Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 56
Found at i:1719396 original size:27 final size:27
Alignment explanation
Indices: 1719285--1719396 Score: 66
Period size: 27 Copynumber: 3.8 Consensus size: 27
1719275 TAAATTAAAG
1719285 AAAAATAAAATAAAGGAAATAAAAATAAATGA
1 AAAAAT-AAAT-AA-GAAA-AAAAATAAAT-A
* * * *
1719317 AAAAAGGAAAAATAGATAAAGAAAAGACATA
1 AAAAA-TAAATA-AGA-AAA-AAAATAAATA
*
1719348 AAAAATAAATAAGATAAAAAATAAATA
1 AAAAATAAATAAGAAAAAAAATAAATA
1719375 AAAAA-AACATAA-AAAAAGAAAT
1 AAAAATAA-ATAAGAAAAA-AAAT
1719397 TAAAAAATGA
Statistics
Matches: 64, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
26 6 0.09
27 21 0.33
28 2 0.03
29 3 0.05
30 4 0.06
31 10 0.16
32 18 0.28
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (27 bp):
AAAAATAAATAAGAAAAAAAATAAATA
Found at i:1719512 original size:4 final size:4
Alignment explanation
Indices: 1719503--1719581 Score: 54
Period size: 4 Copynumber: 18.5 Consensus size: 4
1719493 GTATATACAT
* *
1719503 AATA AATA AATA AATA AATA AATA AGAGA AA-A ATACA AATGAA AATA
1 AATA AATA AATA AATA AATA AATA A-ATA AATA A-ATA AAT--A AATA
*
1719550 AATA TATA AATAA AACTA ATATA AA-A AATA AA
1 AATA AATA AAT-A AA-TA A-ATA AATA AATA AA
1719582 AGAAAAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
3 5 0.08
4 38 0.61
5 13 0.21
6 6 0.10
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:1719588 original size:13 final size:13
Alignment explanation
Indices: 1719572--1719603 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1719562 AAACTAATAT
1719572 AAAAAATAAAAGA
1 AAAAAATAAAAGA
1719585 AAAAAATAAAAGA
1 AAAAAATAAAAGA
1719598 AAAAAA
1 AAAAAA
1719604 CAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAAATAAAAGA
Found at i:1719595 original size:20 final size:21
Alignment explanation
Indices: 1719503--1719626 Score: 69
Period size: 23 Copynumber: 5.7 Consensus size: 21
1719493 GTATATACAT
*
1719503 AATAAATAAAT-AAATAAAT-A
1 AATAAA-AAATAAAACAAATAA
*
1719523 AATAAGAGAAA-AATACAAATGAA
1 AATAA-A-AAATAAAACAAAT-AA
*
1719546 AATAAATATATAAATA-AAACTAA
1 AATAAA-AAATAAA-ACAAA-TAA
* *
1719569 TATAAAAAATAAAAGAAA-AA
1 AATAAAAAATAAAACAAATAA
*
1719589 AATAAAAGAAAAAAACAAATAA
1 AATAAAA-AATAAAACAAATAA
1719611 AATAAGAAAAATAAAA
1 AAT-A-AAAAATAAAA
1719627 AGTAAATATA
Statistics
Matches: 80, Mismatches: 12, Indels: 21
0.71 0.11 0.19
Matches are distributed among these distances:
20 13 0.16
21 20 0.25
22 17 0.21
23 25 0.31
24 5 0.06
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (21 bp):
AATAAAAAATAAAACAAATAA
Found at i:1719610 original size:17 final size:18
Alignment explanation
Indices: 1719574--1719612 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1719564 ACTAATATAA
*
1719574 AAAATAAAAGAAAAAAAT
1 AAAAGAAAAGAAAAAAAT
*
1719592 AAAAGAAAA-AAACAAAT
1 AAAAGAAAAGAAAAAAAT
1719609 AAAA
1 AAAA
1719613 TAAGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.85, C:0.03, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAGAAAAAAAT
Found at i:1719620 original size:17 final size:16
Alignment explanation
Indices: 1719581--1719621 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
1719571 TAAAAAATAA
1719581 AAGAAAAAAATAAAAG
1 AAGAAAAAAATAAAAG
* *
1719597 AAAAAAACAAATAAAAT
1 AAGAAAA-AAATAAAAG
1719614 AAGAAAAA
1 AAGAAAAA
1719622 TAAAAAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (16 bp):
AAGAAAAAAATAAAAG
Found at i:1719633 original size:25 final size:23
Alignment explanation
Indices: 1719567--1719634 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 23
1719557 AAATAAAACT
1719567 AATATAAAAAAT-AAAAGAAA-AA
1 AATA-AAAAAATAAAAAGAAATAA
* *
1719589 AATAAAAGAA-AAAAACAAATAA
1 AATAAAAAAATAAAAAGAAATAA
1719611 AATAAGAAAAATAAAAAGTAAATA
1 AATAA-AAAAATAAAAAG-AAATA
1719635 TATGAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
21 12 0.32
22 11 0.30
23 4 0.11
24 5 0.14
25 5 0.14
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.13
Consensus pattern (23 bp):
AATAAAAAAATAAAAAGAAATAA
Found at i:1719646 original size:66 final size:66
Alignment explanation
Indices: 1719504--1719626 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
1719494 TATATACATA
* * * * *
1719504 ATAAATAAAT-AAATAAATAAATAAGAGAAAAATACAAATGAAAATAAATATATAAATAAAACTA
1 ATAAA-AAATAAAAGAAAAAAATAAAAGAAAAAAACAAATGAAAATAAAGATATAAATAAAACTA
1719568 AT
65 AT
1719570 ATAAAAAATAAAAGAAAAAAATAAAAGAAAAAAACAAAT-AAAAT-AAGA-A-AAATAAAA
1 ATAAAAAATAAAAGAAAAAAATAAAAGAAAAAAACAAATGAAAATAAAGATATAAATAAAA
1719627 AGTAAATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
62 8 0.16
63 1 0.02
64 3 0.06
65 9 0.18
66 30 0.59
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (66 bp):
ATAAAAAATAAAAGAAAAAAATAAAAGAAAAAAACAAATGAAAATAAAGATATAAATAAAACTAA
T
Found at i:1721523 original size:90 final size:90
Alignment explanation
Indices: 1721417--1721598 Score: 285
Period size: 90 Copynumber: 2.0 Consensus size: 90
1721407 CCAATGGATG
* *
1721417 TTAAAAGGGGTATTTTTAATCTTGAAGTAAAATGAAAGGGACTAGGAGAATAATTATCCTCTTAG
1 TTAAAAGGGGTATTTTTAATCTTGAAGTAAAATGAAAGGGACTAAGAGAATAATTATCCCCTTAG
*
1721482 ACTTTTGAAAAGTTGATTTTGTTTAA
66 ACTTTTGAAAAGGT-ATTTTGTTTAA
* * *
1721508 TTAAAA-GGGTATTTTTAATTTTGAAGTAAAATGAGAGGGACTAAGAGAGTAATTATCCCCTTAG
1 TTAAAAGGGGTATTTTTAATCTTGAAGTAAAATGAAAGGGACTAAGAGAATAATTATCCCCTTAG
*
1721572 ACTTTTGAAATGGTATTTTGTTTAA
66 ACTTTTGAAAAGGTATTTTGTTTAA
1721597 TT
1 TT
1721599 GGTGGTGATG
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 13 0.15
90 65 0.77
91 6 0.07
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (90 bp):
TTAAAAGGGGTATTTTTAATCTTGAAGTAAAATGAAAGGGACTAAGAGAATAATTATCCCCTTAG
ACTTTTGAAAAGGTATTTTGTTTAA
Found at i:1724547 original size:18 final size:20
Alignment explanation
Indices: 1724524--1724574 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 20
1724514 AGCCATTTTT
1724524 AGTATCGATACTCAA-GG-G
1 AGTATCGATACTCAAGGGAG
*
1724542 AGTATCAATAC-CAAGGGTAG
1 AGTATCGATACTCAAGGG-AG
1724562 AGTATCGATACTC
1 AGTATCGATACTC
1724575 CTAATAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 12 0.44
20 11 0.41
21 1 0.04
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (20 bp):
AGTATCGATACTCAAGGGAG
Found at i:1733234 original size:21 final size:21
Alignment explanation
Indices: 1733208--1733249 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1733198 ATTCTAGAAT
*
1733208 CTCGGTCTCGATACCAAACCC
1 CTCGGTCTCAATACCAAACCC
*
1733229 CTCGGTCTCAATACCGAACCC
1 CTCGGTCTCAATACCAAACCC
1733250 TCAGTATCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.43, G:0.14, T:0.19
Consensus pattern (21 bp):
CTCGGTCTCAATACCAAACCC
Found at i:1735929 original size:2 final size:2
Alignment explanation
Indices: 1735922--1735982 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1735912 GATGTATAAG
1735922 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
1735964 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1735983 CAAAAGTATG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1737449 original size:142 final size:143
Alignment explanation
Indices: 1737294--1737563 Score: 380
Period size: 142 Copynumber: 1.9 Consensus size: 143
1737284 CATGTTGTTT
* * *
1737294 AAATTTGGTAAAAAATGAAGTTAAAATAAATGATAAATTAAAGGAATAAGAAGATTATGAAAAAT
1 AAATTTGGTAAAAAATGAACTTAAAATAAATGATAAATGAAAGAAATAAGAAGATTATGAAAAAT
* *
1737359 TGAATAACTAAATTGAAAAATAAAAAA-TAGTTATAAAAAAGAAGAACTGAAAGCACACATGTAT
66 TAAAGAACTAAATTGAAAAATAAAAAATTAGTTATAAAAAAGAAGAACTGAAAGCACACATGTAT
1737423 TCTACTATGGTTC
131 TCTACTATGGTTC
* * * * * *
1737436 AAATTTTGTAAAAAATGGACTTAAAATAAATGATGAATGGAAGAAATAAGGAGATTATGAAAATT
1 AAATTTGGTAAAAAATGAACTTAAAATAAATGATAAATGAAAGAAATAAGAAGATTATGAAAAAT
* * * * * *
1737501 TAAAGGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAGAGGAATTGAAAGTACACATGT
66 TAAAGAACTAAATTGAAAAATAAAAAATTAGTTATAAAAAAGAAGAACTGAAAGCACACATGT
1737564 GTTATACTGT
Statistics
Matches: 110, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
142 80 0.73
143 30 0.27
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.26
Consensus pattern (143 bp):
AAATTTGGTAAAAAATGAACTTAAAATAAATGATAAATGAAAGAAATAAGAAGATTATGAAAAAT
TAAAGAACTAAATTGAAAAATAAAAAATTAGTTATAAAAAAGAAGAACTGAAAGCACACATGTAT
TCTACTATGGTTC
Found at i:1742504 original size:20 final size:22
Alignment explanation
Indices: 1742465--1742504 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1742455 AGAGAAGATA
1742465 TTTCTCGTGTTTTAATAGAAGT
1 TTTCTCGTGTTTTAATAGAAGT
1742487 TTTCTCGT-TTTTAA-AGAA
1 TTTCTCGTGTTTTAATAGAA
1742505 AAAACTCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (22 bp):
TTTCTCGTGTTTTAATAGAAGT
Found at i:1744472 original size:17 final size:17
Alignment explanation
Indices: 1744452--1744499 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1744442 TCTCATACTT
1744452 TATATTAAAAATATAAA
1 TATATTAAAAATATAAA
* *
1744469 TATAATAATAATATAAA
1 TATATTAAAAATATAAA
*
1744486 -AAATTAAAAGATAT
1 TATATTAAAA-ATAT
1744500 TAAAATAGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
TATATTAAAAATATAAA
Found at i:1745732 original size:15 final size:16
Alignment explanation
Indices: 1745712--1745750 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1745702 ATGTATTGGG
*
1745712 CTTCTCGGG-TCGGAT
1 CTTCTCGGGTTCGGAC
*
1745727 CTTCTCGGGTTCGGGC
1 CTTCTCGGGTTCGGAC
1745743 CTTCTCGG
1 CTTCTCGG
1745751 ATTTGGTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.03, C:0.31, G:0.33, T:0.33
Consensus pattern (16 bp):
CTTCTCGGGTTCGGAC
Found at i:1745832 original size:3 final size:3
Alignment explanation
Indices: 1745824--1745886 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
1745814 AAATTGGGCT
* * * *
1745824 TAA TAA TAA TAA TAG TAG T-A TAA TATA CAA TTA TATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA
1745870 T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
1745887 GAACAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 3 0.06
3 42 0.84
4 5 0.10
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1745848 original size:17 final size:15
Alignment explanation
Indices: 1745826--1745885 Score: 68
Period size: 17 Copynumber: 3.8 Consensus size: 15
1745816 ATTGGGCTTA
1745826 ATAATAATAATAGTAGT
1 ATAATAATAATA-TA-T
*
1745843 ATAATATACAATTATAT
1 ATAATA-ATAA-TATAT
1745860 ATAATAATAATATA-
1 ATAATAATAATATAT
1745874 ATAATAATAATA
1 ATAATAATAATA
1745886 AGAACAGGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 12 0.31
15 4 0.10
16 3 0.08
17 13 0.33
18 5 0.13
19 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (15 bp):
ATAATAATAATATAT
Found at i:1745874 original size:11 final size:11
Alignment explanation
Indices: 1745826--1745882 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
1745816 ATTGGGCTTA
1745826 ATAATAATAAT
1 ATAATAATAAT
*
1745837 AGTAGT-ATAAT
1 A-TAATAATAAT
*
1745848 ATACA-ATTATAT
1 ATA-ATAATA-AT
1745860 ATAATAATAAT
1 ATAATAATAAT
1745871 ATAATAATAAT
1 ATAATAATAAT
1745882 A
1 A
1745883 ATAAGAACAG
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
10 2 0.05
11 24 0.65
12 11 0.30
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:1746615 original size:29 final size:29
Alignment explanation
Indices: 1746569--1746634 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
1746559 GCTATATAAT
*
1746569 TTATTGCATATTAACCACTAACTTTTATG
1 TTATTGCATATTAACCACTAAATTTTATG
* *
1746598 TTATTGCATATTATCCACTAAATTTTATT
1 TTATTGCATATTAACCACTAAATTTTATG
1746627 TTATTGCA
1 TTATTGCA
1746635 CTCTAACCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.48
Consensus pattern (29 bp):
TTATTGCATATTAACCACTAAATTTTATG
Found at i:1746797 original size:135 final size:127
Alignment explanation
Indices: 1746647--1747135 Score: 561
Period size: 127 Copynumber: 3.8 Consensus size: 127
1746637 CTAACCATTG
* * * *
1746647 TTTA-TTTATTTATTTATTTATTGTTTCTATTATTCGATTCGACCTTGTGGTGACCAGATCCGGG
1 TTTATTTTATTTATATATAT-TTGTTTCAATTATTCGATTCGACCTTGTGGTGACCAGATTCGGG
* * * * *
1746711 GTATGATCCACATTATTATGGTTCAAACTCTGCTAACTACTGACTTTCATTT-TATTGAACTCTA
65 GTATGACCCACATTATTATGGTTCAGACTCTGCTAACCACTAACTTT--TTTATATT-TA-TCTA
1746775 ACCT
126 A--T
* * * *
1746779 TTTTTTGTCTATTTATTTATTTATTGTTTCTATTATTCGATTCGACCTTGTGGTGACCAGATTCG
1 TTTATT-T-TATTTATATATAT-TTGTTTCAATTATTCGATTCGACCTTGTGGTGACCAGATTCG
* * * *
1746844 GGGTATGATCCACATTATTATGGTTCGGACTCTGCTAACCACTAACTTTTTTATATTTATTTTAT
63 GGGTATGACCCACATTATTATGGTTCAGACTCTGCTAACCACTAACTTTTTTATATTTATCTAAT
* * * * * *
1746909 TTTATTTTATTTGTATACATTTGTTTGAATTGTTCGATTCGACCTTGTGGTTACCTGATTCGGGG
1 TTTATTTTATTTATATATATTTGTTTCAATTATTCGATTCGACCTTGTGGTGACCAGATTCGGGG
* * * *
1746974 TATGACCCGCATTATTATGGTTCGGACTCTGCTAACCACTAACTTTTTTATATTTATTTTAT
66 TATGACCCACATTATTATGGTTCAGACTCTGCTAACCACTAACTTTTTTATATTTATCTAAT
* * * *
1747036 TTTATTTTATTTGTATATATTTGTTTGAATTGTTCGATTCGACCTTGTGGTTA-CATGATTCGGG
1 TTTATTTTATTTATATATATTTGTTTCAATTATTCGATTCGACCTTGTGGTGACCA-GATTCGGG
* *
1747100 GTATGACCCGCATTATTATGGTCCAGACTCTGCTAA
65 GTATGACCCACATTATTATGGTTCAGACTCTGCTAA
1747136 TCGCTAACAT
Statistics
Matches: 327, Mismatches: 25, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
126 1 0.00
127 194 0.59
128 9 0.03
129 1 0.00
130 6 0.02
132 6 0.02
133 5 0.02
134 5 0.02
135 100 0.31
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.46
Consensus pattern (127 bp):
TTTATTTTATTTATATATATTTGTTTCAATTATTCGATTCGACCTTGTGGTGACCAGATTCGGGG
TATGACCCACATTATTATGGTTCAGACTCTGCTAACCACTAACTTTTTTATATTTATCTAAT
Found at i:1746987 original size:127 final size:127
Alignment explanation
Indices: 1746814--1747135 Score: 572
Period size: 127 Copynumber: 2.5 Consensus size: 127
1746804 GTTTCTATTA
* * * *
1746814 TTCGATTCGACCTTGTGGTGACCAGATTCGGGGTATGATCCACATTATTATGGTTCGGACTCTGC
1 TTCGATTCGACCTTGTGGTTACCTGATTCGGGGTATGACCCGCATTATTATGGTTCGGACTCTGC
1746879 TAACCACTAACTTTTTTATATTTATTTTATTTTATTTTATTTGTATACATTTGTTTGAATTG
66 TAACCACTAACTTTTTTATATTTATTTTATTTTATTTTATTTGTATACATTTGTTTGAATTG
1746941 TTCGATTCGACCTTGTGGTTACCTGATTCGGGGTATGACCCGCATTATTATGGTTCGGACTCTGC
1 TTCGATTCGACCTTGTGGTTACCTGATTCGGGGTATGACCCGCATTATTATGGTTCGGACTCTGC
*
1747006 TAACCACTAACTTTTTTATATTTATTTTATTTTATTTTATTTGTATATATTTGTTTGAATTG
66 TAACCACTAACTTTTTTATATTTATTTTATTTTATTTTATTTGTATACATTTGTTTGAATTG
* * *
1747068 TTCGATTCGACCTTGTGGTTACATGATTCGGGGTATGACCCGCATTATTATGGTCCAGACTCTGC
1 TTCGATTCGACCTTGTGGTTACCTGATTCGGGGTATGACCCGCATTATTATGGTTCGGACTCTGC
1747133 TAA
66 TAA
1747136 TCGCTAACAT
Statistics
Matches: 187, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 187 1.00
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.44
Consensus pattern (127 bp):
TTCGATTCGACCTTGTGGTTACCTGATTCGGGGTATGACCCGCATTATTATGGTTCGGACTCTGC
TAACCACTAACTTTTTTATATTTATTTTATTTTATTTTATTTGTATACATTTGTTTGAATTG
Found at i:1747153 original size:16 final size:16
Alignment explanation
Indices: 1747132--1747177 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
1747122 CCAGACTCTG
1747132 CTAATCGCTAACATTT
1 CTAATCGCTAACATTT
*
1747148 CTAATCGCT-A-ATTA
1 CTAATCGCTAACATTT
*
1747162 CTAATTGCTAACATTT
1 CTAATCGCTAACATTT
1747178 TATTTATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 11 0.44
15 2 0.08
16 12 0.48
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.39
Consensus pattern (16 bp):
CTAATCGCTAACATTT
Found at i:1748367 original size:23 final size:25
Alignment explanation
Indices: 1748321--1748375 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
1748311 AAAATCATTA
1748321 ATTTTTTAAAATAAAAGTCATAATT
1 ATTTTTTAAAATAAAAGTCATAATT
* *
1748346 ATTTTTTAAAATAATA-T-TTAATT
1 ATTTTTTAAAATAAAAGTCATAATT
1748369 ATTTTTT
1 ATTTTTT
1748376 TTTAAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 12 0.43
24 1 0.04
25 15 0.54
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
ATTTTTTAAAATAAAAGTCATAATT
Found at i:1754817 original size:2 final size:2
Alignment explanation
Indices: 1754810--1754857 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1754800 GTTTTAACCC
1754810 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
1754852 AT AT AT
1 AT AT AT
1754858 CAGCATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1756430 original size:192 final size:191
Alignment explanation
Indices: 1756084--1756490 Score: 545
Period size: 192 Copynumber: 2.1 Consensus size: 191
1756074 ATTCATAGTA
* * * * *
1756084 CTTTTGACTATTGCAAATTAAAAGATAATTTTTTAATTTGAATATTAGTAGGATAATTATTCTTT
1 CTTTTGAATATTTCAAATT-AAATAT-ATTATTTAATTTGAATATTAGTAGGATAATTACTCTTT
* * * *
1756149 TAATAAGTCAATTTAAAAAGGTATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATAT
64 GAATAAGTCAACTTAAAAAGGTATTTGTTATCTTTTTAACTTTGAATATTAAAAGATAATTATAC
* *
1756214 ACTTTTGTATATTTCAAATTAAAATAATATATATTTTAG-TTGAAATAGTAAAAGGAG-TTTAC
129 ACTTTTGTATATTTCAAATTAAAATAATACATATTTAAGTTTG-AATAGTAAAAGGAGTTTTAC
*
1756276 CTTTT-AATCATTGT-AAATTAAATATATTATTTAATTTGAATATTAGTATGATAATTACTCTTT
1 CTTTTGAAT-ATT-TCAAATTAAATATATTATTTAATTTGAATATTAGTAGGATAATTACTCTTT
** *
1756339 GAATGCGTCAACTTAAAAAGGTATTTGTTACCTTTTTTTTAACTTTGAATATT-AAAGATAATTA
64 GAATAAGTCAACTTAAAAAGGTATTTGTTA---TCTTTTTAACTTTGAATATTAAAAGATAATTA
* *
1756403 TACACTTTTGTTTATTTCAAATTAAAATAATACATATTTAAGTTTGAATAGTAAAATGAGTTTTA
126 TACACTTTTGTATATTTCAAATTAAAATAATACATATTTAAGTTTGAATAGTAAAAGGAGTTTTA
*
1756468 T
191 C
1756469 CTTTTGAATATTTCAAATTAAA
1 CTTTTGAATATTTCAAATTAAA
1756491 AGATATTGTT
Statistics
Matches: 188, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
190 61 0.32
191 7 0.04
192 76 0.40
193 41 0.22
194 3 0.02
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.46
Consensus pattern (191 bp):
CTTTTGAATATTTCAAATTAAATATATTATTTAATTTGAATATTAGTAGGATAATTACTCTTTGA
ATAAGTCAACTTAAAAAGGTATTTGTTATCTTTTTAACTTTGAATATTAAAAGATAATTATACAC
TTTTGTATATTTCAAATTAAAATAATACATATTTAAGTTTGAATAGTAAAAGGAGTTTTAC
Found at i:1762069 original size:18 final size:18
Alignment explanation
Indices: 1762046--1762080 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1762036 ACTGAATATT
*
1762046 TGTCCCGAAGGACCACTA
1 TGTCCCAAAGGACCACTA
1762064 TGTCCCAAAGGACCACT
1 TGTCCCAAAGGACCACT
1762081 GTAATCCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:1767628 original size:19 final size:18
Alignment explanation
Indices: 1767584--1767628 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1767574 TAATATCTTG
*
1767584 AATTTATACATATCATAT
1 AATTTATACATAACATAT
**
1767602 AACCTATACTATAACATAT
1 AATTTATAC-ATAACATAT
1767621 AATTTATA
1 AATTTATA
1767629 TCGCTTATCT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTTATACATAACATAT
Found at i:1790952 original size:105 final size:105
Alignment explanation
Indices: 1790780--1791440 Score: 1224
Period size: 105 Copynumber: 6.3 Consensus size: 105
1790770 GTGTTGTTTC
*
1790780 GAGTCCAATATCCTTCG-T-TGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
*
1790843 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
*
1790883 TAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
1790948 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
1790988 TAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG-CCTGAAATTGAGAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
1791052 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
1791092 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
1791157 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
1791197 TAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
1791262 CAGCGGT-CCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
1791301 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
1791366 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
1791406 GAGTCCAATATCCTTCGTTGTGAAGTTG-AATTGGC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
1791441 TCTGGGTAAA
Statistics
Matches: 544, Mismatches: 10, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
103 16 0.03
104 212 0.39
105 316 0.58
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
Found at i:1791046 original size:209 final size:209
Alignment explanation
Indices: 1790781--1791440 Score: 1238
Period size: 209 Copynumber: 3.2 Consensus size: 209
1790771 TGTTGTTTCG
*
1790781 AGTCCAATATCCTTCG-T-TGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC-CTGAAATTGAGAAATATTTGTTGACAACC
* *
1790844 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAGT
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
1790909 TGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
130 TGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
1790974 ACTTACGTTGTCTGT
195 ACTTACGTTGTCTGT
1790989 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCTGAAATTGAGAAATATTTGTTGACAACCA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCTGAAATTGAGAAATATTTGTTGACAACCA
1791054 GCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
1791119 GAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
1791184 CTTACGTTGTCTGT
196 CTTACGTTGTCTGT
1791198 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATATTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG-CCTGAAATTGAGAAATATTTGTTGACAACC
1791263 AGCGGT-CCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
1791327 TGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
130 TGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
*
1791392 ACTTACGTTGTCTGG
195 ACTTACGTTGTCTGT
1791407 AGTCCAATATCCTTCGTTGTGAAGTTG-AATTGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
1791441 TCTGGGTAAA
Statistics
Matches: 445, Mismatches: 4, Indels: 7
0.98 0.01 0.02
Matches are distributed among these distances:
207 1 0.00
208 22 0.05
209 370 0.83
210 52 0.12
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (209 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCTGAAATTGAGAAATATTTGTTGACAACCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTACGTTGTCTGT
Found at i:1791367 original size:314 final size:314
Alignment explanation
Indices: 1790780--1791440 Score: 1240
Period size: 314 Copynumber: 2.1 Consensus size: 314
1790770 GTGTTGTTTC
*
1790780 GAGTCCAATATCCTTCG-T-TGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
*
1790843 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAG
*
1790908 TTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
131 TTGAAATTGGCCCTGAAATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1790973 AACTTACGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCTGAAATTGAGAAA
196 AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCTGAAATTGAGAAA
1791038 TATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
261 TATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
1791092 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
1791157 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAG
1791222 TTGAAATTGGCCCTGAAATTGAGAAATATTTGTTGACAACCAGCGGT-CCTTCGTCGTGAAGTTG
131 TTGAAATTGGCCCTGAAATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1791286 AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAA
196 AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG-CCTGAAATTGAGAA
*
1791351 ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
260 ATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
1791406 GAGTCCAATATCCTTCGTTGTGAAGTTG-AATTGGC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
1791441 TCTGGGTAAA
Statistics
Matches: 341, Mismatches: 5, Indels: 5
0.97 0.01 0.01
Matches are distributed among these distances:
312 17 0.05
313 74 0.22
314 250 0.73
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (314 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCCCTGAAATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCTGAAATTGAGAAA
TATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
Found at i:1791636 original size:1 final size:1
Alignment explanation
Indices: 1791630--1791657 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
1791620 AAATGTTTGA
1791630 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1791658 GAAGATGCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1792234 original size:1 final size:1
Alignment explanation
Indices: 1792223--1792280 Score: 71
Period size: 1 Copynumber: 58.0 Consensus size: 1
1792213 ACCCTAAGCG
* * * * *
1792223 TTTTTTGTTTTTTTTTTTTTTGTTTTTGTTTTTGTTTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1792281 CAACTTAAGA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:1792241 original size:15 final size:15
Alignment explanation
Indices: 1792223--1792279 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
1792213 ACCCTAAGCG
*
1792223 TTTTTTGTTTTTT-T
1 TTTTTTTTTTTTTGT
*
1792237 TTTTTTTGTTTTTGT
1 TTTTTTTTTTTTTGT
*
1792252 TTTTGTTTTTTTTGT
1 TTTTTTTTTTTTTGT
1792267 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
1792280 TCAACTTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 11 0.30
15 26 0.70
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (15 bp):
TTTTTTTTTTTTTGT
Found at i:1792250 original size:21 final size:21
Alignment explanation
Indices: 1792224--1792280 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
1792214 CCCTAAGCGT
1792224 TTTTTGTTTTTTTTTTTTTTG
1 TTTTTGTTTTTTTTTTTTTTG
*
1792245 TTTTTGTTTTTGTTTTTTTTG
1 TTTTTGTTTTTTTTTTTTTTG
1792266 TTTTT-TTTTTTTTTT
1 TTTTTGTTTTTTTTTT
1792281 CAACTTAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (21 bp):
TTTTTGTTTTTTTTTTTTTTG
Found at i:1799301 original size:23 final size:20
Alignment explanation
Indices: 1799271--1799314 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 20
1799261 AATATGAATG
1799271 TAAAAACATGGAAAATATAAAA
1 TAAAAACAT-G-AAATATAAAA
1799293 TAAACAACATGAAATATAAAA
1 TAAA-AACATGAAATATAAAA
1799314 T
1 T
1799315 GCAAGAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.52
22 5 0.24
23 5 0.24
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (20 bp):
TAAAAACATGAAATATAAAA
Found at i:1803419 original size:49 final size:50
Alignment explanation
Indices: 1803316--1803420 Score: 121
Period size: 49 Copynumber: 2.1 Consensus size: 50
1803306 GATTATATGT
*
1803316 GTATATATATATGTATAATAAAATAAAATAAAATATACATAATATATATA
1 GTATATATATATGAATAATAAAATAAAATAAAATATACATAATATATATA
* *
1803366 -TATATATATATGAATAA-AGGAATAAAATATAATAATA-ATGAA-A-ATATA
1 GTATATATATATGAATAATA-AAATAAAATAAAAT-ATACAT-AATATATATA
1803414 GTATATA
1 GTATATA
1803421 ATAATAGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
48 6 0.12
49 37 0.77
50 5 0.10
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (50 bp):
GTATATATATATGAATAATAAAATAAAATAAAATATACATAATATATATA
Found at i:1808029 original size:35 final size:35
Alignment explanation
Indices: 1807978--1808091 Score: 156
Period size: 35 Copynumber: 3.3 Consensus size: 35
1807968 AAAATAGTCC
* *
1807978 TCAATTTCATTCTAAACCCCAAATTCTAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
* * * *
1808013 TCAATTTTATTATAAACCCTAAATTCCAAAATAAT
1 TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
* *
1808048 TCAATTAAATTCTAAACCCCAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
1808083 TCAATTTAA
1 TCAATTTAA
1808092 GGTTTAGAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.35
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
Found at i:1808131 original size:35 final size:35
Alignment explanation
Indices: 1808085--1808159 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
1808075 AAAATACTTC
* * *
1808085 AATTTAAGGTTTAGAATGTAATTGAATTATTTTGG
1 AATTTAAGGTTTAAAATGAAATTGAATTACTTTGG
*
1808120 AATTTAGGGTTTAAAATGAAATTGAATTACTTTGG
1 AATTTAAGGTTTAAAATGAAATTGAATTACTTTGG
1808155 AATTT
1 AATTT
1808160 TGAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAAAATGAAATTGAATTACTTTGG
Found at i:1808163 original size:24 final size:24
Alignment explanation
Indices: 1808136--1808207 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
1808126 GGGTTTAAAA
1808136 TGAAATTGAATTACTTTGGAATTT
1 TGAAATTGAATTACTTTGGAATTT
*
1808160 TGAACA-TGAATTTACTATTTAGAA---
1 TGAA-ATTGAA-TTAC--TTTGGAATTT
*
1808184 TAAAATTGAATTACTTTGGAATTT
1 TGAAATTGAATTACTTTGGAATTT
1808208 GGGGTTTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 16
0.66 0.05 0.29
Matches are distributed among these distances:
21 6 0.16
23 5 0.14
24 15 0.41
25 5 0.14
27 6 0.16
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.43
Consensus pattern (24 bp):
TGAAATTGAATTACTTTGGAATTT
Found at i:1808829 original size:21 final size:20
Alignment explanation
Indices: 1808791--1808829 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1808781 AATCGTAAGA
**
1808791 TAAATTTATAATCTAAATCT
1 TAAATTTATAATAAAAATCT
1808811 TAAATATTATAATAAAAAT
1 TAAAT-TTATAATAAAAAT
1808830 TATTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATTTATAATAAAAATCT
Found at i:1817729 original size:21 final size:21
Alignment explanation
Indices: 1817700--1817774 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
1817690 ATGCATCCCT
*
1817700 TGAATGTGTATCGATACACCA
1 TGAAGGTGTATCGATACACCA
* * *
1817721 TGAAGGTGTACCGATGCATCCCT
1 TGAAGGTGTATCGATACA--CCA
* *
1817744 TGAATGTGCATCGATACACCA
1 TGAAGGTGTATCGATACACCA
1817765 TGAAGGTGTA
1 TGAAGGTGTA
1817775 CTGATGCATT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 25 0.61
23 16 0.39
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (21 bp):
TGAAGGTGTATCGATACACCA
Found at i:1817737 original size:44 final size:44
Alignment explanation
Indices: 1817682--1817798 Score: 207
Period size: 44 Copynumber: 2.7 Consensus size: 44
1817672 ACATTAGAGA
*
1817682 GTGTACTGATGCATCCCTTGAATGTGTATCGATACACCATGAAG
1 GTGTACTGATGCATCCCTTGAATGTGCATCGATACACCATGAAG
*
1817726 GTGTACCGATGCATCCCTTGAATGTGCATCGATACACCATGAAG
1 GTGTACTGATGCATCCCTTGAATGTGCATCGATACACCATGAAG
*
1817770 GTGTACTGATGCATTCCTTGAATGTGCAT
1 GTGTACTGATGCATCCCTTGAATGTGCAT
1817799 AGATGCACTC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (44 bp):
GTGTACTGATGCATCCCTTGAATGTGCATCGATACACCATGAAG
Found at i:1817758 original size:23 final size:22
Alignment explanation
Indices: 1817689--1817805 Score: 87
Period size: 23 Copynumber: 5.3 Consensus size: 22
1817679 AGAGTGTACT
1817689 GATGCATCCCTTGAATGTGTATC
1 GATGCAT-CCTTGAATGTGTATC
* * * *
1817712 GATACA-CCATGAAGGTGTACC
1 GATGCATCCTTGAATGTGTATC
*
1817733 GATGCATCCCTTGAATGTGCATC
1 GATGCAT-CCTTGAATGTGTATC
* * *
1817756 GATACA-CCATGAAGGTGTA-C
1 GATGCATCCTTGAATGTGTATC
* *
1817776 TGATGCATTCCTTGAATGTGCATA
1 -GATGCA-TCCTTGAATGTGTATC
1817800 GATGCA
1 GATGCA
1817806 CTCTACTGTG
Statistics
Matches: 70, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
20 1 0.01
21 32 0.46
23 37 0.53
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (22 bp):
GATGCATCCTTGAATGTGTATC
Found at i:1820603 original size:63 final size:64
Alignment explanation
Indices: 1820451--1820605 Score: 161
Period size: 65 Copynumber: 2.4 Consensus size: 64
1820441 CACACCCATT
* * * * * *
1820451 TCGAATGCATTTTGTGTACCGATGCACAAGTCATACATCGATGCACTCTTGAATATTTTGAAACA
1 TCGAATGCAATTAGTGTACCGATGCACAAGCCATACATCGATGCACTCCT-AAGATCTTGAAACA
* * * * * *
1820516 TGGAATGCATTTTGTGTACTGATGCAC-AGACCATGCATCGATGCACTCCT-AGCTCTTGAAACA
1 TCGAATGCAATTAGTGTACCGATGCACAAG-CCATACATCGATGCACTCCTAAGATCTTGAAACA
*
1820579 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCAATTAGTGTACCGATGCAC
1820606 CCCTAGTGTA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
63 32 0.42
64 2 0.03
65 42 0.55
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (64 bp):
TCGAATGCAATTAGTGTACCGATGCACAAGCCATACATCGATGCACTCCTAAGATCTTGAAACA
Found at i:1824863 original size:2 final size:2
Alignment explanation
Indices: 1824852--1824934 Score: 152
Period size: 2 Copynumber: 42.5 Consensus size: 2
1824842 TATAATTATG
1824852 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1824893 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1824934 T
1 T
1824935 CACATATGAA
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 77 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1825146 original size:17 final size:17
Alignment explanation
Indices: 1825121--1825160 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1825111 ACTTTTTAAC
1825121 TCGAATATTTGAGTTAT
1 TCGAATATTTGAGTTAT
*
1825138 TCGAGTATTTGAGTTAT
1 TCGAATATTTGAGTTAT
1825155 TCGAAT
1 TCGAAT
1825161 TATCTTCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (17 bp):
TCGAATATTTGAGTTAT
Found at i:1825604 original size:19 final size:19
Alignment explanation
Indices: 1825564--1825600 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1825554 TTAAGATTAA
*
1825564 AAATTAAAGAATATTTAAT
1 AAATTAAAGAATATATAAT
1825583 AAATTAAAGAAT-TATAAT
1 AAATTAAAGAATATATAAT
1825601 TAAAAAAGAA
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:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATTAAAGAATATATAAT
Found at i:1830632 original size:11 final size:11
Alignment explanation
Indices: 1830616--1830652 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
1830606 TTATGACTAA
1830616 AATAAAATAAT
1 AATAAAATAAT
*
1830627 AATAAATTAAT
1 AATAAAATAAT
1830638 AATAAAAGTAAT
1 AATAAAA-TAAT
1830650 AAT
1 AAT
1830653 TTAAACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:1832016 original size:3 final size:3
Alignment explanation
Indices: 1832008--1832068 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
1831998 AATATAAATT
* * *
1832008 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1832056 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
1832069 TTTAAAATGG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1833258 original size:23 final size:23
Alignment explanation
Indices: 1833232--1833286 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
1833222 AAAAATGCTC
1833232 AAGATAATTT-CTAAAAATTAAAA
1 AAGATAATTTCCT-AAAATTAAAA
*
1833255 AAGATAATTTCCTAAAATTGAAA
1 AAGATAATTTCCTAAAATTAAAA
*
1833278 AGGATAATT
1 AAGATAATT
1833287 CCCTTAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 27 0.93
24 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (23 bp):
AAGATAATTTCCTAAAATTAAAA
Found at i:1834743 original size:52 final size:52
Alignment explanation
Indices: 1834665--1834767 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
1834655 CCTTTTCAGT
* *
1834665 TGGTGGAAGAACTAAAATAGCACATGAAGGGGATGGTTCAATCTTTATTTTA
1 TGGTGGAAGAACTAAAATAGCACATGAAAGGGATGGCTCAATCTTTATTTTA
1834717 TGGTGGAAGAACTAAAATAGCACATGAAAGGGATGGCTCAATCTTTATTTT
1 TGGTGGAAGAACTAAAATAGCACATGAAAGGGATGGCTCAATCTTTATTTT
1834768 TGGGTACGGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (52 bp):
TGGTGGAAGAACTAAAATAGCACATGAAAGGGATGGCTCAATCTTTATTTTA
Found at i:1835279 original size:44 final size:44
Alignment explanation
Indices: 1835218--1835307 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
1835208 TTAAGATTTC
**
1835218 TTTAGGAATTTAAAGATTGTTCACCAAGAGTGACGGTGATAGGA
1 TTTAGGAATTTAAAGATTGCCCACCAAGAGTGACGGTGATAGGA
* * *
1835262 TTTAGGAATTTAGAGATTGCCCACCAAGAGTGGCGGTGGTAGGA
1 TTTAGGAATTTAAAGATTGCCCACCAAGAGTGACGGTGATAGGA
1835306 TT
1 TT
1835308 CGAACTTGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.29
Consensus pattern (44 bp):
TTTAGGAATTTAAAGATTGCCCACCAAGAGTGACGGTGATAGGA
Found at i:1836185 original size:19 final size:19
Alignment explanation
Indices: 1836140--1836186 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1836130 CGGTTATTTT
1836140 AAATTTA-TAATTTTAAGA
1 AAATTTATTAATTTTAAGA
* *
1836158 AAATATATTAATTTTAATA
1 AAATTTATTAATTTTAAGA
*
1836177 AGATTTATTA
1 AAATTTATTA
1836187 TTTAGAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
AAATTTATTAATTTTAAGA
Found at i:1837966 original size:3 final size:3
Alignment explanation
Indices: 1837958--1838018 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
1837948 ATTTATTTAT
*
1837958 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA TTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1838005 ATA A-A ATTA ATA AT
1 ATA ATA A-TA ATA AT
1838019 TTTAATTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 47 0.89
4 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:1838203 original size:45 final size:45
Alignment explanation
Indices: 1838153--1838254 Score: 177
Period size: 45 Copynumber: 2.3 Consensus size: 45
1838143 TATGGAAATG
* *
1838153 TTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCTAAGGTT
1 TTGAAAACATCATGCACTAAAGGACTTACAGATGACCCTAAGGCT
*
1838198 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCT
1 TTGAAAACATCATGCACTAAAGGACTTACAGATGACCCTAAGGCT
1838243 TTGAAAACATCA
1 TTGAAAACATCA
1838255 AAAAACTCCC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (45 bp):
TTGAAAACATCATGCACTAAAGGACTTACAGATGACCCTAAGGCT
Found at i:1838322 original size:76 final size:76
Alignment explanation
Indices: 1838196--1838915 Score: 1215
Period size: 76 Copynumber: 9.5 Consensus size: 76
1838186 GACCCTAAGG
* * *
1838196 TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAAC
1 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1838261 TCCCGAAGGCT
66 TCCCGAAGGCT
* * * *
1838272 TTTTGGTAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACCTCAAAAAGC
1 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1838337 TCCCGAAGGCT
66 TCCCGAAGGCT
*
1838348 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAGCATCAAAAAGC
1 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1838413 TCCCGAAGGCT
66 TCCCGAAGGCT
* * * *
1838424 TTTTGGTAACATTATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACCTCAAAAAAC
1 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1838489 TCCCGAAGGCT
66 TCCCGAAGGCT
* *
1838500 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
1838565 TCCTGAAGGCT
66 TCCCGAAGGCT
*
1838576 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAGCATCAAAAAGC
1 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1838641 TCCCGAAGGCT
66 TCCCGAAGGCT
* * * *
1838652 TTTTGGTAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTAAAAACCTCAAAAATC
1 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
1838717 TCCCGAAGGGT
66 TCCCGAAGGCT
*
1838728 TTTTGGAAACATCAAGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
1838793 TCCCAAAGGCT
66 TCCCGAAGGCT
*
1838804 TTTTGGAAACATCATGCACTGTAGGACTTACATATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1838869 TCCCGAAGGCT
66 TCCCGAAGGCT
*
1838880 TTTTGGAAACATCATGCACTATAGGACTTACAGATG
1 TTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1838916 TGGGAAATAG
Statistics
Matches: 599, Mismatches: 45, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 599 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (76 bp):
TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
TCCCGAAGGCT
Found at i:1839612 original size:22 final size:22
Alignment explanation
Indices: 1839587--1839663 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
1839577 AATAAAGCTT
*
1839587 TCATCTTTGAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1839609 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1839631 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1839653 TCATCTTTGAA
1 TCATCTTTGAA
1839664 GAGTGTAGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1842330 original size:114 final size:114
Alignment explanation
Indices: 1842130--1842353 Score: 367
Period size: 114 Copynumber: 2.0 Consensus size: 114
1842120 GATCATGCAG
* * * * *
1842130 TTCATCTTTTAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1842195 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
1842244 TTCATCTTTCAAATCTAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
1842309 ACACTTCCAGAAGATGTTATTGGGTCTCCTTATTTTTACTATGAG
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
1842354 AACGTGGCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:1846401 original size:14 final size:14
Alignment explanation
Indices: 1846384--1846442 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
1846374 TAAAAGTATG
1846384 AATGCAAAATGAAA
1 AATGCAAAATGAAA
1846398 AATGCAAAGATGCAAA
1 AATGCAAA-ATG-AAA
*
1846414 GATGCAAAATG-AA
1 AATGCAAAATGAAA
*
1846427 AATGCATATATGAAA
1 AATGCA-AAATGAAA
1846442 A
1 A
1846443 GGTGTTTACT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 7 0.18
14 12 0.32
15 9 0.24
16 10 0.26
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:1846412 original size:8 final size:7
Alignment explanation
Indices: 1846384--1846432 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
1846374 TAAAAGTATG
1846384 AATGCAA
1 AATGCAA
*
1846391 AATGAAA
1 AATGCAA
1846398 AATGCAA
1 AATGCAA
1846405 AGATGCAA
1 A-ATGCAA
1846413 AGATGCAA
1 A-ATGCAA
1846421 AATG-AA
1 AATGCAA
1846427 AATGCA
1 AATGCA
1846433 TATATGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 6 0.16
7 17 0.45
8 15 0.39
ACGTcount: A:0.57, C:0.10, G:0.18, T:0.14
Consensus pattern (7 bp):
AATGCAA
Found at i:1846443 original size:29 final size:30
Alignment explanation
Indices: 1846385--1846443 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
1846375 AAAAGTATGA
*
1846385 ATGCAAAATGAAAAATGCAAAGATGCAAAG
1 ATGCAAAATGAAAAATGCAAAGATGAAAAG
* *
1846415 ATGCAAAATG-AAAATGCATATATGAAAAG
1 ATGCAAAATGAAAAATGCAAAGATGAAAAG
1846444 GTGTTTACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.56, C:0.08, G:0.19, T:0.17
Consensus pattern (30 bp):
ATGCAAAATGAAAAATGCAAAGATGAAAAG
Found at i:1850282 original size:18 final size:18
Alignment explanation
Indices: 1850259--1850299 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1850249 GGATTAGAGT
1850259 TCCGGCCGGCAACCGTGC
1 TCCGGCCGGCAACCGTGC
*
1850277 TCCGGCTGGCAACCGTGC
1 TCCGGCCGGCAACCGTGC
1850295 TCCGG
1 TCCGG
1850300 TGCCGACCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.41, G:0.34, T:0.15
Consensus pattern (18 bp):
TCCGGCCGGCAACCGTGC
Found at i:1851111 original size:3 final size:3
Alignment explanation
Indices: 1851103--1851168 Score: 98
Period size: 3 Copynumber: 21.7 Consensus size: 3
1851093 ATTTATTTAT
*
1851103 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
1851149 ATA ATA ATA A-A ATTA ATA AT
1 ATA ATA ATA ATA A-TA ATA AT
1851169 TTTAATTTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 2 0.03
3 51 0.88
4 5 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:1853354 original size:11 final size:11
Alignment explanation
Indices: 1853338--1853370 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
1853328 GGCTGCACCA
1853338 CCATCAAAACT
1 CCATCAAAACT
1853349 CCATCAAAACT
1 CCATCAAAACT
*
1853360 CCACCAAAACT
1 CCATCAAAACT
1853371 TGAATCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.15
Consensus pattern (11 bp):
CCATCAAAACT
Found at i:1854500 original size:29 final size:29
Alignment explanation
Indices: 1854462--1854517 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
1854452 ATTTTTCGGT
1854462 AAAATATTATCTTTTTTACAATATTTTCG
1 AAAATATTATCTTTTTTACAATATTTTCG
*
1854491 AAAATATTATCTTTTTTATAATATTTT
1 AAAATATTATCTTTTTTACAATATTTT
1854518 TTCAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (29 bp):
AAAATATTATCTTTTTTACAATATTTTCG
Found at i:1855577 original size:21 final size:21
Alignment explanation
Indices: 1855526--1855575 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
1855516 AAGATATGGT
1855526 TAATAGAATTTATAAATTTAAA
1 TAATA-AATTTATAAATTTAAA
*
1855548 TATTAAATTTATTAAATATTAAA
1 TAATAAATTTA-TAAAT-TTAAA
1855571 -AATAA
1 TAATAA
1855576 TTAATTGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.25
22 13 0.54
23 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TAATAAATTTATAAATTTAAA
Found at i:1856370 original size:24 final size:23
Alignment explanation
Indices: 1856343--1856409 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
1856333 CGTAAGCTAC
1856343 CAAAAGGCAAAGAAAAACGTGTCA
1 CAAAA-GCAAAGAAAAACGTGTCA
* * *
1856367 CAAAAGCAGATATAAACGTGTCA
1 CAAAAGCAAAGAAAAACGTGTCA
* *
1856390 TAAATGC--AG-AAAACGTGTCA
1 CAAAAGCAAAGAAAAACGTGTCA
1856410 TAAATGCAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
20 10 0.28
21 1 0.03
23 20 0.56
24 5 0.14
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.15
Consensus pattern (23 bp):
CAAAAGCAAAGAAAAACGTGTCA
Found at i:1856385 original size:23 final size:21
Alignment explanation
Indices: 1856353--1856419 Score: 91
Period size: 20 Copynumber: 3.1 Consensus size: 21
1856343 CAAAAGGCAA
* *
1856353 AGAAAAACGTGTCACAAAAGC
1 AGAAAAACGTGTCATAAATGC
1856374 AGATATAAACGTGTCATAAATGC
1 AGA-A-AAACGTGTCATAAATGC
1856397 AG-AAAACGTGTCATAAATGC
1 AGAAAAACGTGTCATAAATGC
1856417 AGA
1 AGA
1856420 GAATATGTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 19 0.46
21 4 0.10
22 1 0.02
23 17 0.41
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (21 bp):
AGAAAAACGTGTCATAAATGC
Found at i:1856428 original size:20 final size:20
Alignment explanation
Indices: 1856380--1856429 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1856370 AAGCAGATAT
*
1856380 AAACGTGTCATAAATGCAGA
1 AAACATGTCATAAATGCAGA
*
1856400 AAACGTGTCATAAATGCAGA
1 AAACATGTCATAAATGCAGA
* *
1856420 GAATATGTCA
1 AAACATGTCA
1856430 CAAAGACATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (20 bp):
AAACATGTCATAAATGCAGA
Found at i:1858235 original size:12 final size:12
Alignment explanation
Indices: 1858218--1858245 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1858208 ACCGTTAATA
1858218 AATTAAATTTAT
1 AATTAAATTTAT
1858230 AATTAAATTTAT
1 AATTAAATTTAT
1858242 AATT
1 AATT
1858246 TTTTATAATT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTAAATTTAT
Found at i:1858587 original size:49 final size:51
Alignment explanation
Indices: 1858451--1858685 Score: 361
Period size: 51 Copynumber: 4.7 Consensus size: 51
1858441 AGATGTATAT
* *
1858451 ACTTACATCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTT
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* *
1858502 ACTTACACCGTTGTAAGTATGTGTTAAGCGCTACACTTTTTTATTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
1858553 AC-TACACCGGTGT-AGTATGTGTTAAGTGCTACAC-TTTTT-TTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* * *
1858600 ACTTAAACTGGTGTAAGTATGTGTTAAGTGCTACACTTGTTTATTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
* *
1858651 AGTTACATCGGTGTAAGTATGTGTTAAGTGCTACA
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACA
1858686 TTTCTTTTGT
Statistics
Matches: 167, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
47 10 0.06
48 14 0.08
49 41 0.25
50 14 0.08
51 88 0.53
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.44
Consensus pattern (51 bp):
ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTC
Found at i:1858625 original size:98 final size:100
Alignment explanation
Indices: 1858454--1858693 Score: 360
Period size: 98 Copynumber: 2.4 Consensus size: 100
1858444 TGTATATACT
* * *
1858454 TACATCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTTACTTACACCGTTGTAAG
1 TACATCGGTGTAAGTATGTGTTAAGTGCTACAC-TTTTT-TTTTATTCACTTAAACCGGTGTAAG
*
1858519 TATGTGTTAAGCGCTACACTTTTTTATTTTATTCA-C
64 TATGTGTTAAGCGCTACACTTGTTTATTTTATTCAGC
* *
1858555 TACACCGGTGT-AGTATGTGTTAAGTGCTACACTTTTTTTTTATTCACTTAAACTGGTGTAAGTA
1 TACATCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTTTTATTCACTTAAACCGGTGTAAGTA
* *
1858619 TGTGTTAAGTGCTACACTTGTTTATTTTATTCAGT
66 TGTGTTAAGCGCTACACTTGTTTATTTTATTCAGC
*
1858654 TACATCGGTGTAAGTATGTGTTAAGTGCTACA-TTTCTTTT
1 TACATCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTTT
1858694 GTAGTATGAA
Statistics
Matches: 127, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
98 54 0.43
99 22 0.17
100 41 0.32
101 10 0.08
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (100 bp):
TACATCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTTTTATTCACTTAAACCGGTGTAAGTA
TGTGTTAAGCGCTACACTTGTTTATTTTATTCAGC
Found at i:1859858 original size:18 final size:17
Alignment explanation
Indices: 1859835--1859880 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
1859825 TAAGGAACTT
*
1859835 GAAGAGGAAAGGAAGAAA
1 GAAGA-GAAAAGAAGAAA
1859853 GAAGAGAAAAGAAG-AA
1 GAAGAGAAAAGAAGAAA
*
1859869 GATGA-AAAAGAA
1 GAAGAGAAAAGAA
1859881 ATGGGAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 7 0.27
16 6 0.23
17 8 0.31
18 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (17 bp):
GAAGAGAAAAGAAGAAA
Found at i:1859861 original size:17 final size:18
Alignment explanation
Indices: 1859835--1859868 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1859825 TAAGGAACTT
*
1859835 GAAGAGGAAAGGAAGAAA
1 GAAGAGGAAAAGAAGAAA
1859853 GAAGA-GAAAAGAAGAA
1 GAAGAGGAAAAGAAGAA
1859869 GATGAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
GAAGAGGAAAAGAAGAAA
Found at i:1860583 original size:17 final size:18
Alignment explanation
Indices: 1860561--1860598 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1860551 CTTTTAGTGT
*
1860561 TTTGAGAATATTTT-AGA
1 TTTGAGAAAATTTTGAGA
1860578 TTTGAGAAAATTTTGAGA
1 TTTGAGAAAATTTTGAGA
1860596 TTT
1 TTT
1860599 TTTTTAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (18 bp):
TTTGAGAAAATTTTGAGA
Found at i:1862604 original size:31 final size:31
Alignment explanation
Indices: 1862569--1862685 Score: 155
Period size: 31 Copynumber: 3.8 Consensus size: 31
1862559 GAACTGCTAC
* **
1862569 GCATTATCTAAATG-AAAGCATGACATAATGT
1 GCATTATCTGAATGCAAA-CATGACATGTTGT
*
1862600 GCATTATCTGAATGCAAACCTGACATGTTGT
1 GCATTATCTGAATGCAAACATGACATGTTGT
* *
1862631 TCATTATCTGAATGCAAACCTGACATGTTGT
1 GCATTATCTGAATGCAAACATGACATGTTGT
*
1862662 TCATTATCTGAATGCAAACATGAC
1 GCATTATCTGAATGCAAACATGAC
1862686 TAGTATCTAG
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 76 0.96
32 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (31 bp):
GCATTATCTGAATGCAAACATGACATGTTGT
Found at i:1868716 original size:18 final size:18
Alignment explanation
Indices: 1868664--1868716 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
1868654 TTAATTTTAT
*
1868664 TTCTTTAATTTTAATTCA
1 TTCTTTAATTTTAATTGA
** *
1868682 TTCTTGGATGCTT-ATTGA
1 TTCTTTAAT-TTTAATTGA
1868700 TTCTTTAATTTTAATTG
1 TTCTTTAATTTTAATTG
1868717 TTTTAATACA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (18 bp):
TTCTTTAATTTTAATTGA
Found at i:1869985 original size:20 final size:20
Alignment explanation
Indices: 1869957--1870053 Score: 103
Period size: 20 Copynumber: 5.0 Consensus size: 20
1869947 CACTGAATAT
1869957 TTGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
* *
1869977 TTGTTCCGAAGAACCACT-A
1 TTGTCCCGAAGGACCACTGA
1869996 -TGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
* * *
1870015 CTGTTCCGAAGAACCACT-A
1 TTGTCCCGAAGGACCACTGA
* *
1870034 -TATCCCGAAAGACCACTGA
1 TTGTCCCGAAGGACCACTGA
1870053 T
1 T
1870054 AATCCCTCGA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
18 28 0.44
19 4 0.06
20 31 0.49
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (20 bp):
TTGTCCCGAAGGACCACTGA
Found at i:1870009 original size:38 final size:38
Alignment explanation
Indices: 1869958--1870053 Score: 165
Period size: 38 Copynumber: 2.5 Consensus size: 38
1869948 ACTGAATATT
1869958 TGTCCCGAAGGACCACTGATTGTTCCGAAGAACCACTA
1 TGTCCCGAAGGACCACTGATTGTTCCGAAGAACCACTA
*
1869996 TGTCCCGAAGGACCACTGACTGTTCCGAAGAACCACTA
1 TGTCCCGAAGGACCACTGATTGTTCCGAAGAACCACTA
* *
1870034 TATCCCGAAAGACCACTGAT
1 TGTCCCGAAGGACCACTGAT
1870054 AATCCCTCGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (38 bp):
TGTCCCGAAGGACCACTGATTGTTCCGAAGAACCACTA
Found at i:1876862 original size:18 final size:18
Alignment explanation
Indices: 1876836--1876908 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
1876826 ACTGAATATT
*
1876836 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
1876854 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
1876873 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
1876892 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
1876909 GATAATCCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 31 0.65
19 2 0.04
20 15 0.31
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1880678 original size:15 final size:15
Alignment explanation
Indices: 1880640--1880687 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
1880630 TTTTCTTTGA
*
1880640 TATTGAAAAATAAA-
1 TATTTAAAAATAAAT
*
1880654 TA-TT-AAAATAATT
1 TATTTAAAAATAAAT
1880667 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
1880682 TATTTA
1 TATTTA
1880688 TTATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 4 0.14
15 14 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:1880742 original size:22 final size:23
Alignment explanation
Indices: 1880716--1880762 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
1880706 ATAAAAATAT
*
1880716 TTAAAAAT-ATAAACAAATAAAA
1 TTAAAAATAATAAAAAAATAAAA
*
1880738 TT-AAAATAATAAAAAAATACAA
1 TTAAAAATAATAAAAAAATAAAA
1880760 TTA
1 TTA
1880763 GAACGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAAAAATAATAAAAAAATAAAA
Found at i:1881914 original size:16 final size:16
Alignment explanation
Indices: 1881893--1881934 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
1881883 ACCGTTGGCT
1881893 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
1881909 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
1881925 GAGGCGGCTG
1 GAGGCGGCTG
1881935 CGCATGGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.57, T:0.07
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:1882064 original size:3 final size:3
Alignment explanation
Indices: 1882056--1882145 Score: 108
Period size: 3 Copynumber: 30.0 Consensus size: 3
1882046 TATATATATT
* * *
1882056 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
1882104 TAA TAA TAA TTA TTA TTA TTA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1882146 ATAAATTAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:1882456 original size:36 final size:36
Alignment explanation
Indices: 1882409--1882487 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
1882399 CTTTTCATGG
* *
1882409 TGAACTTCTTCTTTTTCAGATTAGTTCTTCTCATTA
1 TGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
1882445 TGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
1 TGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
1882481 TGAACTT
1 TGAACTT
1882488 TCTCTGGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (36 bp):
TGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
Found at i:1882765 original size:113 final size:113
Alignment explanation
Indices: 1882433--1883093 Score: 1003
Period size: 113 Copynumber: 5.9 Consensus size: 113
1882423 TTCAGATTAG
*
1882433 TTCTTCTCATTATGAACTTC-T--T-CTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCT
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CT
* * *
1882493 GGAAAAGCTGATCCATCAAGTGATGGA-TTAGAACAAAAGGTTGAACAAA
65 GGAAAAGATAATCCATCAAGTGATAGATTTA-AACAAAAGGTTGAACAAA
* *
1882542 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAGGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTAC
* * * * * * * *
1882607 CTGGCAATGTTGATCCATCAAATGAT-GAATTCAAACAAAAAGTTGAACAAG
63 CTGGAAAAGATAATCCATCAAGTGATAG-ATTTAAACAAAAGGTTGAACAAA
* * * * **
1882658 TTCTTCTCATTATGAACTTGTTCATCCTTCTCCATATGAGTACTTCTCATTATGAACTCTTTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
1882723 GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
*
1882771 TTCTTCTCATTATGAACTTATTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
*
1882836 GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAATAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
1882884 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
1882949 GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
**
1882997 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
1883062 GAAAAGATAATCCATCAAGTGATAGATTTAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTAAA
1883094 TCTTTGCTAA
Statistics
Matches: 505, Mismatches: 36, Indels: 18
0.90 0.06 0.03
Matches are distributed among these distances:
109 20 0.04
110 1 0.00
112 1 0.00
113 385 0.76
114 1 0.00
115 1 0.00
116 92 0.18
117 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
GAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACAAA
Found at i:1884081 original size:83 final size:84
Alignment explanation
Indices: 1883819--1884122 Score: 434
Period size: 83 Copynumber: 3.5 Consensus size: 84
1883809 CCTACTGAAT
* *
1883819 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAA-ATTCATCTTTCAACTTTA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAATATTCATCTTTCAAATTCA
*
1883883 ATGATTGGTTTTGGGGTTCATACTAAAC
66 ATGATTGG---T----TT--TACCAAAC
* * *
1883911 CAGATCAAACAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAATATTCATCTTTCAACTTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAATATTCATCTTTCAAATTC
1883975 AATGATTGGTTTTACCAAAC
65 AATGATTGGTTTTACCAAAC
*
1883995 CAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCAA-ATTCATCTTTCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAATATTCATCTTTCAAATTCA
1884059 ATGATTGGTTTTACCAAAC
66 ATGATTGGTTTTACCAAAC
1884078 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
1884123 CCTGGCATTT
Statistics
Matches: 200, Mismatches: 9, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
83 82 0.41
84 47 0.23
86 2 0.01
90 1 0.00
92 41 0.20
93 27 0.14
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (84 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAATATTCATCTTTCAAATTCA
ATGATTGGTTTTACCAAAC
Found at i:1885279 original size:1 final size:1
Alignment explanation
Indices: 1885275--1885357 Score: 76
Period size: 1 Copynumber: 83.0 Consensus size: 1
1885265 TTGACCCCCC
* * * * * * * *
1885275 TTTTTCTTTTTTTCTTTTTTTTCTTTTTTTTTTTTTTTTCTTTTTCTTTTTTCTTTTTCTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1885340 TTTCTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTT
1885358 CTTCAAGCAT
Statistics
Matches: 62, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:1885285 original size:6 final size:6
Alignment explanation
Indices: 1885274--1885360 Score: 92
Period size: 6 Copynumber: 14.5 Consensus size: 6
1885264 CTTGACCCCC
*
1885274 CTTTTT CTTTTT -TTCTTT -TTTTT CTTTTT -TTTTT TTTTTT CTTTTT
1 CTTTTT CTTTTT CTT-TTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
1885320 CTTTTTT CTTTTT CTTTTCT TTTCTTT CTTTTT -TTTTT CTT
1 C-TTTTT CTTTTT CTTTT-T CTT-TTT CTTTTT CTTTTT CTT
1885361 CAAGCATAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
5 15 0.21
6 42 0.59
7 12 0.17
8 2 0.03
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
CTTTTT
Found at i:1885297 original size:17 final size:17
Alignment explanation
Indices: 1885275--1885354 Score: 103
Period size: 17 Copynumber: 4.8 Consensus size: 17
1885265 TTGACCCCCC
1885275 TTTTTCTTTTTTTCTTT
1 TTTTTCTTTTTTTCTTT
1885292 TTTTTCTTTTTTT-TTT
1 TTTTTCTTTTTTTCTTT
*
1885308 TTTTT-TCTTTTTCTTT
1 TTTTTCTTTTTTTCTTT
1885324 TTTCTT-TTTCTTTTCTTT
1 TTT-TTCTTT-TTTTCTTT
*
1885342 TCTTTCTTTTTTT
1 TTTTTCTTTTTTT
1885355 TTTCTTCAAG
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.11
16 14 0.25
17 23 0.41
18 13 0.23
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTCTTTTTTTCTTT
Found at i:1885307 original size:23 final size:23
Alignment explanation
Indices: 1885274--1885360 Score: 115
Period size: 23 Copynumber: 3.7 Consensus size: 23
1885264 CTTGACCCCC
*
1885274 CTTTTTCTTTTTTTCTTTTTTTT
1 CTTTTTTTTTTTTTCTTTTTTTT
1885297 CTTTTTTTTTTTTT-TTTCTTTTT
1 CTTTTTTTTTTTTTCTTT-TTTTT
*
1885320 C-TTTTTTCTTTTTCTTTTCTTTT
1 CTTTTTTTTTTTTTCTTTT-TTTT
1885343 CTTTCTTTTTTTTTTCTT
1 CTTT-TTTTTTTTTTCTT
1885361 CAAGCATAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
22 15 0.27
23 27 0.48
24 2 0.04
25 12 0.21
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (23 bp):
CTTTTTTTTTTTTTCTTTTTTTT
Found at i:1896733 original size:15 final size:15
Alignment explanation
Indices: 1896695--1896742 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
1896685 TTTTCTTTGA
*
1896695 TATTGAAAAATAAA-
1 TATTTAAAAATAAAT
*
1896709 TA-TT-AAAATAATT
1 TATTTAAAAATAAAT
1896722 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
1896737 TATTTA
1 TATTTA
1896743 TTATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 4 0.14
15 14 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:1896797 original size:22 final size:23
Alignment explanation
Indices: 1896771--1896817 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
1896761 ATAAAAATAT
*
1896771 TTAAAAAT-ATAAACAAATAAAA
1 TTAAAAATAATAAAAAAATAAAA
*
1896793 TT-AAAATAATAAAAAAATACAA
1 TTAAAAATAATAAAAAAATAAAA
1896815 TTA
1 TTA
1896818 GAACGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAAAAATAATAAAAAAATAAAA
Found at i:1897969 original size:16 final size:16
Alignment explanation
Indices: 1897948--1897989 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
1897938 ACCGTTGGCT
1897948 GAGGCGGCTGGAGCCA
1 GAGGCGGCTGGAGCCA
*
1897964 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGCCA
1897980 GAGGCGGCTG
1 GAGGCGGCTG
1897990 CGCATGGGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.17, C:0.21, G:0.55, T:0.07
Consensus pattern (16 bp):
GAGGCGGCTGGAGCCA
Found at i:1898120 original size:3 final size:3
Alignment explanation
Indices: 1898114--1898188 Score: 123
Period size: 3 Copynumber: 25.0 Consensus size: 3
1898104 ATATATTATT
* *
1898114 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1898162 TAA TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1898189 ATAAATTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1911069 original size:58 final size:58
Alignment explanation
Indices: 1911000--1911114 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 58
1910990 AGCTAGATTT
*
1911000 TTTCAGGCTATAACCTCTCCAATAGGAATATA-TCTACTTTTCCATGAGCCCTCTTGAG
1 TTTCAGGCTATAACATCTCCAATAGGAATATACTC-ACTTTTCCATGAGCCCTCTTGAG
* ** *
1911058 TTTCAGGCTATAACATTTCCTTTAGGAATATACTCACTTTTCCTTGAGCCCTCTTGA
1 TTTCAGGCTATAACATCTCCAATAGGAATATACTCACTTTTCCATGAGCCCTCTTGA
1911115 AAATTCCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 49 0.96
59 2 0.04
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (58 bp):
TTTCAGGCTATAACATCTCCAATAGGAATATACTCACTTTTCCATGAGCCCTCTTGAG
Found at i:1912345 original size:261 final size:261
Alignment explanation
Indices: 1911881--1912364 Score: 941
Period size: 261 Copynumber: 1.9 Consensus size: 261
1911871 TCCATAGCAA
1911881 TACGTAGCCTTACGATTAGCATTTCATTTATTGCAGCAAAGGCTTGTATAAACAAACCTCTCGTA
1 TACGTAGCCTTACGATTAGCATTTCATTTATTGCAGCAAAGGCTTGTATAAACAAACCTCTCGTA
1911946 ACTGATAGACCTGTGATTCCGGGTTGAAAATCTATTTTAATTGCTTTTAAGTTGTGTTTTTTACT
66 ACTGATAGACCTGTGATTCCGGGTTGAAAATCTATTTTAATTGCTTTTAAGTTGTGTTTTTTACT
1912011 GGAAGCCAATTACCTTGATGTTAAGTTGGTAGCAAGATATGCCATAGAGGCAATATTTAAATTTA
131 GGAAGCCAATTACCTTGATGTTAAGTTGGTAGCAAGATATGCCATAGAGGCAATATTTAAATTTA
1912076 TGGAGTGCGTACCTTTAAAGGCAGTATGATTTAGAATAGTGGAGTGTGTGTCCTAATTTATTGCA
196 TGGAGTGCGTACCTTTAAAGGCAGTATGATTTAGAATAGTGGAGTGTGTGTCCTAATTTATTGCA
1912141 C
261 C
* *
1912142 TACGTAGCCTTACGATTAGCATTTCATTTATTGCAGCAAAGGCTTGTATAAACAAACCTTTTGTA
1 TACGTAGCCTTACGATTAGCATTTCATTTATTGCAGCAAAGGCTTGTATAAACAAACCTCTCGTA
1912207 ACTGATAGACCTGTGATTCCGGGTTGAAAATCTATTTTAATTGCTTTTAAGTTGTGTTTTTTACT
66 ACTGATAGACCTGTGATTCCGGGTTGAAAATCTATTTTAATTGCTTTTAAGTTGTGTTTTTTACT
*
1912272 GGAAGCCTATTACCTTGATGTTAAGTTGGTAGCAAGATATGCCATAGAGGCAATATTTAAATTTA
131 GGAAGCCAATTACCTTGATGTTAAGTTGGTAGCAAGATATGCCATAGAGGCAATATTTAAATTTA
1912337 TGGAGTGCGTACCTTTAAAGGCAGTATG
196 TGGAGTGCGTACCTTTAAAGGCAGTATG
1912365 GTTTGTATAT
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
261 220 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (261 bp):
TACGTAGCCTTACGATTAGCATTTCATTTATTGCAGCAAAGGCTTGTATAAACAAACCTCTCGTA
ACTGATAGACCTGTGATTCCGGGTTGAAAATCTATTTTAATTGCTTTTAAGTTGTGTTTTTTACT
GGAAGCCAATTACCTTGATGTTAAGTTGGTAGCAAGATATGCCATAGAGGCAATATTTAAATTTA
TGGAGTGCGTACCTTTAAAGGCAGTATGATTTAGAATAGTGGAGTGTGTGTCCTAATTTATTGCA
C
Found at i:1923694 original size:27 final size:27
Alignment explanation
Indices: 1923664--1923722 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
1923654 TGAATTTCAA
* *
1923664 CTCCAGTCCATCGCCATTTTAGGCCAT
1 CTCCAGCCCATCGCCACTTTAGGCCAT
1923691 CTCCAGCCCATCGCCACTTTAGGCCAT
1 CTCCAGCCCATCGCCACTTTAGGCCAT
1923718 CTCCA
1 CTCCA
1923723 ACTCTCATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.42, G:0.14, T:0.25
Consensus pattern (27 bp):
CTCCAGCCCATCGCCACTTTAGGCCAT
Found at i:1923754 original size:22 final size:20
Alignment explanation
Indices: 1923721--1923762 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
1923711 AGGCCATCTC
*
1923721 CAACTCTCATCTCTATTCTA
1 CAACTCTCATCTCTACTCTA
1923741 CAACATCTCTATCTCTACTCTA
1 CAAC-TCTC-ATCTCTACTCTA
1923763 AAGATGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (20 bp):
CAACTCTCATCTCTACTCTA
Found at i:1924329 original size:68 final size:68
Alignment explanation
Indices: 1924249--1924456 Score: 335
Period size: 68 Copynumber: 3.1 Consensus size: 68
1924239 TGCAAACACA
* * *
1924249 TGTGAATGAACGGCTGAGATCAAAAGATTCTTTTCTTTATCAATGGTTGTAATCCAATTCACATC
1 TGTGAATGAACGGCTGAGATCGAAAGATTCATTTCTTTATCAATGGTTGTAATCCAATTCACATG
1924314 GAT
66 GAT
* * *
1924317 TGTGAATTAACGGCTGAGATCGAAAGATTCATTTCTTTATCAATTGTTGTAATCCAATTTACATG
1 TGTGAATGAACGGCTGAGATCGAAAGATTCATTTCTTTATCAATGGTTGTAATCCAATTCACATG
1924382 GAT
66 GAT
* * *
1924385 TGTGAATGAACGGTTGAGATCGAACGATTCCTTTCTTTATCAATGGTTGTAATCCAATTCACATG
1 TGTGAATGAACGGCTGAGATCGAAAGATTCATTTCTTTATCAATGGTTGTAATCCAATTCACATG
1924450 GAT
66 GAT
1924453 TGTG
1 TGTG
1924457 TTTTCTAAAA
Statistics
Matches: 128, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 128 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (68 bp):
TGTGAATGAACGGCTGAGATCGAAAGATTCATTTCTTTATCAATGGTTGTAATCCAATTCACATG
GAT
Found at i:1926584 original size:103 final size:103
Alignment explanation
Indices: 1926443--1926639 Score: 288
Period size: 103 Copynumber: 1.9 Consensus size: 103
1926433 TGCATTTGTA
* * *
1926443 CTCCTGATATAGTTTTAAGAAGGCTTCCCTTTACAAAGAACCATGTGTTGCTTTAGAGCTTATAT
1 CTCCTGATATAGTTTTAAGAAGGCATCCCTTTACAAAGAACCATGTGTAGCTTTAGAGCTGATAT
*
1926508 TATATAAAGCTGAAATAGCCTTCTTTAAGGTACTTTGC
66 TATACAAAGCTGAAATAGCCTTCTTTAAGGTACTTTGC
** * * *
1926546 CTCCTGATATCA-TTTTAAGAAGGCATGTCTTTAGAAAGAACTATGTGTAGCTTTGGAGCTGATA
1 CTCCTGATAT-AGTTTTAAGAAGGCATCCCTTTACAAAGAACCATGTGTAGCTTTAGAGCTGATA
*
1926610 TTATACAAGGCTGAAATAGCCTTCTTTAAG
65 TTATACAAAGCTGAAATAGCCTTCTTTAAG
1926640 TTGCATTGAG
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 82 0.99
104 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (103 bp):
CTCCTGATATAGTTTTAAGAAGGCATCCCTTTACAAAGAACCATGTGTAGCTTTAGAGCTGATAT
TATACAAAGCTGAAATAGCCTTCTTTAAGGTACTTTGC
Found at i:1929290 original size:23 final size:23
Alignment explanation
Indices: 1929264--1929321 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
1929254 TTCTGTGTAG
1929264 AAACAGAGTTTTCCGGATCTGGT
1 AAACAGAGTTTTCCGGATCTGGT
* *
1929287 AAACAGAGTTTTCCGGTTTTGGT
1 AAACAGAGTTTTCCGGATCTGGT
*
1929310 AAACAGGGTTTT
1 AAACAGAGTTTT
1929322 TTATTCTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (23 bp):
AAACAGAGTTTTCCGGATCTGGT
Found at i:1929996 original size:33 final size:33
Alignment explanation
Indices: 1929959--1930022 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
1929949 TTAGCATCTT
1929959 TGATTTATGATCTGAAATAATGAAAATTTTACA
1 TGATTTATGATCTGAAATAATGAAAATTTTACA
1929992 TGATTTATGATCTGAAATAATGAAAATTTTA
1 TGATTTATGATCTGAAATAATGAAAATTTTA
1930023 TTCTGATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (33 bp):
TGATTTATGATCTGAAATAATGAAAATTTTACA
Found at i:1930980 original size:56 final size:58
Alignment explanation
Indices: 1930858--1930984 Score: 143
Period size: 63 Copynumber: 2.1 Consensus size: 58
1930848 TAACGGCAGA
* * *
1930858 TGACCAAAATGAAGCCAAAACGTAACGTTAGGTATGATTTTGAAAAAAAAAATAATAGTTGAG
1 TGACCAAAATGAAACCAAAACATAACATTAGGTATGATTTT-----AAAAAATAATAGTTGAG
*
1930921 TGACCAAAATGAAACCAAAACATAACATTAGTTATGATTTT-AAAAA-AATAGTT-AGG
1 TGACCAAAATGAAACCAAAACATAACATTAGGTATGATTTTAAAAAATAATAGTTGA-G
1930977 TGACCAAA
1 TGACCAAA
1930985 CAGAAAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
55 1 0.02
56 16 0.27
57 5 0.08
63 37 0.63
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (58 bp):
TGACCAAAATGAAACCAAAACATAACATTAGGTATGATTTTAAAAAATAATAGTTGAG
Found at i:1933757 original size:55 final size:55
Alignment explanation
Indices: 1933676--1934216 Score: 423
Period size: 51 Copynumber: 10.3 Consensus size: 55
1933666 ATACTTGAAA
* * * *
1933676 AATCTTCAA-ATAACGGGTCTGCTCCCTTTTCTTTCAAGGAGTATAAGACTCGAAC
1 AATCTTCAACA-AACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
* *** *
1933731 AATTTTTGGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCAAAC
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
* *
1933786 AATCTTCAACAAACGTGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAAT
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
* * * * *
1933841 AATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAC
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAG-ACTCGAAC
* * * * *
1933896 AATCTTCAACAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----C
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
* * * * * *
1933947 AATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----C
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
* * * * * *
1933998 AATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----C
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
* * * * * *
1934049 AATCTTCAACAAACTTGTCCGCTCCCTATTCCTTTAGAGAGTATAGGACT----C
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
* * * * * *
1934100 AATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----C
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
* * * * * *
1934151 AATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----C
1 AATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
1934202 AATCTTCAACAAACG
1 AATCTTCAACAAACG
1934217 AATTTGCTTC
Statistics
Matches: 450, Mismatches: 33, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
51 264 0.59
54 2 0.00
55 182 0.40
56 2 0.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (55 bp):
AATCTTCAACAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAAC
Found at i:1933971 original size:51 final size:51
Alignment explanation
Indices: 1933740--1934215 Score: 673
Period size: 51 Copynumber: 9.1 Consensus size: 51
1933730 CAATTTTTGG
* * * * *
1933740 CAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCAAACAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAA
* * * * *
1933795 CAAACGTGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAATAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTC----AATCTTCAA
** * *
1933850 CAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAA
1933905 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
*
1933956 CGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
*
1934007 CGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
*
1934058 CAAACTTGTCCGCTCCCTATTCCTTTAGAGAGTATAGGACTCAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
*
1934109 CGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
*
1934160 CGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
1934211 CAAAC
1 CAAAC
1934216 GAATTTGCTT
Statistics
Matches: 395, Mismatches: 18, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
51 265 0.67
55 129 0.33
59 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (51 bp):
CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
Found at i:1935557 original size:23 final size:22
Alignment explanation
Indices: 1935536--1935581 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
1935526 CCTCCTTTTA
1935536 TTTCTC-TTTTT-TTTTTCATT
1 TTTCTCTTTTTTATTTTTCATT
1935556 TTTCTCTTTTTTCATTTTTCATT
1 TTTCTCTTTTTT-ATTTTTCATT
1935579 TTT
1 TTT
1935582 TCCATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.26
21 5 0.22
23 12 0.52
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCTCTTTTTTATTTTTCATT
Found at i:1935565 original size:16 final size:16
Alignment explanation
Indices: 1935545--1935590 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
1935535 ATTTCTCTTT
1935545 TTTTTTTCATTTTTC-
1 TTTTTTTCATTTTTCA
1935560 TCTTTTTTCATTTTTCA
1 T-TTTTTTCATTTTTCA
*
1935577 TTTTTTCCATTTTT
1 TTTTTTTCATTTTT
1935591 TTCGTTTCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 1 0.04
16 26 0.93
17 1 0.04
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTCATTTTTCA
Found at i:1935574 original size:9 final size:9
Alignment explanation
Indices: 1935545--1935593 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
1935535 ATTTCTCTTT
1935545 TTTTTTTCA
1 TTTTTTTCA
*
1935554 TTTTTCTC-
1 TTTTTTTCA
1935562 -TTTTTTCA
1 TTTTTTTCA
1935570 --TTTTTCA
1 TTTTTTTCA
*
1935577 TTTTTTCCA
1 TTTTTTTCA
1935586 TTTTTTTC
1 TTTTTTTC
1935594 GTTTCGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 13 0.39
9 20 0.61
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:1939160 original size:8 final size:8
Alignment explanation
Indices: 1939147--1939174 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1939137 AAGAGAAGAT
1939147 ATATATAC
1 ATATATAC
1939155 ATATATAC
1 ATATATAC
1939163 ATATATAC
1 ATATATAC
1939171 ATAT
1 ATAT
1939175 GGGAGGATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:1949010 original size:20 final size:21
Alignment explanation
Indices: 1948964--1949011 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1948954 TGGACCCGCA
1948964 CGGGGAGCTGGTGGAACCGTC
1 CGGGGAGCTGGTGGAACCGTC
1948985 CGGGGAGCTGGTGGAACCGT-
1 CGGGGAGCTGGTGGAACCGTC
1949005 CGGGGAG
1 CGGGGAG
1949012 GGTACACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.15, C:0.21, G:0.52, T:0.12
Consensus pattern (21 bp):
CGGGGAGCTGGTGGAACCGTC
Found at i:1949169 original size:21 final size:21
Alignment explanation
Indices: 1949143--1949190 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
1949133 GGCGGTTCAA
1949143 CGTCGACAACTTTTTGATCAT
1 CGTCGACAACTTTTTGATCAT
1949164 CGTCGACAACTTTTTGATCAT
1 CGTCGACAACTTTTTGATCAT
1949185 CGTCGA
1 CGTCGA
1949191 TGATGTGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (21 bp):
CGTCGACAACTTTTTGATCAT
Found at i:1952885 original size:19 final size:19
Alignment explanation
Indices: 1952840--1952885 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1952830 AAGATTTGTT
1952840 TTGCCCCCTAGAATTTTAG
1 TTGCCCCCTAGAATTTTAG
* *
1952859 TTGACCCCTGGAATTTTAG
1 TTGCCCCCTAGAATTTTAG
*
1952878 TTTCCCCC
1 TTGCCCCC
1952886 CCTTAAGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGCCCCCTAGAATTTTAG
Found at i:1965644 original size:215 final size:214
Alignment explanation
Indices: 1965166--1966070 Score: 1342
Period size: 209 Copynumber: 4.2 Consensus size: 214
1965156 ATTTAAGAAT
*
1965166 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAACCAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
*
1965231 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATGTACTAAATTATA
66 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAA-GTACTAAATTATA
* * * * * *
1965296 CTCACTTAAAAAGTTATAGG-CCAATTACAAATAGAATTAAGTAATAAGTATGGATCAATTTAAG
130 CCCA-TTTAAAAGTTAT-GGACCAATTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAG
* *
1965360 ATACAAATAAAACTTGGAGGAC
193 ATGCAAATAAAATTTGGAGGAC
*
1965382 TAAATTGAACAAATGTGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
*
1965447 GGATCAAATCAAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * *
1965512 CCATTTAAAAGTAATGGGCCAATTTAAAAATAGAAATAAGAAATAAGTATGGGTCAATTTCAGAT
131 CCATTTAAAAGTTATGGACCAA-TTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGAT
*
1965577 GCAAATGAAATTTGGAGGAC
195 GCAAATAAAATTTGGAGGAC
*
1965597 TAAATTGAACAAATGTGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * *
1965662 GGATCAAATTAAAATAAGTAATTTTAAATTGTGATGTTGAAATTAATACAAAAATGTACTAAATT
66 GGATCAAA-T-CAA-AA-TAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATT
*
1965727 ATACCCATTTAAAAAGTTTTGGACCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTT
127 ATACCCATTT-AAAAGTTATGGACCAA-TTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTT
*
1965792 CAGATGCAAATAAAATTTGGAGGTC
190 CAGATGCAAATAAAATTTGGAGGAC
* *
1965817 TAAATTAAATAAATATGAAATTACAAATAAAAA-TTAAATAAATTAAACAACACA-A---A--AG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * * *
1965875 GGATCAAATCGAAATAATTTTAAATTTTGAGGTTAAAATTAATACAAAAATGTACTAAATTATAC
66 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* *
1965940 TCATTTAAATAGTTATGGACCAATTAATAAATAGAAATAACTAATAAGTATGGGTCAATTTCAGA
131 CCATTTAAA-AGTTATGGACCAATTAA-AAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
*
1966005 TGCAAATAAAATATGGAGGAC
194 TGCAAATAAAATTTGGAGGAC
* *
1966026 TAAATTAAACAAATATGAAATTACAAATAAAGA-TTAAATAAATTA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTA
1966071 TATAGTTTAT
Statistics
Matches: 642, Mismatches: 38, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
208 7 0.01
209 163 0.25
210 2 0.00
211 1 0.00
212 1 0.00
213 12 0.02
214 14 0.02
215 144 0.22
216 113 0.18
217 2 0.00
218 3 0.00
219 77 0.12
220 103 0.16
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (214 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
CCATTTAAAAGTTATGGACCAATTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATG
CAAATAAAATTTGGAGGAC
Found at i:1966083 original size:2 final size:2
Alignment explanation
Indices: 1966078--1966323 Score: 63
Period size: 2 Copynumber: 123.5 Consensus size: 2
1966068 TTATATAGTT
* * * *
1966078 TA TA TA TA AA GTA TA TG TA T- TA TA TA TA TA AA CTA TA TA GTT
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * * * * *
1966120 TA TA TA TA T- TA TG TA TA AA CTA TA TA TA CCA TG TT TA AA CTA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA -TA
* *
1966162 TA -A TA CTA TA TA GTT TA TA TA TA AA T- TA TA TA TGA -A T- TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * * *
1966201 TA TA TA AA CTA TA CA -A TT TA TA TT TA TA TA T- TA TG TA TA -A
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1966241 T- TA TA AA TA -A TA TA TA T- TG TA TA AA T- TA TA TA GTT TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
1966279 TA -A TA TA AA CTA TA TA GTA TA TA TA TA TA TA TA TA TA GTA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
1966321 TA T
1 TA T
1966324 GGTTTAGGGT
Statistics
Matches: 174, Mismatches: 41, Indels: 58
0.64 0.15 0.21
Matches are distributed among these distances:
1 15 0.09
2 142 0.82
3 17 0.10
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1966092 original size:20 final size:20
Alignment explanation
Indices: 1966063--1966323 Score: 102
Period size: 22 Copynumber: 13.0 Consensus size: 20
1966053 TAAAGATTAA
*
1966063 ATAAATTATATAGTTTATAT
1 ATAAACTATATAGTTTATAT
*
1966083 ATAAAGTATAT-GTATTATATAT
1 ATAAACTATATAG--TT-TATAT
1966105 ATAAACTATATAGTTTATAT
1 ATAAACTATATAGTTTATAT
* *
1966125 AT--A-T-TAT-GTATAAACT
1 ATAAACTATATAGTTTATA-T
* * *
1966141 ATATA-TACCAT-GTTTAAACT
1 ATAAACTA-TATAGTTTATA-T
1966161 ATAATACTATATAGTTTATAT
1 ATAA-ACTATATAGTTTATAT
* *
1966182 ATAAATTATATATGAATTATAT
1 ATAAACTATATA-G-TTTATAT
* *
1966204 ATAAACTATACAATTTATAT
1 ATAAACTATATAGTTTATAT
* * *
1966224 TTATA-TAT-TA-TGTATAATT
1 ATAAACTATATAGTTTAT-A-T
* *
1966243 ATAAA-TA-ATA-TATATTGT
1 ATAAACTATATAGTTTA-TAT
*
1966261 ATAAATTATATAGTTTATTAAT
1 ATAAACTATATAGTTTA-T-AT
1966283 ATAAACTATATAGTATATATAT
1 ATAAACTATATAGT-T-TATAT
* *
1966305 ATATA-TATATAGTATATAT
1 ATAAACTATATAGTTTATAT
1966324 GGTTTAGGGT
Statistics
Matches: 189, Mismatches: 28, Indels: 49
0.71 0.11 0.18
Matches are distributed among these distances:
15 5 0.03
16 6 0.03
17 5 0.03
18 11 0.06
19 22 0.12
20 50 0.26
21 26 0.14
22 59 0.31
23 3 0.02
24 2 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (20 bp):
ATAAACTATATAGTTTATAT
Found at i:1966114 original size:29 final size:29
Alignment explanation
Indices: 1966082--1966143 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
1966072 ATAGTTTATA
*
1966082 TATAAAGTATATGTAT-TATATATATAAAC
1 TATAAAGTATATATATAT-TATATATAAAC
* * *
1966111 TATATAGTTTATATATATTATGTATAAAC
1 TATAAAGTATATATATATTATATATAAAC
1966140 TATA
1 TATA
1966144 TATACCATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (29 bp):
TATAAAGTATATATATATTATATATAAAC
Found at i:1966144 original size:42 final size:41
Alignment explanation
Indices: 1966063--1966147 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 41
1966053 TAAAGATTAA
* * *
1966063 ATAAATTATATAGTTTATATATAAAGTATATGTATTATATAT
1 ATAAACTATATAGTTTATATATAAAGTATA-GAACTATATAT
*
1966105 ATAAACTATATAGTTTATATATATTATGTATA-AACTATATAT
1 ATAAACTATATAGTTTATATATA--AAGTATAGAACTATATAT
1966147 A
1 A
1966148 CCATGTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 31 0.84
44 6 0.16
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (41 bp):
ATAAACTATATAGTTTATATATAAAGTATAGAACTATATAT
Found at i:1966193 original size:13 final size:11
Alignment explanation
Indices: 1966176--1966309 Score: 60
Period size: 11 Copynumber: 11.8 Consensus size: 11
1966166 ACTATATAGT
1966176 TTATATATAAA
1 TTATATATAAA
*
1966187 TTATATATGAA
1 TTATATATAAA
1966198 TTATATATAAA
1 TTATATATAAA
* * *
1966209 --CTATACAAT
1 TTATATATAAA
*
1966218 TTATATTTATATA
1 TTATA--TATAAA
*
1966231 TTATGTAT-AA
1 TTATATATAAA
*
1966241 TTATAAATAATA
1 TTATATATAA-A
*
1966253 TATATTGTATAAA
1 T-TA-TATATAAA
**
1966266 TTATATAGTTTA
1 TTATATA-TAAA
1966278 TTA-ATATAAA
1 TTATATATAAA
* *
1966288 CTATATAGTATA
1 TTATATA-TAAA
1966300 TATATATATA
1 T-TATATATA
1966310 TATATAGTAT
Statistics
Matches: 88, Mismatches: 23, Indels: 23
0.66 0.17 0.17
Matches are distributed among these distances:
9 6 0.07
10 11 0.12
11 35 0.40
12 14 0.16
13 17 0.19
14 5 0.06
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (11 bp):
TTATATATAAA
Done.