAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATATGTTCCATAGAACATA
* *
1697476 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTA-ACTGTCCATATGT-TCCATAGAACATA
* *
1697507 GGTAAAACTGTCCATATATTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCATAGAACATA
1697539 GGTAA
1 GGTAA
1697544 ACCCTCGACT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
30 6 0.11
31 25 0.45
32 24 0.43
33 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCATAGAACATA
Found at i:1698098 original size:2 final size:2
Alignment explanation
Indices: 1698091--1698126 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1698081 TCTCTTAGAC
1698091 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1698127 TCACATGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1698479 original size:18 final size:18
Alignment explanation
Indices: 1698458--1698492 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1698448 TCCCATCTAG
1698458 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
1698476 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
1698493 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:1699097 original size:21 final size:21
Alignment explanation
Indices: 1699067--1699111 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1699057 ATTCTGTCGT
* *
1699067 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1699088 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1699109 TTG
1 TTG
1699112 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1700821 original size:64 final size:65
Alignment explanation
Indices: 1700710--1700831 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 65
1700700 ATTTAGCATG
*
1700710 TGCATCGATGCACTACCCATGCATCGATACACCAATTACCTTCGATGTT-TTTATTTTAAGGGGA
1 TGCATCGATGCACTACCCATGCATCGATACACCAATTACATTCGATGTTATTTATTTTAAGGGGA
* * *
1700774 TGCATCGATGCACT-CCTTATGCATCGATGCACCAATTGCAATT-GATGTTCATTTATTT
1 TGCATCGATGCACTACC-CATGCATCGATACACCAATTAC-ATTCGATGTT-ATTTATTT
1700832 GAGAGTGCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
63 2 0.04
64 39 0.78
65 2 0.04
66 7 0.14
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (65 bp):
TGCATCGATGCACTACCCATGCATCGATACACCAATTACATTCGATGTTATTTATTTTAAGGGGA
Found at i:1704415 original size:23 final size:23
Alignment explanation
Indices: 1704383--1704441 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
1704373 ATCTTATATA
*
1704383 GCACTACGGTGCAATTCTAC-TCG
1 GCACTTCGGTGCAATTCTACGT-G
1704406 GCACTTCGGTGCAATTCTACGTG
1 GCACTTCGGTGCAATTCTACGTG
*
1704429 GCACTTCAGTGCA
1 GCACTTCGGTGCA
1704442 TTTATACGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (23 bp):
GCACTTCGGTGCAATTCTACGTG
Found at i:1704449 original size:23 final size:23
Alignment explanation
Indices: 1704391--1704449 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1704381 TAGCACTACG
* *
1704391 GTGCAATTCTAC-TCGGCACTTCG
1 GTGCAATTATACGT-GGCACTTCA
*
1704414 GTGCAATTCTACGTGGCACTTCA
1 GTGCAATTATACGTGGCACTTCA
*
1704437 GTGCATTTATACG
1 GTGCAATTATACG
1704450 AGCTGTGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 31 0.97
24 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (23 bp):
GTGCAATTATACGTGGCACTTCA
Found at i:1719032 original size:18 final size:18
Alignment explanation
Indices: 1719009--1719046 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
1718999 TAACAAAAGG
1719009 TGTTAATCTTGGGAAACA
1 TGTTAATCTTGGGAAACA
1719027 TGTTAATCTTGGGAAACA
1 TGTTAATCTTGGGAAACA
1719045 TG
1 TG
1719047 CCTATAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (18 bp):
TGTTAATCTTGGGAAACA
Found at i:1729208 original size:2 final size:2
Alignment explanation
Indices: 1729201--1729247 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1729191 AGGAAAAATG
1729201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1729243 AT AT A
1 AT AT A
1729248 GGAAGATGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1730049 original size:243 final size:241
Alignment explanation
Indices: 1729747--1730195 Score: 853
Period size: 243 Copynumber: 1.9 Consensus size: 241
1729737 TACGCTGCAC
1729747 TAAGAGGATATGTATTAAGTGATATAAACGATAATAATATTGATAATGAAATAAGGCTAATAATG
1 TAAGAGGATATGTATTAAGTGATATAAACGATAATAATATTGATAATGAAATAAGGCTAATAATG
1729812 GAAATGATGAGTGATGAATATATGTGTGTATATGTTTTTATATGTAATGATATATATTGCATATG
66 GAAATGATGAGTGATGAATATATGTGTGTATATGTTTTTATATGTAATGATATATATTGC--ATG
*
1729877 TGTTATAGGGATTTGTTACATGAATAAGGGTATGAGTAATAGTAGTAATTGTTCATGCATGATTA
129 TGTTATAGGGATTTGTTACATGAATAAAGGTATGAGTAATAGTAGTAATTGTTCATGCATGATTA
1729942 TAAGCTATAGTTACACTTAGGGACAAATGTTGGTTAAAATAATAGGTA
194 TAAGCTATAGTTACACTTAGGGACAAATGTTGGTTAAAATAATAGGTA
*
1729990 TAAGAGGATATGTATTAAGTTATATAAACGATAATAATATTGATAATGAAATAAGGCTAATAATG
1 TAAGAGGATATGTATTAAGTGATATAAACGATAATAATATTGATAATGAAATAAGGCTAATAATG
1730055 GAAATGATGAGTGATGAATATATGTGTGTATATGTTTTTATATGTAATGATATATATTGCATGTG
66 GAAATGATGAGTGATGAATATATGTGTGTATATGTTTTTATATGTAATGATATATATTGCATGTG
*
1730120 TTATAGGGATTTGTTACATGAATAAAGGTATGAGTGATAGTAGTAATTGTTCATGCATGATTATA
131 TTATAGGGATTTGTTACATGAATAAAGGTATGAGTAATAGTAGTAATTGTTCATGCATGATTATA
1730185 AGCTATAGTTA
196 AGCTATAGTTA
1730196 TATTTTATCT
Statistics
Matches: 203, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
241 79 0.39
243 124 0.61
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.37
Consensus pattern (241 bp):
TAAGAGGATATGTATTAAGTGATATAAACGATAATAATATTGATAATGAAATAAGGCTAATAATG
GAAATGATGAGTGATGAATATATGTGTGTATATGTTTTTATATGTAATGATATATATTGCATGTG
TTATAGGGATTTGTTACATGAATAAAGGTATGAGTAATAGTAGTAATTGTTCATGCATGATTATA
AGCTATAGTTACACTTAGGGACAAATGTTGGTTAAAATAATAGGTA
Found at i:1733260 original size:18 final size:18
Alignment explanation
Indices: 1733237--1733309 Score: 128
Period size: 18 Copynumber: 4.1 Consensus size: 18
1733227 TCGAGGGATT
* *
1733237 ATAGTGGTCCTTTGGGAC
1 ATAGTGGTCATTCGGGAC
1733255 ATAGTGGTCATTCGGGAC
1 ATAGTGGTCATTCGGGAC
1733273 ATAGTGGTCATTCGGGAC
1 ATAGTGGTCATTCGGGAC
1733291 ATAGTGGTCATTCGGGAC
1 ATAGTGGTCATTCGGGAC
1733309 A
1 A
1733310 AATATTCAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (18 bp):
ATAGTGGTCATTCGGGAC
Found at i:1738609 original size:22 final size:22
Alignment explanation
Indices: 1738579--1738639 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
1738569 ACTGAATATT
*
1738579 TGTCCCGAAGGACCATTGGATA
1 TGTCCCGAAGGACCACTGGATA
* *
1738601 TGTCTCGAATGACCACTGGATA
1 TGTCCCGAAGGACCACTGGATA
1738623 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1738640 ATAACCCTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGGATA
Found at i:1739279 original size:64 final size:64
Alignment explanation
Indices: 1739211--1739330 Score: 141
Period size: 64 Copynumber: 1.9 Consensus size: 64
1739201 ACAAATCACC
* * * * *
1739211 TTCGATATTTTAATCTTAAGGGGGTGCATTGATGCACTACTTGTGCATCGATACACTTATGGCA
1 TTCGATATTTTAATCTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACACTTATGGCA
* * * * * *
1739275 TTCGATGTTTTTATTTTAAATGAGTGTATCGATACACTTCATGTGCATCGATACAC
1 TTCGATATTTTAATCTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACAC
1739331 CTTGAACAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
64 45 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (64 bp):
TTCGATATTTTAATCTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACACTTATGGCA
Found at i:1740424 original size:75 final size:75
Alignment explanation
Indices: 1740321--1740519 Score: 263
Period size: 75 Copynumber: 2.6 Consensus size: 75
1740311 GACCGTTGAA
* * ** *
1740321 CAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
**
1740386 CAAAAATGTT
66 CAAAAACATT
* * *
1740396 TAGGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
* *
1740461 CCAAACCATT
66 CAAAAACATT
* *
1740471 CATGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 CAGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCA
1740520 ATCTGTAATT
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
75 85 0.79
76 23 0.21
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (75 bp):
CAGGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
CAAAAACATT
Found at i:1743145 original size:21 final size:20
Alignment explanation
Indices: 1743117--1743157 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1743107 AACATAACCC
* *
1743117 CAGGGGGGTATCGGTTCCCT
1 CAGGGGGGGATCGATTCCCT
1743137 CAGGGGGGGATCGATTCCCT
1 CAGGGGGGGATCGATTCCCT
1743157 C
1 C
1743158 TGCACCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.39, T:0.22
Consensus pattern (20 bp):
CAGGGGGGGATCGATTCCCT
Found at i:1748988 original size:75 final size:74
Alignment explanation
Indices: 1748885--1749081 Score: 243
Period size: 75 Copynumber: 2.6 Consensus size: 74
1748875 GACCGTTGAA
* ** *
1748885 CAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
1 CAGGGGGGAATCGGT-TCCCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
**
1748950 CAAAAATGTT
65 CAAAAACATT
* * *
1748960 TAGGGGGGAATCGGTTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 CAGGGGGGAATCGGTTCC-CCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
* *
1749025 CCAAACCATT
65 CAAAAACATT
* *
1749035 CATGGGGGAATCGGTT-CCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 CAGGGGGGAATCGGTTCCCCTAT-GGGGGAATCGGTTCCCTCCGAGCA
1749082 ATCTATAATT
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
73 5 0.05
74 26 0.25
75 75 0.71
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.22
Consensus pattern (74 bp):
CAGGGGGGAATCGGTTCCCCTATGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAAC
AAAAACATT
Found at i:1756229 original size:64 final size:63
Alignment explanation
Indices: 1756151--1756312 Score: 173
Period size: 64 Copynumber: 2.5 Consensus size: 63
1756141 TCCTTAACAT
* * *
1756151 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCAATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCAATGTTTCCATTTTTAA-GGG
* * ** * *
1756215 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCAATGTTTCCATTTTTAAGGG
* * *
1756279 GTGCTTCGATGCACTTCCTGTGGATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
1756313 CTGAACAATT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 2 0.02
64 70 0.86
65 9 0.11
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCAATGTTTCCATTTTTAAGGG
Found at i:1761924 original size:21 final size:21
Alignment explanation
Indices: 1761898--1761937 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1761888 ACATAGAATT
*
1761898 TGTCCCGAATGACAACATAGA
1 TGTCCCGAAGGACAACATAGA
*
1761919 TGTCCCGAAGGACCACATA
1 TGTCCCGAAGGACAACATA
1761938 TAACACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (21 bp):
TGTCCCGAAGGACAACATAGA
Found at i:1765778 original size:21 final size:21
Alignment explanation
Indices: 1765754--1765803 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
1765744 ATGTGTTTAT
1765754 TATGAAAAGTGATAAAAGAGA
1 TATGAAAAGTGATAAAAGAGA
1765775 TATGAAAAGTGATAAAAGAGA
1 TATGAAAAGTGATAAAAGAGA
*
1765796 TATAAAAA
1 TATGAAAA
1765804 TGAGAAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (21 bp):
TATGAAAAGTGATAAAAGAGA
Found at i:1765909 original size:18 final size:18
Alignment explanation
Indices: 1765886--1765920 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1765876 TCAAGGGATT
1765886 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCCTTCGGGAC
1765904 ATAGTGGTCCTTCGGGA
1 ATAGTGGTCCTTCGGGA
1765921 TAAATATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (18 bp):
ATAGTGGTCCTTCGGGAC
Found at i:1769227 original size:23 final size:22
Alignment explanation
Indices: 1769201--1769284 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 22
1769191 CGTATAAATG
* *
1769201 CACCGAAGTGTCGCGTAGAATTA
1 CACCGTAGTG-CGCATAGAATTA
*
1769224 CACCGTAGTGCCACATAGAATTA
1 CACCGTAGTG-CGCATAGAATTA
* *
1769247 CACCGTAGTGCTGCTTAGAATTG
1 CACCGTAGTGC-GCATAGAATTA
1769270 CACCGTAGTGC-CATA
1 CACCGTAGTGCGCATA
1769285 TAATAATGTC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
21 3 0.06
22 1 0.02
23 48 0.92
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (22 bp):
CACCGTAGTGCGCATAGAATTA
Found at i:1772314 original size:17 final size:17
Alignment explanation
Indices: 1772294--1772333 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1772284 TTAGGAGAAA
1772294 TTAAGTAAAAGGAGGTT
1 TTAAGTAAAAGGAGGTT
*
1772311 TTAAGTAAAAGGAGTTT
1 TTAAGTAAAAGGAGGTT
1772328 TTAAGT
1 TTAAGT
1772334 GAATTCTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (17 bp):
TTAAGTAAAAGGAGGTT
Found at i:1773699 original size:14 final size:15
Alignment explanation
Indices: 1773680--1773708 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1773670 AAGTTTGAAA
1773680 TGATAT-AAGTTATG
1 TGATATGAAGTTATG
1773694 TGATATGAAGTTATG
1 TGATATGAAGTTATG
1773709 GGTATATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (15 bp):
TGATATGAAGTTATG
Found at i:1774195 original size:32 final size:31
Alignment explanation
Indices: 1774145--1774243 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 31
1774135 TCTAGCATTG
* *
1774145 CCTATGTCTTTCGAGACATATGGACAGTGTTA
1 CCTATGTCCTTCGGGACATATGGACAGT-TTA
*
1774177 CCTATGTCCTTCGGGACATATGGACAAGATTA
1 CCTATGTCCTTCGGGACATATGGAC-AGTTTA
* ** * *
1774209 CCTATGTTCTAAGGAACATATGGACAATTTA
1 CCTATGTCCTTCGGGACATATGGACAGTTTA
1774240 CCTA
1 CCTA
1774244 GGTTCTTTGG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
31 8 0.14
32 47 0.82
33 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (31 bp):
CCTATGTCCTTCGGGACATATGGACAGTTTA
Found at i:1775276 original size:17 final size:17
Alignment explanation
Indices: 1775250--1775283 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1775240 CAAAAAACAT
1775250 AAAATATGACTTTTTGG
1 AAAATATGACTTTTTGG
*
1775267 AAAATTTGACTTTTTGG
1 AAAATATGACTTTTTGG
1775284 GTCAAAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (17 bp):
AAAATATGACTTTTTGG
Found at i:1777552 original size:24 final size:24
Alignment explanation
Indices: 1777501--1777553 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1777491 TAGTCAAAAT
* *
1777501 TGCCACGTAGAGTTTACACTGAAA
1 TGCCACGTAGAGTATACACCGAAA
* *
1777525 TGCCACGTAGAGTATGCACCGAAG
1 TGCCACGTAGAGTATACACCGAAA
1777549 TGCCA
1 TGCCA
1777554 TATAGATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (24 bp):
TGCCACGTAGAGTATACACCGAAA
Found at i:1777706 original size:15 final size:15
Alignment explanation
Indices: 1777686--1777738 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
1777676 GTATCATTTA
*
1777686 TTCACATAGAACATT
1 TTCACATAAAACATT
1777701 TTCACATAAAACATT
1 TTCACATAAAACATT
* * *
1777716 TTCACGTATAACATA
1 TTCACATAAAACATT
1777731 TTCACATA
1 TTCACATA
1777739 CTAATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.34
Consensus pattern (15 bp):
TTCACATAAAACATT
Found at i:1778724 original size:18 final size:19
Alignment explanation
Indices: 1778701--1778747 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1778691 AAGCTTCTAT
*
1778701 ACCAACCAAAGATTCAA-A
1 ACCAACCAAAAATTCAAGA
1778719 ACCAACCCAAAAATTCAAGA
1 ACCAA-CCAAAAATTCAAGA
*
1778739 AACAACCAA
1 ACCAACCAA
1778748 CTTGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.20
19 15 0.60
20 5 0.20
ACGTcount: A:0.57, C:0.30, G:0.04, T:0.09
Consensus pattern (19 bp):
ACCAACCAAAAATTCAAGA
Found at i:1781939 original size:51 final size:51
Alignment explanation
Indices: 1781878--1781982 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
1781868 GGCTATTTTA
1781878 TCATTCTTTTGTTGTGGGAACTTAAATTTTTTTTATGGAAACTCACGGATT
1 TCATTCTTTTGTTGTGGGAACTTAAATTTTTTTTATGGAAACTCACGGATT
* *
1781929 TCATTGTTTTGTTGTGGGAACTTAAATTTTTTTTATGGATACTCACGGATT
1 TCATTCTTTTGTTGTGGGAACTTAAATTTTTTTTATGGAAACTCACGGATT
1781980 TCA
1 TCA
1781983 GTGTGAAGTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.48
Consensus pattern (51 bp):
TCATTCTTTTGTTGTGGGAACTTAAATTTTTTTTATGGAAACTCACGGATT
Found at i:1788262 original size:19 final size:19
Alignment explanation
Indices: 1788238--1788275 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1788228 AGTAGATAAC
1788238 TGCTTTCAAAATCAAAACT
1 TGCTTTCAAAATCAAAACT
1788257 TGCTTTCAAAATCAAAACT
1 TGCTTTCAAAATCAAAACT
1788276 GGATCATCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (19 bp):
TGCTTTCAAAATCAAAACT
Found at i:1790079 original size:39 final size:39
Alignment explanation
Indices: 1790013--1790096 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 39
1790003 AAAACATAAA
* *
1790013 ATTGTCATTTATGATCGAGGTGGTGTT-GTACATGATATT
1 ATTGTCATTGATGATCGAGGTGATGTTGGT-CATGATATT
*
1790052 ATTGTCATTGATTATCG-GGATGATGTTGGTCATGATATT
1 ATTGTCATTGATGATCGAGG-TGATGTTGGTCATGATATT
1790091 ACTTGT
1 A-TTGT
1790097 AGTGAACGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
38 2 0.05
39 31 0.79
40 6 0.15
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.44
Consensus pattern (39 bp):
ATTGTCATTGATGATCGAGGTGATGTTGGTCATGATATT
Found at i:1809905 original size:21 final size:21
Alignment explanation
Indices: 1809863--1809905 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1809853 TTTTCGGGCT
* * *
1809863 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
1809884 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
1809905 A
1 A
1809906 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:1809956 original size:21 final size:21
Alignment explanation
Indices: 1809932--1809972 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1809922 GAATGCTAGA
*
1809932 GGGGAATCGATACCCCCATGG
1 GGGGAACCGATACCCCCATGG
*
1809953 GGGGAACCGATTCCCCCATG
1 GGGGAACCGATACCCCCATG
1809973 AGAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.32, G:0.32, T:0.15
Consensus pattern (21 bp):
GGGGAACCGATACCCCCATGG
Found at i:1810715 original size:150 final size:148
Alignment explanation
Indices: 1810446--1810749 Score: 536
Period size: 150 Copynumber: 2.0 Consensus size: 148
1810436 GGGTAGAGGG
* * *
1810446 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTAAGTCTTGAAAGACACATG
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTAAGTCTTGAAAGACACATA
* *
1810511 CTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTAT
66 CTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTAC
1810576 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
*
1810594 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGT-AAGTCTT-GAAAGACACA
1810659 TACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
64 TACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
1810724 ACATGGCACTACGGTGCAAT
129 ACATGGCACTACGGTGCAAT
1810744 TCTACG
1 TCTACG
1810750 GCACTTCGGT
Statistics
Matches: 148, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 43 0.29
149 7 0.05
150 98 0.66
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTAAGTCTTGAAAGACACATA
CTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTAC
ATGGCACTACGGTGCAAT
Found at i:1810770 original size:21 final size:21
Alignment explanation
Indices: 1810728--1810770 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1810718 ATCATTACAT
*
1810728 GGCACTACGGTGCAATTCTAC
1 GGCACTACGGTGCAATTATAC
* *
1810749 GGCACTTCGGTGCATTTATAC
1 GGCACTACGGTGCAATTATAC
1810770 G
1 G
1810771 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGCACTACGGTGCAATTATAC
Found at i:1816844 original size:21 final size:21
Alignment explanation
Indices: 1816802--1816844 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1816792 TTTTCGGGCT
* * *
1816802 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
1816823 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
1816844 A
1 A
1816845 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:1816896 original size:20 final size:20
Alignment explanation
Indices: 1816871--1816908 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1816861 GAATGCTAGA
*
1816871 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
1816891 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
1816909 TGAGAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:1817687 original size:150 final size:149
Alignment explanation
Indices: 1817381--1817696 Score: 526
Period size: 150 Copynumber: 2.1 Consensus size: 149
1817371 GGGTAGAGGG
* *
1817381 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
1817446 GCTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
*
1817511 TATGGCACTACAGTGCAAT
131 CATGGCACTACAGTGCAAT
** *
1817530 TGGACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTT-GAAAGACACA
1817595 TACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
65 TACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
*
1817660 ACATGGCACTACGGTGCAAT
130 ACATGGCACTACAGTGCAAT
1817680 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1817697 TGCATTTATA
Statistics
Matches: 154, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
149 50 0.32
150 104 0.68
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
CATGGCACTACAGTGCAAT
Found at i:1817708 original size:23 final size:23
Alignment explanation
Indices: 1817664--1817708 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1817654 ATCATTACAT
*
1817664 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
1817687 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1817709 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1819285 original size:93 final size:93
Alignment explanation
Indices: 1819167--1819550 Score: 423
Period size: 93 Copynumber: 4.3 Consensus size: 93
1819157 ATTTATTTTA
*
1819167 TTCGGTTAATAATTTTTAAATAAATTTCTATTCGATTAACGGTCAAATAATTTCAGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCTATTCGATTAACGGTCAAATAATTTCAGTTCGATTAA
*
1819232 TGGTTAAAG-AAAAAATCGGTTGATTTGG
66 T-GTTAAAGAAAAAAATCGGTTAATTTGG
* * *
1819260 TTCGGTTAATAAATTTCAAATAAATTT-TGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTA
1 TTCGGTTAATAATTTTCAAATAAATTTCT-ATTCGATTAACGGTCAAATAATTTCAGTTCGATTA
1819324 ATGATT----AAAAAAATCGGTT-A-----
65 ATG-TTAAAGAAAAAAATCGGTTAATTTGG
** * *
1819344 --------ATAATTTTCAAATAAATTTCGGTTCAATTAACGGTCAAAATAATTTCTGTTCGATTA
1 TTCGGTTAATAATTTTCAAATAAATTTCTATTCGATTAACGGTC-AAATAATTTCAGTTCGATTA
1819401 ATGTTAAAGAAAAAAATTCGGTTAATTTGG
65 ATGTTAAAGAAAAAAA-TCGGTTAATTTGG
* * *
1819431 TTCGGTTAATAATTCTCAAATAAATTTC-AGTTCGATTAATGGTTAAATAATTTCAGTTCGATTA
1 TTCGGTTAATAATTTTCAAATAAATTTCTA-TTCGATTAACGGTCAAATAATTTCAGTTCGATTA
1819495 ATGTTAAAGAAAAAAATAATCGGTTAATTTGG
65 ATGTTAAAG--AAAAA-AATCGGTTAATTTGG
*
1819527 TTCGGTTGATAATTTTCAAATAAA
1 TTCGGTTAATAATTTTCAAATAAA
1819551 ATTCGGTTCT
Statistics
Matches: 247, Mismatches: 16, Indels: 53
0.78 0.05 0.17
Matches are distributed among these distances:
76 34 0.14
77 22 0.09
80 7 0.03
81 6 0.02
82 1 0.00
89 1 0.00
90 12 0.05
92 2 0.01
93 62 0.25
94 28 0.11
95 30 0.12
96 40 0.16
97 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (93 bp):
TTCGGTTAATAATTTTCAAATAAATTTCTATTCGATTAACGGTCAAATAATTTCAGTTCGATTAA
TGTTAAAGAAAAAAATCGGTTAATTTGG
Found at i:1819354 original size:76 final size:77
Alignment explanation
Indices: 1819261--1819413 Score: 247
Period size: 76 Copynumber: 2.0 Consensus size: 77
1819251 TTGATTTGGT
* *
1819261 TCGGTTAATAAATTTCAAATAAATTTTGGTTCGATTAACGGTC-AAATAATTTCGGTTCGATTAA
1 TCGGTTAATAAATTTCAAATAAATTTCGGTTCAATTAACGGTCAAAATAATTTCGGTTCGATTAA
1819325 TGATTAAA-AAAA
66 TG-TTAAAGAAAA
* *
1819337 TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAACGGTCAAAATAATTTCTGTTCGATTAA
1 TCGGTTAATAAATTTCAAATAAATTTCGGTTCAATTAACGGTCAAAATAATTTCGGTTCGATTAA
1819402 TGTTAAAGAAAA
66 TGTTAAAGAAAA
1819414 AAATTCGGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
76 45 0.63
77 26 0.37
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (77 bp):
TCGGTTAATAAATTTCAAATAAATTTCGGTTCAATTAACGGTCAAAATAATTTCGGTTCGATTAA
TGTTAAAGAAAA
Found at i:1819381 original size:27 final size:27
Alignment explanation
Indices: 1819275--1819401 Score: 104
Period size: 27 Copynumber: 4.9 Consensus size: 27
1819265 TTAATAAATT
*
1819275 TCAAATAAATTTTGGTTCGATTAACGG
1 TCAAATAAATTTCGGTTCGATTAACGG
* *
1819302 TCAAAT-AATTTCGGTTCGATTAATGA
1 TCAAATAAATTTCGGTTCGATTAACGG
* * * ***
1819328 TTAAA-AAA-ATCGGTT--AATAATTT
1 TCAAATAAATTTCGGTTCGATTAACGG
*
1819351 TCAAATAAATTTCGGTTCAATTAACGG
1 TCAAATAAATTTCGGTTCGATTAACGG
*
1819378 TCAAA-ATAATTTCTGTTCGATTAA
1 TCAAATA-AATTTCGGTTCGATTAA
1819402 TGTTAAAGAA
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
23 9 0.12
24 3 0.04
25 12 0.15
26 24 0.31
27 30 0.38
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (27 bp):
TCAAATAAATTTCGGTTCGATTAACGG
Found at i:1819488 original size:26 final size:26
Alignment explanation
Indices: 1819448--1819502 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 26
1819438 AATAATTCTC
1819448 AAATAAATTTCAGTTCGATTAATGGTT
1 AAATAAATTTCAGTTCGATTAAT-GTT
1819475 AAAT-AATTTCAGTTCGATTAATGTT
1 AAATAAATTTCAGTTCGATTAATGTT
1819500 AAA
1 AAA
1819503 GAAAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 6 0.21
26 18 0.64
27 4 0.14
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (26 bp):
AAATAAATTTCAGTTCGATTAATGTT
Found at i:1819492 original size:171 final size:169
Alignment explanation
Indices: 1819168--1819507 Score: 515
Period size: 171 Copynumber: 2.0 Consensus size: 169
1819158 TTTATTTTAT
* * *
1819168 TCGGTTAATAATTTTTAAATAAATTTCTATTCGATTAACGGTCAAATAATTTCAGTTCGATTAAT
1 TCGGTTAATAATTTTCAAATAAATTTCGATTCAATTAACGGTCAAATAATTTCAGTTCGATTAAT
* **
1819233 GGTTAAAGAAAAAATCGGTTGATTTGGTTCGGTTAATAAATTTCAAATAAATTTTGGTTCGATTA
66 GGTTAAAGAAAAAATCGGTTAATTTGGTTCGGTTAATAAATTTCAAATAAATTTCAGTTCGATTA
*
1819298 ACGGTCAAATAATTTCGGTTCGATTAATGATTAAA-AAAA
131 ACGGTCAAATAATTTCAGTTCGATTAATG-TTAAAGAAAA
* *
1819337 TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAACGGTCAAAATAATTTCTGTTCGATTAA
1 TCGGTTAATAATTTTCAAATAAATTTCGATTCAATTAACGGTC-AAATAATTTCAGTTCGATTAA
1819402 T-GTTAAAGAAAAAAATTCGGTTAATTTGGTTCGGTTAAT-AATTCTCAAATAAATTTCAGTTCG
65 TGGTTAAAG-AAAAAA-TCGGTTAATTTGGTTCGGTTAATAAATT-TCAAATAAATTTCAGTTCG
* *
1819465 ATTAATGGTTAAATAATTTCAGTTCGATTAATGTTAAAGAAAA
127 ATTAACGGTCAAATAATTTCAGTTCGATTAATGTTAAAGAAAA
1819508 AAATAATCGG
Statistics
Matches: 155, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
169 46 0.30
170 36 0.23
171 73 0.47
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (169 bp):
TCGGTTAATAATTTTCAAATAAATTTCGATTCAATTAACGGTCAAATAATTTCAGTTCGATTAAT
GGTTAAAGAAAAAATCGGTTAATTTGGTTCGGTTAATAAATTTCAAATAAATTTCAGTTCGATTA
ACGGTCAAATAATTTCAGTTCGATTAATGTTAAAGAAAA
Found at i:1819546 original size:96 final size:94
Alignment explanation
Indices: 1819337--1819573 Score: 366
Period size: 96 Copynumber: 2.5 Consensus size: 94
1819327 ATTAAAAAAA
* * *
1819337 TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAACGGTCAAAATAATTTCTGTTCGATTAA
1 TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAATGGT-TAAATAATTTCAGTTCGATTAA
1819402 TGTTAAAGAAAAAAATTCGGTTAATTTGGT
65 TGTTAAAGAAAAAAATTCGGTTAATTTGGT
* * *
1819432 TCGGTTAATAATTCTCAAATAAATTTCAGTTCGATTAATGGTTAAATAATTTCAGTTCGATTAAT
1 TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAATGGTTAAATAATTTCAGTTCGATTAAT
1819497 GTTAAAGAAAAAAATAATCGGTTAATTTGGT
66 GTTAAAGAAAAAAAT--TCGGTTAATTTGGT
* * *
1819528 TCGGTTGATAATTTTCAAATAAAATTCGGTTCTATTAATGGTTAAA
1 TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAATGGTTAAA
1819574 GAAAAAAAAA
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
94 36 0.28
95 38 0.29
96 55 0.43
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (94 bp):
TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAATGGTTAAATAATTTCAGTTCGATTAAT
GTTAAAGAAAAAAATTCGGTTAATTTGGT
Found at i:1819676 original size:67 final size:66
Alignment explanation
Indices: 1819475--1819681 Score: 221
Period size: 62 Copynumber: 3.1 Consensus size: 66
1819465 ATTAATGGTT
* *
1819475 AAAT-AATTTCAGTTCGATTAAT-GTTAAAGAAAAAAATAATCGGTTAATTTGGTTCGGTTGATA
1 AAATAAATTTCAGTTCAATTAATGGTT--A-AAAAAAA-AATCGGTTAATTT-GTTCGGTTAATA
1819538 ATTTTC
61 ATTTTC
* * * * *
1819544 AAATAAAATTCGGTTCTATTAATGGTTAAAGAAAAAAA-----AAATTTATTCGGTTAATAATTT
1 AAATAAATTTCAGTTCAATTAATGGTTAAA-AAAAAAATCGGTTAATTTGTTCGGTTAATAATTT
*
1819604 CC
65 TC
*
1819606 AAATAAATTTCAGTTCAATTAATGGTTAAATAAAAAATCGGTTAATTCTGTTCGGTTAATAATTT
1 AAATAAATTTCAGTTCAATTAATGGTTAAAAAAAAAATCGGTTAATT-TGTTCGGTTAATAATTT
1819671 TC
65 TC
1819673 AAATAAATT
1 AAATAAATT
1819682 ATTTTTTTCT
Statistics
Matches: 115, Mismatches: 14, Indels: 20
0.77 0.09 0.13
Matches are distributed among these distances:
61 6 0.05
62 42 0.37
63 5 0.04
66 4 0.03
67 26 0.23
68 4 0.03
69 10 0.09
70 15 0.13
71 3 0.03
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.38
Consensus pattern (66 bp):
AAATAAATTTCAGTTCAATTAATGGTTAAAAAAAAAATCGGTTAATTTGTTCGGTTAATAATTTT
C
Done.