Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 57 of 182
Found at i:18734147 original size:156 final size:153
Alignment explanation
Indices: 18733856--18734344 Score: 533
Period size: 156 Copynumber: 3.2 Consensus size: 153
18733846 GAAGGACAGA
* * *
18733856 ATCACCATTAGCTAATCTCTTACCCCGAG-CTTGGGGAAGATTGCAGCCATCCGATCTTTTACCC
1 ATCACCATCAGCCAATCTCTTACCCCAAGCCTT-GGGAAGATTGCAGCCATCCGATCTTTTACCC
* * * * * *
18733920 C-G---G-GCAGATCACAACCAATCAATCTCTTACCCCGAGCCTGGGGCAGATTATAACTATCCG
65 CAGCTTGAGCAGATCAC-ATCAATCAATCTCTTACCCAGAGCCTGGGGCAGATTGTAGCCATTCG
18733980 ATCTTTTACCCCAAGCCTGGGGCAG
129 ATCTTTTACCCCAAGCCTGGGGCAG
* *
18734005 ATCACCATCAACCAATCTCTTACCCCAAGCCTTGGGTAGATTGCAGCCATCCGATCTTTTACCCC
1 ATCACCATCAGCCAATCTCTTACCCCAAGCCTTGGGAAGATTGCAGCCATCCGATCTTTTACCCC
* *
18734070 AAGCTTGAGTCAGATCAGCATCAACCAATCTCTTACCCAGAGCCTAGGGCAGATTGTAGCCATTC
66 -AGCTTGAG-CAGATCA-CATCAATCAATCTCTTACCCAGAGCCTGGGGCAGATTGTAGCCATTC
* *
18734135 GATCTTTTACCCCAAGTCTGAGGCAG
128 GATCTTTTACCCCAAGCCTGGGGCAG
* ** * * *
18734161 ATCACCATCAGCCAATCTCTTACCCCGAGCCTAAGGCAGATTGCAGCCATTCGATCTCTTACCCC
1 ATCACCATCAGCCAATCTCTTACCCCAAGCCTTGGGAAGATTGCAGCCATCCGATCTTTTACCCC
* * * * * * * ** *
18734226 GAGCTTGAGGAAGATCACCATCAGTCAATCTCTTACCCCA-ATCATGGGGTAAATGGCGGTCATT
66 -AGCTTGA-GCAGATCA-CATCAATCAATCTCTTA-CCCAGAGCCTGGGGCAGATTGTAGCCATT
* * * *
18734290 CGATCTCTTACCCCGAGCTTGGGGTAG
127 CGATCTTTTACCCCAAGCCTGGGGCAG
18734317 ATCACCATCAGCCAATCTCTTACCCCAA
1 ATCACCATCAGCCAATCTCTTACCCCAA
18734345 TCAGGGAGCA
Statistics
Matches: 286, Mismatches: 43, Indels: 15
0.83 0.12 0.04
Matches are distributed among these distances:
149 56 0.20
150 3 0.01
151 1 0.00
154 1 0.00
155 1 0.00
156 218 0.76
157 6 0.02
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (153 bp):
ATCACCATCAGCCAATCTCTTACCCCAAGCCTTGGGAAGATTGCAGCCATCCGATCTTTTACCCC
AGCTTGAGCAGATCACATCAATCAATCTCTTACCCAGAGCCTGGGGCAGATTGTAGCCATTCGAT
CTTTTACCCCAAGCCTGGGGCAG
Found at i:18736432 original size:30 final size:29
Alignment explanation
Indices: 18736398--18736898 Score: 262
Period size: 30 Copynumber: 16.9 Consensus size: 29
18736388 CAGAAATCAT
* * *
18736398 ATTTTGACCCTCAAACTCTCCCAAAATTTC
1 ATTTTAACCCTCAAACT-TCCAAAAATTAC
* *
18736428 ATTTTAACCCTTAAAATTTTCC-AAAATTAC
1 ATTTTAACCC-TCAAA-CTTCCAAAAATTAC
* * *
18736458 ATTTTAACCC-CTAAAATTCACAAAAACTAA
1 ATTTTAACCCTC-AAACTTC-CAAAAATTAC
*
18736488 ATTTTAACCCTCAAACTTCTCAAAAATCAC
1 ATTTTAACCCTCAAACTTC-CAAAAATTAC
*
18736518 ATTTT-ACCCTTAAACTTTCCAAAAATTAC
1 ATTTTAACCCTCAAAC-TTCCAAAAATTAC
* * *
18736547 ATTTTGACCCTTAAACTTCTCTAAAATTAC
1 ATTTTAACCCTCAAACTTC-CAAAAATTAC
** *
18736577 ATTTTAACCCTCTAATTTTTCC-AAAATTGC
1 ATTTTAACCCTC-AA-ACTTCCAAAAATTAC
*
18736607 ATTTTCA-CCTCAAACTTTTCC-AAAATTAC
1 ATTTTAACCCTCAAAC--TTCCAAAAATTAC
*
18736636 ATTTTAACCCTCAAACTTCACAAAAATCAC
1 ATTTTAACCCTCAAACTTC-CAAAAATTAC
* * *
18736666 ATTTTGACCCTTC-AACTTCGTAAAAATTAT
1 ATTTTAACCC-TCAAACTTC-CAAAAATTAC
* * *
18736696 ATTTTGACCCTCGAACTT-TATAAAGATTACC
1 ATTTTAACCCTCAAACTTCCA-AAA-ATTA-C
* *
18736727 ATTTTGA--CTCGAACTTTTCC-AAAATTACC
1 ATTTTAACCCTCAAAC--TTCCAAAAATTA-C
* * * * *
18736756 ATTTT-GCTCTCGAACGTCGAAAAATTAC
1 ATTTTAACCCTCAAACTTCCAAAAATTAC
* * *
18736784 TATTTT-ACCCCCGAACATCCAAAAATTACC
1 -ATTTTAACCCTCAAACTTCCAAAAATTA-C
** *
18736814 ATTTTTCCCCT-AAACATCCAAAAATTAC
1 ATTTTAACCCTCAAACTTCCAAAAATTAC
* * *
18736842 ATTTTCGA-CCTCAAATTTTCCAAAAGTT-C
1 ATTTT-AACCCTCAAA-CTTCCAAAAATTAC
* *
18736871 GATTTTAATCCT-AAATTTTCCAAAAATT
1 -ATTTTAACCCTCAAA-CTTCCAAAAATT
18736899 TTCCAAAAGT
Statistics
Matches: 384, Mismatches: 52, Indels: 71
0.76 0.10 0.14
Matches are distributed among these distances:
28 22 0.06
29 144 0.38
30 192 0.50
31 22 0.06
32 4 0.01
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (29 bp):
ATTTTAACCCTCAAACTTCCAAAAATTAC
Found at i:18736482 original size:59 final size:58
Alignment explanation
Indices: 18736418--18736684 Score: 236
Period size: 59 Copynumber: 4.5 Consensus size: 58
18736408 TCAAACTCTC
* * * * *
18736418 CCAAAATTTCATTTTAACCCTTAAAATTTTCCAAAATTACATTTTAACCCCTAAAATT
1 CCAAAATTACATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCCTAAATTT
* * * * *
18736476 CACAAAAACTAAATTTTAACCCTCAAACTTCTCAAAAATCACATTTT-ACCCTTAAACTTT
1 C-C-AAAATTACATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCCTAAA-TTT
* * * *
18736536 CCAAAAATTACATTTTGACCCTTAAACTTCTCTAAAATTACATTTTAACCCTCTAATTTTT
1 CC-AAAATTACATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCC-CTAA-ATTT
* * * *
18736597 CCAAAATTGCATTTTCA-CCTCAAACTTTTCCAAAATTACATTTTAA-CCCTCAAACTT
1 CCAAAATTACATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCCT-AAATTT
* *
18736654 CACAAAAATCACATTTTGACCCTTC-AACTTC
1 C-C-AAAATTACATTTTAACCC-TCAAACTTC
18736685 GTAAAAATTA
Statistics
Matches: 169, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
57 5 0.03
58 6 0.04
59 86 0.51
60 62 0.37
61 10 0.06
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.36
Consensus pattern (58 bp):
CCAAAATTACATTTTAACCCTCAAACTTCTCCAAAATTACATTTTAACCCCTAAATTT
Found at i:18736581 original size:89 final size:89
Alignment explanation
Indices: 18736398--18736714 Score: 311
Period size: 89 Copynumber: 3.6 Consensus size: 89
18736388 CAGAAATCAT
* * * * *
18736398 ATTTTGACCCTCAAAC-TCTCCCAAAATTTCATTTTAACCCTTAAAATTTTCCAAAATTACATTT
1 ATTTTAACCCTCAAACTTCT-CAAAAATTACATTTTAACCC-TCAAACTTTCCAAAATTACATTT
* * * *
18736462 TAACCCCTAAAATTCACAAAAACTAA
64 TAACCCTTAAACTTCACAAAAATTAC
* *
18736488 ATTTTAACCCTCAAACTTCTCAAAAATCACATTTT-ACCCTTAAACTTTCCAAAAATTACATTTT
1 ATTTTAACCCTCAAACTTCTCAAAAATTACATTTTAACCCTCAAACTTTCC-AAAATTACATTTT
* * *
18736552 GACCCTTAAACTTCTCTAAAATTAC
65 AACCCTTAAACTTCACAAAAATTAC
* * * * * *
18736577 ATTTTAACCCTCTAATTTTTCCAAAATTGCATTTTCA-CCTCAAACTTTTCCAAAATTACATTTT
1 ATTTTAACCCTCAAACTTCTCAAAAATTACATTTTAACCCTCAAAC-TTTCCAAAATTACATTTT
* *
18736641 AACCCTCAAACTTCACAAAAATCAC
65 AACCCTTAAACTTCACAAAAATTAC
* * * *
18736666 ATTTTGACCCTTC-AACTTCGT-AAAAATTATATTTTGACCCTCGAACTTT
1 ATTTTAACCC-TCAAACTTC-TCAAAAATTACATTTTAACCCTCAAACTTT
18736715 ATAAAGATTA
Statistics
Matches: 187, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
88 9 0.05
89 132 0.71
90 43 0.23
91 3 0.02
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (89 bp):
ATTTTAACCCTCAAACTTCTCAAAAATTACATTTTAACCCTCAAACTTTCCAAAATTACATTTTA
ACCCTTAAACTTCACAAAAATTAC
Found at i:18736611 original size:119 final size:120
Alignment explanation
Indices: 18736391--18736707 Score: 340
Period size: 119 Copynumber: 2.7 Consensus size: 120
18736381 AACTTTCCAG
* * * * * * * * *
18736391 AAATCATATTTTGACCCTCAAACTCTCCCAAAATTTCATTTTAACCCTTAAAATTTTCCAAAATT
1 AAATCACATTTTAACCCTCAAACTTTCCAAAAATTACATTTTGACCCTTAAACTTCTCAAAAATT
18736456 ACATTTTAACCC-CTAAAATTCACAAAAACTAAATTTTAACCCTCAAACTTCTCAA
66 ACATTTTAACCCTCTAAAATTCACAAAAACTAAATTTTAA-CCTCAAACTTCTCAA
* *
18736511 AAATCACATTTT-ACCCTTAAACTTTCCAAAAATTACATTTTGACCCTTAAACTTCTCTAAAATT
1 AAATCACATTTTAACCCTCAAACTTTCCAAAAATTACATTTTGACCCTTAAACTTCTCAAAAATT
** * ** * * *
18736575 ACATTTTAACCCTCTAATTTTTC-C-AAAATTGCATTTTCACCTCAAACTTTTCCA
66 ACATTTTAACCCTCTAA-AATTCACAAAAACTAAATTTTAACCTCAAACTTCTCAA
* * *
18736629 AAATTACATTTTAACCCTCAAAC-TTCACAAAAATCACATTTTGACCCTTCAACTTCGT-AAAAA
1 AAATCACATTTTAACCCTCAAACTTTC-CAAAAATTACATTTTGACCCTTAAACTTC-TCAAAAA
* *
18736692 TTATATTTTGACCCTC
64 TTACATTTTAACCCTC
18736708 GAACTTTATA
Statistics
Matches: 168, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
118 27 0.16
119 121 0.72
120 17 0.10
121 3 0.02
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.36
Consensus pattern (120 bp):
AAATCACATTTTAACCCTCAAACTTTCCAAAAATTACATTTTGACCCTTAAACTTCTCAAAAATT
ACATTTTAACCCTCTAAAATTCACAAAAACTAAATTTTAACCTCAAACTTCTCAA
Found at i:18736741 original size:29 final size:28
Alignment explanation
Indices: 18736688--18736770 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 28
18736678 CAACTTCGTA
*
18736688 AAAATTA-TATTTTGACCCTCGAACTTTAT-
1 AAAATTACCATTTTGA--CTCGAACTTT-TC
18736717 AAAGATTACCATTTTGACTCGAACTTTTCC
1 AAA-ATTACCATTTTGACTCGAACTTTT-C
*
18736747 AAAATTACCATTTTGCTCTCGAAC
1 AAAATTACCATTTTG-ACTCGAAC
18736771 GTCGAAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
28 1 0.02
29 25 0.53
30 14 0.30
31 7 0.15
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (28 bp):
AAAATTACCATTTTGACTCGAACTTTTC
Found at i:18736742 original size:119 final size:117
Alignment explanation
Indices: 18736384--18736760 Score: 323
Period size: 119 Copynumber: 3.2 Consensus size: 117
18736374 GTCCCTTAAC
* * * * ** * * *
18736384 TTTCCAGAAATCATATTTTGACCCTCAAACTCTCCCAAAATTTCATTTTAACCCTTAAAATTTTC
1 TTTCCA-AAATTACATTTT-ACCCTCAAACTTTCCAAAAATCACATTTTGACCCTTAAACTTCTC
* ** * * ** *
18736449 CAAAATTACATTTTAACCCCTAAAATTCA-CAAAAACTAAATTTTAACCCTCAAACT
64 AAAAATTACATTTTAA-CCCTCGAATTTATC-AAAATTCCATTTTCA-CCTCAAACT
* * * * * *
18736505 TCTCAAAAATCACATTTTACCCTTAAACTTTCCAAAAATTACATTTTGACCCTTAAACTTCTCTA
1 TTTCCAAAATTACATTTTACCCTCAAACTTTCCAAAAATCACATTTTGACCCTTAAACTTCTCAA
* * *
18736570 AAATTACATTTTAACCCTCTAATTTTTCCAAAATTGCATTTTCACCTCAAACT
66 AAATTACATTTTAACCCTCGAATTTAT-CAAAATTCCATTTTCACCTCAAACT
*
18736623 TTTCCAAAATTACATTTTAACCCTCAAAC-TTCACAAAAATCACATTTTGACCCTTCAACTTCGT
1 TTTCCAAAATTACATTTT-ACCCTCAAACTTTC-CAAAAATCACATTTTGACCCTTAAACTTC-T
* * * *
18736687 -AAAAATTATATTTTGACCCTCGAACTTTAT-AAAGATTACCATTTTGA-CTCGAACT
63 CAAAAATTACATTTTAACCCTCGAA-TTTATCAAA-ATT-CCATTTTCACCTCAAACT
18736742 TTTCCAAAATTACCATTTT
1 TTTCCAAAATTA-CATTTT
18736761 GCTCTCGAAC
Statistics
Matches: 214, Mismatches: 33, Indels: 19
0.80 0.12 0.07
Matches are distributed among these distances:
118 38 0.18
119 142 0.66
120 30 0.14
121 4 0.02
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (117 bp):
TTTCCAAAATTACATTTTACCCTCAAACTTTCCAAAAATCACATTTTGACCCTTAAACTTCTCAA
AAATTACATTTTAACCCTCGAATTTATCAAAATTCCATTTTCACCTCAAACT
Found at i:18736779 original size:29 final size:29
Alignment explanation
Indices: 18736747--18736846 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 29
18736737 GAACTTTTCC
* * * * *
18736747 AAAATTACCATTTTGCTCTCGAACGTCGA
1 AAAATTACCATTTTACCCCCGAACATCCA
*
18736776 AAAATTACTATTTTACCCCCGAACATCCA
1 AAAATTACCATTTTACCCCCGAACATCCA
* **
18736805 AAAATTACCATTTTTCCCCTAAACATCCA
1 AAAATTACCATTTTACCCCCGAACATCCA
18736834 AAAATTA-CATTTT
1 AAAATTACCATTTT
18736847 CGACCTCAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 6 0.10
29 55 0.90
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAACATCCA
Found at i:18753384 original size:30 final size:30
Alignment explanation
Indices: 18753350--18753415 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
18753340 AAAAATAAAT
* **
18753350 TTTTTGGGACATTTAAGGGTAAAATGATAA
1 TTTTTGGGAAATCCAAGGGTAAAATGATAA
* *
18753380 TTTTT-GGAAATCCAGGGGTAAAATGGTAA
1 TTTTTGGGAAATCCAAGGGTAAAATGATAA
18753409 TTTTTGG
1 TTTTTGG
18753416 AAAGTTCAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.38
Consensus pattern (30 bp):
TTTTTGGGAAATCCAAGGGTAAAATGATAA
Found at i:18753398 original size:29 final size:29
Alignment explanation
Indices: 18753366--18753588 Score: 156
Period size: 29 Copynumber: 7.7 Consensus size: 29
18753356 GGACATTTAA
*
18753366 GGGTAAAATGATAATTTTTGGAAATCCAG
1 GGGTAAAATGATAATTTTTGGAAATTCAG
*
18753395 GGGTAAAATGGTAATTTTTGGAAAGTTCA-
1 GGGTAAAATGATAATTTTTGGAAA-TTCAG
* * **
18753424 GGGTCAAAAAT-AGAATTTTTGGAAGTTTGG
1 GGGT--AAAATGATAATTTTTGGAAATTCAG
* * *
18753454 GGGTAATATGATAATTTTTGAAAAGTTCAA
1 GGGTAAAATGATAATTTTTGGAAA-TTCAG
* *
18753484 GGTTAAAAATGA-CATTTTTGGAAATTC-G
1 GGGT-AAAATGATAATTTTTGGAAATTCAG
** **
18753512 AGGCAAAAATG-TAATTTTTGGAAATTTGG
1 -GGGTAAAATGATAATTTTTGGAAATTCAG
* *
18753541 GGGCAAAAATG-TAATTTTTAGAAAGTT-AG
1 GGG-TAAAATGATAATTTTTGGAAA-TTCAG
18753570 GGGTCAAAAT-ATAATTTTT
1 GGGT-AAAATGATAATTTTT
18753589 AAAAGTTTAG
Statistics
Matches: 153, Mismatches: 27, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
28 25 0.16
29 82 0.54
30 35 0.23
31 11 0.07
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (29 bp):
GGGTAAAATGATAATTTTTGGAAATTCAG
Found at i:18753441 original size:59 final size:57
Alignment explanation
Indices: 18753378--18753588 Score: 176
Period size: 59 Copynumber: 3.6 Consensus size: 57
18753368 GTAAAATGAT
* *
18753378 AATTTTTGGAAATCCAGGGGTAAAATGGTAATTTTTGGAAAGTTCAGGGTCAAAAATAG
1 AATTTTTGGAAATTC-GGGGTAAAATGGTAATTTTTGGAAAGTTCAAGGTCAAAAAT-G
* * * * * *
18753437 AATTTTTGGAAGTTTGGGGGTAATATGATAATTTTTGAAAAGTTCAAGGTTAAAAATG
1 AATTTTTGGAA-ATTCGGGGTAAAATGGTAATTTTTGGAAAGTTCAAGGTCAAAAATG
** *** *
18753495 ACATTTTTGGAAATTCGAGGCAAAAAT-GTAATTTTTGGAAA-TTTGGGGGCAAAAATG
1 A-ATTTTTGGAAATTCG-GGGTAAAATGGTAATTTTTGGAAAGTTCAAGGTCAAAAATG
* * *
18753552 TAATTTTTAGAAAGTTAGGGGTCAAAAT-ATAATTTTT
1 -AATTTTTGGAAA-TTCGGGGT-AAAATGGTAATTTTT
18753589 AAAAGTTTAG
Statistics
Matches: 121, Mismatches: 25, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
57 23 0.19
58 34 0.28
59 63 0.52
60 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (57 bp):
AATTTTTGGAAATTCGGGGTAAAATGGTAATTTTTGGAAAGTTCAAGGTCAAAAATG
Found at i:18753466 original size:88 final size:86
Alignment explanation
Indices: 18753283--18753564 Score: 219
Period size: 88 Copynumber: 3.2 Consensus size: 86
18753273 GCAGTCGGGA
* * * * * *
18753283 TAAAATG-CAATTTTTGGATAA-CCAGGGCAAAACGGTAA-TTTTGG-AGGTTCGAGGTTAAAAA
1 TAAAATGATAATTTTTGGA-AATCCAGGGTAAAATGGTAATTTTTGGAAAGTTC-AGGGTCAAAA
**
18753344 ATA-AATTTTTTGGGACATTTAAGGG
64 ATAGAA-TTTTT-GGA-ATTTGGGGG
18753369 TAAAATGATAATTTTTGGAAATCCAGGGGTAAAATGGTAATTTTTGGAAAGTTCAGGGTCAAAAA
1 TAAAATGATAATTTTTGGAAATCCA-GGGTAAAATGGTAATTTTTGGAAAGTTCAGGGTCAAAAA
18753434 TAGAATTTTTGGAAGTTTGGGGG
65 TAGAATTTTTGGAA-TTTGGGGG
* * * *
18753457 TAATATGATAATTTTTGAAAAGTTCAAGGTTAAAAAT-G-ACATTTTTGGAAA-TTC-GAGG-CA
1 TAAAATGATAATTTTTGGAAA--TCCAGGGT-AAAATGGTA-ATTTTTGGAAAGTTCAG-GGTCA
18753517 AAAAT-GTAATTTTTGGAAATTTGGGGG
61 AAAATAG-AATTTTTGG-AATTTGGGGG
* *
18753544 CAAAAATG-TAATTTTTAGAAA
1 -TAAAATGATAATTTTTGGAAA
18753565 GTTAGGGGTC
Statistics
Matches: 165, Mismatches: 16, Indels: 29
0.79 0.08 0.14
Matches are distributed among these distances:
86 10 0.06
87 50 0.30
88 53 0.32
89 37 0.22
90 15 0.09
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (86 bp):
TAAAATGATAATTTTTGGAAATCCAGGGTAAAATGGTAATTTTTGGAAAGTTCAGGGTCAAAAAT
AGAATTTTTGGAATTTGGGGG
Found at i:18753589 original size:29 final size:29
Alignment explanation
Indices: 18753366--18753660 Score: 132
Period size: 29 Copynumber: 10.1 Consensus size: 29
18753356 GGACATTTAA
*
18753366 GGGT-AAAATGATAATTTTTGGAAA-TCCAG
1 GGGTCAAAAT-ATAATTTTTGGAAAGT-TAG
*
18753395 GGGT-AAAATGGTAATTTTTGGAAAGTTCA-
1 GGGTCAAAAT-ATAATTTTTGGAAAGTT-AG
* *
18753424 GGGTCAAAAATAGAATTTTTGG-AAGTTTGG
1 GGGTC-AAAATATAATTTTTGGAAAG-TTAG
* *
18753454 GGGT-AATATGATAATTTTTGAAAAGTTCA-
1 GGGTCAAAAT-ATAATTTTTGGAAAGTT-AG
* * *
18753483 AGGTTAAAA-ATGACATTTTTGGAAA-TTCG
1 GGGTCAAAATAT-A-ATTTTTGGAAAGTTAG
* * *
18753512 AGG-CAAAAATGTAATTTTTGGAAA-TTTG
1 GGGTC-AAAATATAATTTTTGGAAAGTTAG
* * *
18753540 GGGGCAAAAATGTAATTTTTAGAAAGTTAG
1 GGGTC-AAAATATAATTTTTGGAAAGTTAG
*
18753570 GGGTCAAAATATAATTTTT-AAAAGTTTAG
1 GGGTCAAAATATAATTTTTGGAAAG-TTAG
* ** *
18753599 AGGGTTAAAATGCAATTTTTAGG-AAGTTTG
1 -GGGTCAAAATATAATTTTT-GGAAAGTTAG
* * *
18753629 AGGGCCAAAATATGA-TTTTGGATAGTTCAG
1 -GGGTCAAAATATAATTTTTGGAAAGTT-AG
18753659 GG
1 GG
18753661 ACCTTCTGGG
Statistics
Matches: 209, Mismatches: 34, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
28 28 0.13
29 102 0.49
30 71 0.34
31 8 0.04
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.34
Consensus pattern (29 bp):
GGGTCAAAATATAATTTTTGGAAAGTTAG
Found at i:18755492 original size:11 final size:10
Alignment explanation
Indices: 18755456--18755496 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
18755446 TGGACTTTTT
18755456 AATTTAAATA
1 AATTTAAATA
18755466 AATTTAAACTTA
1 AATTTAAA--TA
18755478 AATTTATAATA
1 AATTTA-AATA
18755489 AATTTAAA
1 AATTTAAA
18755497 CCTAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.36
11 8 0.29
12 8 0.29
13 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTAAATA
Found at i:18755492 original size:23 final size:22
Alignment explanation
Indices: 18755456--18755502 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
18755446 TGGACTTTTT
*
18755456 AATTTAAATAAATTTAAACTTA
1 AATTTAAATAAATTTAAACCTA
18755478 AATTTATAATAAATTTAAACCTA
1 AATTTA-AATAAATTTAAACCTA
18755501 AA
1 AA
18755503 ATAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTTAAATAAATTTAAACCTA
Found at i:18755495 original size:17 final size:17
Alignment explanation
Indices: 18755470--18755516 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
18755460 TAAATAAATT
* *
18755470 TAAACTTAAATTTATAA
1 TAAATTTAAATTTAAAA
**
18755487 TAAATTTAAACCTAAAA
1 TAAATTTAAATTTAAAA
18755504 TAAATTTAAATTT
1 TAAATTTAAATTT
18755517 TGTTGGGCCC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:18756243 original size:158 final size:160
Alignment explanation
Indices: 18755946--18756289 Score: 503
Period size: 158 Copynumber: 2.2 Consensus size: 160
18755936 CTTCGACCTG
* * * *
18755946 CTTCTTAATATCTCATCAGGAAGCTGGGGTTTGAAGATTCGCTCACTTTGAGCCTGGCTTCATTG
1 CTTCTCAATATCTCATCAAGAAGCTGGGGTTCGAAGATTCGCTCACTTTGAGCCTGGCGT-ATTG
* * *
18756011 ATTTGGTTTTCTTCTCAGCATCTCATCAGGAAGATGACCGCATTACTTGTTTTAATCCACTTCTC
65 ATTTGGTTTACTTCTCAGCATCTCATCAGGAAGATGACAGCATCACTTGTTTTAATCCACTTCTC
* *
18756076 TGTTTCTCATCAAGAAGACAAATTTGGTCCA
130 TGTGTCTCATCAAGAAGACAAATCTGGTCCA
*
18756107 CTTCTCAATATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGG-GT-TTGA
1 CTTCTCAATATCTCATCAAGAAGCTGGGGTTCGAAGATTCGCTCACTTTGAGCCTGGCGTATTGA
* *
18756170 TTTGGTTTACTTCTCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTTGATCCACTTCTCT
66 TTTGGTTTACTTCTCAGCATCTCATCAGGAAGATGACAGCATCACTTGTTTTAATCCACTTCTCT
* ** **
18756235 GTGTCTCATCAGGAAGACGGATCTGGTTGA
131 GTGTCTCATCAAGAAGACAAATCTGGTCCA
*
18756265 CTTCTCAATATCACATCAAGAAGCT
1 CTTCTCAATATCTCATCAAGAAGCT
18756290 AACCATTTTA
Statistics
Matches: 165, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
158 111 0.67
160 1 0.01
161 53 0.32
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (160 bp):
CTTCTCAATATCTCATCAAGAAGCTGGGGTTCGAAGATTCGCTCACTTTGAGCCTGGCGTATTGA
TTTGGTTTACTTCTCAGCATCTCATCAGGAAGATGACAGCATCACTTGTTTTAATCCACTTCTCT
GTGTCTCATCAAGAAGACAAATCTGGTCCA
Found at i:18768414 original size:17 final size:19
Alignment explanation
Indices: 18768384--18768420 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
18768374 AATAATACAT
18768384 AAAAATCAATAGAAT-ATA
1 AAAAATCAATAGAATGATA
*
18768402 AAAAATGAA-AGAATGATA
1 AAAAATCAATAGAATGATA
18768420 A
1 A
18768421 TTAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.68, C:0.03, G:0.11, T:0.19
Consensus pattern (19 bp):
AAAAATCAATAGAATGATA
Found at i:18768760 original size:29 final size:30
Alignment explanation
Indices: 18768558--18768817 Score: 204
Period size: 29 Copynumber: 8.9 Consensus size: 30
18768548 GGGACATCCG
*
18768558 AGGG-TAAAATGGTAA-TTTTGGAAA-TCT-
1 AGGGTTAAAAT-GTAATTTTTGGAAAGTTTA
* *
18768585 GGGGGTAAAATGGTAATTTTTGGAAAGTTT-
1 AGGGTTAAAAT-GTAATTTTTGGAAAGTTTA
* * *
18768615 GGGGTCAAAAATGGAATTTTTGG-AAGTTT-
1 AGGGT-TAAAATGTAATTTTTGGAAAGTTTA
* * *
18768644 GGGGTTAAAAATGGAATTTTTGGAAA-TTCA
1 AGGGTT-AAAATGTAATTTTTGGAAAGTTTA
** *
18768674 ATTG-TAAAATGGTAATTTTTGGAAA-TTCA
1 AGGGTTAAAAT-GTAATTTTTGGAAAGTTTA
*
18768703 AGGG-AAAAATGTAATTTTTGGAAAGTTTA
1 AGGGTTAAAATGTAATTTTTGGAAAGTTTA
* * *
18768732 GGGGTCAAAATATAATTTTT-GAAAGTTTA
1 AGGGTTAAAATGTAATTTTTGGAAAGTTTA
** *
18768761 AGTTTTAAAATGCAATTTTT-GAAAGTTTA
1 AGGGTTAAAATGTAATTTTTGGAAAGTTTA
*
18768790 AGGGTTAAAATGTAATTTTTGGGAAGTT
1 AGGGTTAAAATGTAATTTTTGGAAAGTT
18768818 CGAGGGCTAA
Statistics
Matches: 194, Mismatches: 28, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
27 3 0.02
28 30 0.15
29 118 0.61
30 38 0.20
31 5 0.03
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
AGGGTTAAAATGTAATTTTTGGAAAGTTTA
Found at i:18768771 original size:116 final size:116
Alignment explanation
Indices: 18768558--18768811 Score: 304
Period size: 116 Copynumber: 2.2 Consensus size: 116
18768548 GGGACATCCG
** *
18768558 AGGGTAAAATGGTAA-TTTTGGAAATCTGGGGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTCA
1 AGGGTAAAATGGTAATTTTTGGAAATCTAAGGGAAAAATGGTAATTTTTGGAAAGTTTGGGGTCA
* ** *
18768622 AAAATGGAATTTTTGGAAGTTTGGGGTTAAAAATGGAATTTTTGGAAA-TTCA
66 AAAAT-GAATTTTTGAAAGTTTAAGGTTAAAAATGCAATTTTT-GAAAGTTCA
**
18768674 ATTGTAAAATGGTAATTTTTGGAAAT-TCAAGGGAAAAAT-GTAATTTTTGGAAAGTTTAGGGGT
1 AGGGTAAAATGGTAATTTTTGGAAATCT-AAGGGAAAAATGGTAATTTTTGGAAAGTTT-GGGGT
* * *
18768737 CAAAATAT-AATTTTTGAAAGTTTAAGTTTTAAAATGCAATTTTTGAAAGTTTA
64 CAAAA-ATGAATTTTTGAAAGTTTAAGGTTAAAAATGCAATTTTTGAAAGTTCA
18768790 AGGGTTAAAAT-GTAATTTTTGG
1 AGGG-TAAAATGGTAATTTTTGG
18768812 GAAGTTCGAG
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
115 4 0.03
116 78 0.66
117 34 0.29
118 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.37
Consensus pattern (116 bp):
AGGGTAAAATGGTAATTTTTGGAAATCTAAGGGAAAAATGGTAATTTTTGGAAAGTTTGGGGTCA
AAAATGAATTTTTGAAAGTTTAAGGTTAAAAATGCAATTTTTGAAAGTTCA
Found at i:18768830 original size:88 final size:88
Alignment explanation
Indices: 18768589--18768842 Score: 256
Period size: 88 Copynumber: 2.9 Consensus size: 88
18768579 AAATCTGGGG
* * *
18768589 GTAAAATGGTAATTTTTGGAAAGTTT-GGGGTCAAAAATGGAATTTTT-GGAAGTTTG-GGGTTA
1 GTAAAATGGTAATTTTTGGAAAGTTTAAGGGT-AAAAATGTAATTTTTGGGAAG-TTGAGGGCTA
18768651 AAA-ATGGAATTTTTGGAAATTCAATT
64 AAATAT--AATTTTTGGAAATTCAATT
* * * *
18768677 GTAAAATGGTAATTTTTGGAAA-TTCAAGGG-AAAAATGTAATTTTTGGAAAGTTTAGGGGTCAA
1 GTAAAATGGTAATTTTTGGAAAGTTTAAGGGTAAAAATGTAATTTTTGGGAAGTTGAGGGCT-AA
*
18768740 AATATAATTTTT-GAAAGTTTAAGTT
65 AATATAATTTTTGGAAA-TTCAA-TT
* * *
18768765 TTAAAAT-GCAATTTTT-GAAAGTTTAAGGGTTAAAATGTAATTTTTGGGAAGTTCGAGGGCTAA
1 GTAAAATGGTAATTTTTGGAAAGTTTAAGGGTAAAAATGTAATTTTTGGGAAGTT-GAGGGCTAA
* *
18768828 AATATGATTTCTGGA
65 AATATAATTTTTGGA
18768843 CAGTTCAGGA
Statistics
Matches: 139, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
86 24 0.17
87 36 0.26
88 70 0.50
89 9 0.06
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (88 bp):
GTAAAATGGTAATTTTTGGAAAGTTTAAGGGTAAAAATGTAATTTTTGGGAAGTTGAGGGCTAAA
ATATAATTTTTGGAAATTCAATT
Found at i:18770693 original size:11 final size:10
Alignment explanation
Indices: 18770657--18770714 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
18770647 TGAACTTTTT
18770657 AATTTAAATA
1 AATTTAAATA
18770667 AATTTAAACTTA
1 AATTTAAA--TA
18770679 AATTTATAATA
1 AATTTA-AATA
18770690 AATTTAAAT-
1 AATTTAAATA
*
18770699 --TTCAAATA
1 AATTTAAATA
18770707 AATTTAAA
1 AATTTAAA
18770715 CCTAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 6 0.15
10 16 0.40
11 8 0.20
12 8 0.20
13 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTAAATA
Found at i:18770696 original size:17 final size:16
Alignment explanation
Indices: 18770671--18770734 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 16
18770661 TAAATAAATT
*
18770671 TAAACTTAAATTTATAA
1 TAAATTTAAATTTA-AA
18770688 TAAATTTAAATTTCAAA
1 TAAATTTAAATTT-AAA
* *
18770705 TAAATTTAAACCTAAAA
1 TAAATTTAAA-TTTAAA
18770722 TAAATTTAAATTT
1 TAAATTTAAATTT
18770735 TGTTGGACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 37 0.93
18 2 0.05
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:18770697 original size:6 final size:6
Alignment explanation
Indices: 18770657--18770734 Score: 53
Period size: 6 Copynumber: 13.8 Consensus size: 6
18770647 TGAACTTTTT
*
18770657 AATTTA AA--TA AATTTA AACTTA AATTTA TAA--TA AATTTA AATTTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA AATTT-A
** *
18770703 AA--TA AATTTA AACCTA AA-ATA AATTTA AATTT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT
18770735 TGTTGGACCC
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
4 9 0.16
5 7 0.12
6 36 0.63
7 5 0.09
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:18773348 original size:3 final size:3
Alignment explanation
Indices: 18773340--18773365 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18773330 GGTTTGATCA
18773340 GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GG
18773366 AGAGAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:18776559 original size:2 final size:2
Alignment explanation
Indices: 18776552--18776581 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18776542 CGTCTCGAAA
18776552 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
18776582 TAATCTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18776815 original size:23 final size:23
Alignment explanation
Indices: 18776770--18776815 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18776760 ATTACACTAG
* *
18776770 TATAACACATATAAAGCGCTAAA
1 TATAACACACATAAAGCACTAAA
*
18776793 TATAACACACATAAAGCATTAAA
1 TATAACACACATAAAGCACTAAA
18776816 ACTCCCATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.22
Consensus pattern (23 bp):
TATAACACACATAAAGCACTAAA
Found at i:18777637 original size:17 final size:16
Alignment explanation
Indices: 18777617--18777691 Score: 100
Period size: 17 Copynumber: 4.7 Consensus size: 16
18777607 TAAGTTTAAA
*
18777617 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
18777634 TTAAATTTAAATTTAT
1 TTAAATTTAAATTTAT
18777650 CTTAAATTTAAATTTAT
1 -TTAAATTTAAATTTAT
*
18777667 TT--ATTTAAATTTAA
1 TTAAATTTAAATTTAT
18777681 TTAAATTTAAA
1 TTAAATTTAAA
18777692 AATAATATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 13 0.25
16 14 0.26
17 26 0.49
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:18777642 original size:28 final size:28
Alignment explanation
Indices: 18777605--18777658 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
18777595 GATTTTGATT
* *
18777605 TTTAAGTTTAAATTAATTTTAAATTTTA
1 TTTAAATTTAAATTAATCTTAAATTTTA
*
18777633 TTTAAATTTAAATTTATCTTAAATTT
1 TTTAAATTTAAATTAATCTTAAATTT
18777659 AAATTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTAAATTTAAATTAATCTTAAATTTTA
Found at i:18777648 original size:6 final size:6
Alignment explanation
Indices: 18777605--18777691 Score: 69
Period size: 6 Copynumber: 15.0 Consensus size: 6
18777595 GATTTTGATT
* * *
18777605 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
18777649 TCTTAAA TTTAAA TTTATTTA TTTAAA TTT-AA -TTAAA TTTAAA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA
18777692 AATAATATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
4 4 0.06
5 14 0.22
6 40 0.62
7 2 0.03
8 5 0.08
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:18777678 original size:10 final size:10
Alignment explanation
Indices: 18777638--18777689 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
18777628 TTTTATTTAA
18777638 ATTTAAATTT
1 ATTTAAATTT
18777648 ATCTTAAATTT
1 AT-TTAAATTT
18777659 AAATTT--ATTT
1 --ATTTAAATTT
18777669 ATTTAAATTT
1 ATTTAAATTT
*
18777679 AATTAAATTT
1 ATTTAAATTT
18777689 A
1 A
18777690 AAAATAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
8 4 0.11
10 20 0.56
11 8 0.22
12 2 0.06
13 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:18777688 original size:20 final size:22
Alignment explanation
Indices: 18777632--18777689 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
18777622 TTTAAATTTT
18777632 ATTTAAATTTAAATTTATCTTAA
1 ATTTAAA-TTAAATTTATCTTAA
*
18777655 ATTTAAATT-TATTTAT-TTAA
1 ATTTAAATTAAATTTATCTTAA
18777675 ATTT-AATTAAATTTA
1 ATTTAAATTAAATTTA
18777690 AAAATAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 4 0.12
20 13 0.41
21 6 0.19
22 2 0.06
23 7 0.22
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTAAATTAAATTTATCTTAA
Found at i:18777702 original size:37 final size:37
Alignment explanation
Indices: 18777629--18777702 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
18777619 AATTTTAAAT
* **
18777629 TTTATTTAAATTTAAATTTATCTTAAATTTAAATTTA
1 TTTATTTAAATTTAAATTAATCTTAAAAATAAATTTA
18777666 TTTATTTAAATTT-AATTAAAT-TTAAAAATAATATTTA
1 TTTATTTAAATTTAAATT-AATCTTAAAAATAA-ATTTA
18777703 AAATTAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 12 0.38
37 20 0.62
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (37 bp):
TTTATTTAAATTTAAATTAATCTTAAAAATAAATTTA
Found at i:18779500 original size:162 final size:161
Alignment explanation
Indices: 18779228--18779539 Score: 536
Period size: 162 Copynumber: 1.9 Consensus size: 161
18779218 AGTTTTCAAT
*
18779228 TTAATCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATTTTTGGCTTATTTATGCAT
1 TTAATCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATTTTTGGCTTATTTATGCAT
* * *
18779293 TTAGTCCCTAACATTTTTGATTTGTTTTAATTTAATCTCTAAATCAACTTATATTTAATTACAAA
66 CTAGTCCCTAACATTTCTAATTTGTTTTAATTTAATCTCTAAATCAACTTATATTTAATTACAAA
18779358 ATTGGCCCAAGAATTTTTCACGGTTTATAAA
131 ATTGGCCCAAGAATTTTTCACGGTTTATAAA
18779389 TTAATCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATTTTTTGGCTTATTTATGCA
1 TTAATCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCA-TTTTTGGCTTATTTATGCA
* * *
18779454 TCTAGTCCCTGACATTTCTAATTTGTTTTAATTTAATC-CTTAAATCAACTTTTATTTAATTATA
65 TCTAGTCCCTAACATTTCTAATTTGTTTTAATTTAATCTC-TAAATCAACTTATATTTAATTACA
18779518 AAATTGGCCCAAGAATTTTTCA
129 AAATTGGCCCAAGAATTTTTCA
18779540 AAATTTACAA
Statistics
Matches: 142, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
161 45 0.32
162 97 0.68
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (161 bp):
TTAATCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATTTTTGGCTTATTTATGCAT
CTAGTCCCTAACATTTCTAATTTGTTTTAATTTAATCTCTAAATCAACTTATATTTAATTACAAA
ATTGGCCCAAGAATTTTTCACGGTTTATAAA
Found at i:18779850 original size:117 final size:116
Alignment explanation
Indices: 18779667--18779973 Score: 440
Period size: 117 Copynumber: 2.6 Consensus size: 116
18779657 AAAATTTTAG
*
18779667 AAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCCGAA-CTTCAAAAATTCCATTTTTAACCCTGATTTCACC-AAAATT
* *
18779732 ACCATTTTACCCCCGAACTTTCTAAAAAACTATTTTTAA-CCTCGATTTCACCA
64 ACCATTTTACCCCCAAACTTTCTAAAAAACCATTTTTAACCCT-GATTTCACCA
* *
18779785 AAAATTACCATTTTACCCCCGAACTTCCAAAATTCCATTTTTAA-CCTCGATTTCACCGAAGATT
1 AAAATTACCATTTTACCCCCGAACTTCAAAAATTCCATTTTTAACCCT-GATTTCACC-AAAATT
* *
18779849 ACCATTTTACCCCCAAACTTTCTAAAATACCATTTTTAACCCTGATTTCATCA
64 ACCATTTTACCCCCAAACTTTCTAAAAAACCATTTTTAACCCTGATTTCACCA
* * *
18779902 AAAATTACCA-TTTACCCCCAAACTCTCAAAAATTCTATTTTTTAACCCTGACTTCACCAAAATT
1 AAAATTACCATTTTACCCCCGAACT-TCAAAAATTCCA-TTTTTAACCCTGATTTCACCAAAATT
18779966 ACCATTTT
64 ACCATTTT
18779974 GCCCTCGGGT
Statistics
Matches: 172, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
116 16 0.09
117 112 0.65
118 41 0.24
119 3 0.02
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (116 bp):
AAAATTACCATTTTACCCCCGAACTTCAAAAATTCCATTTTTAACCCTGATTTCACCAAAATTAC
CATTTTACCCCCAAACTTTCTAAAAAACCATTTTTAACCCTGATTTCACCA
Found at i:18779853 original size:58 final size:58
Alignment explanation
Indices: 18779667--18779973 Score: 406
Period size: 59 Copynumber: 5.2 Consensus size: 58
18779657 AAAATTTTAG
18779667 AAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCTGATTTCACCA
1 AAAATTACCATTTTACCCCCGAA-CTTCTAAAATTCCATTTTTAACCCTGATTTCACCA
** *
18779726 AAAATTACCATTTTACCCCCGAACTTTCTAAAAAACTATTTTTAA-CCTCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAAC-TTCTAAAATTCCATTTTTAACCCT-GATTTCACCA
* *
18779785 AAAATTACCATTTTACCCCCGAACTTCCAAAATTCCATTTTTAA-CCTCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAACTTCTAAAATTCCATTTTTAACCCT-GATTTCACCA
* * * *
18779843 AAGATTACCATTTTACCCCCAAACTTTCTAAAATACCATTTTTAACCCTGATTTCATCA
1 AAAATTACCATTTTACCCCCGAAC-TTCTAAAATTCCATTTTTAACCCTGATTTCACCA
* * * *
18779902 AAAATTACCA-TTTACCCCCAAACTCTCAAAAATTCTATTTTTTAACCCTGACTTCACC-
1 AAAATTACCATTTTACCCCCGAACT-TCTAAAATTCCA-TTTTTAACCCTGATTTCACCA
18779960 AAAATTACCATTTT
1 AAAATTACCATTTT
18779974 GCCCTCGGGT
Statistics
Matches: 221, Mismatches: 20, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
57 1 0.00
58 87 0.39
59 130 0.59
60 3 0.01
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAACTTCTAAAATTCCATTTTTAACCCTGATTTCACCA
Found at i:18779930 original size:28 final size:29
Alignment explanation
Indices: 18779783--18779935 Score: 89
Period size: 28 Copynumber: 5.3 Consensus size: 29
18779773 TCGATTTCAC
*
18779783 CAAAAATTACCATTTTACCCCCGAACT-T
1 CAAAAATTACCATTTTACCCCCAAACTCT
* * * * ** *
18779811 CCAAAATT-CCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCA-TTTTACCCCCAAACTC-T
* * *
18779841 CGAAGATTACCATTTTACCCCCAAACTTT
1 CAAAAATTACCATTTTACCCCCAAACTCT
* * ** **
18779870 CTAAAA-TACCATTTTTAACCCTGATTTCAT
1 CAAAAATTACCA-TTTTACCCCCAAACTC-T
18779900 CAAAAATTACCA-TTTACCCCCAAACTCT
1 CAAAAATTACCATTTTACCCCCAAACTCT
18779928 CAAAAATT
1 CAAAAATT
18779936 CTATTTTTTA
Statistics
Matches: 89, Mismatches: 29, Indels: 14
0.67 0.22 0.11
Matches are distributed among these distances:
27 3 0.03
28 32 0.36
29 24 0.27
30 22 0.25
31 8 0.09
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCCCAAACTCT
Found at i:18792132 original size:69 final size:69
Alignment explanation
Indices: 18792019--18792872 Score: 1135
Period size: 69 Copynumber: 11.9 Consensus size: 69
18792009 ATCATTTCCT
* * * *
18792019 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACATCTTCATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
18792084 CGTC
66 CGTC
*
18792088 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
18792153 CGTC
66 CGTC
18792157 AT-CTGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 ATCCT-CTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
*
18792221 ACATC
65 ACGTC
* *
18792226 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCGGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
18792291 CGTC
66 CGTC
* *
18792295 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAGGTAAGAGTAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
18792360 CGTC
66 CGTC
*
18792364 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
18792428 TGTC
66 CGTC
18792432 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC--
*
18792496 AATCATTTCC
64 AA-C--GT-C
*
18792506 TATCCTCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 -ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
18792570 ACGTC
65 ACGTC
*
18792575 ATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTA
1 A--TCC--T---CTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTA
*
18792640 AGAGCAAGATCATTTCC
59 AGAGC-A-A-C--GT-C
* *
18792657 TATCCTCTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCA
1 -ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-
*
18792721 AGATCATTTCC
64 A-A-C--GT-C
* * *
18792732 TATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCGTCATCTCTGAAATTGAAGTAAGAGCA
1 -ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
18792797 ACGTC
65 ACGTC
*
18792802 ATTTCCTACCCACTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA-TA
1 A--TCCT-----CTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTA
18792866 AGAGCAA
59 AGAGCAA
18792873 GATGAAGCCT
Statistics
Matches: 720, Mismatches: 33, Indels: 58
0.89 0.04 0.07
Matches are distributed among these distances:
68 104 0.14
69 285 0.40
70 8 0.01
71 5 0.01
72 2 0.00
73 4 0.01
74 2 0.00
75 161 0.22
76 139 0.19
77 1 0.00
78 1 0.00
79 2 0.00
81 4 0.01
82 1 0.00
83 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (69 bp):
ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CGTC
Found at i:18792555 original size:75 final size:76
Alignment explanation
Indices: 18792432--18792872 Score: 728
Period size: 75 Copynumber: 5.9 Consensus size: 76
18792422 GAGCAATGTC
*
18792432 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
18792496 AATCATTTCCT
66 CATCATTTCCT
18792507 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
18792571 CGTCATTTCCT
66 CATCATTTCCT
*
18792582 ATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
18792647 GATCATTTCCT
66 CATCATTTCCT
* * *
18792658 ATCCTCTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
18792722 GATCATTTCCT
66 CATCATTTCCT
* *
18792733 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCGTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
18792798 CGTCATTTCCT
66 CATCATTTCCT
* *
18792809 ACCCACTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA-TAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
18792873 GATGAAGCCT
Statistics
Matches: 343, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
75 175 0.51
76 168 0.49
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (76 bp):
ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CATCATTTCCT
Found at i:18793181 original size:6 final size:6
Alignment explanation
Indices: 18793138--18793207 Score: 58
Period size: 6 Copynumber: 12.0 Consensus size: 6
18793128 GATTTTGATT
* * * *
18793138 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTTATTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
18793186 TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
18793208 AATAATATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
4 2 0.04
5 12 0.24
6 32 0.63
8 5 0.10
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:18793184 original size:10 final size:10
Alignment explanation
Indices: 18793144--18793205 Score: 56
Period size: 10 Copynumber: 6.0 Consensus size: 10
18793134 GATTTTTAAG
*
18793144 TTTAAATTAA
1 TTTAAATTTA
18793154 TTTTAAATTTTA
1 -TTTAAA-TTTA
18793166 TTTAAATTTAAA
1 TTTAAATTT--A
18793178 TTT--ATTTA
1 TTTAAATTTA
18793186 TTTAAATTTA
1 TTTAAATTTA
*
18793196 ATTAAATTTA
1 TTTAAATTTA
18793206 AAAATAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
8 4 0.09
10 21 0.48
11 12 0.27
12 7 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:18793204 original size:20 final size:21
Alignment explanation
Indices: 18793156--18793205 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
18793146 TAAATTAATT
18793156 TTAAATTTTATTTAAATTTAAA
1 TTAAA-TTTATTTAAATTTAAA
*
18793178 TT-TATTTATTTAAATTT-AA
1 TTAAATTTATTTAAATTTAAA
18793197 TTAAATTTA
1 TTAAATTTA
18793206 AAAATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 18 0.72
21 1 0.04
22 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAATTTATTTAAATTTAAA
Found at i:18793223 original size:30 final size:30
Alignment explanation
Indices: 18793151--18793231 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 30
18793141 AAGTTTAAAT
* * **
18793151 TAAT-TTTAAATTTTATTTAAATTTAAATT
1 TAATATTTAAAATTTAATTAAATTTAAAAA
*
18793180 TATTTATTT-AAATTTAATTAAATTTAAAAA
1 TA-ATATTTAAAATTTAATTAAATTTAAAAA
*
18793210 TAATATTTAAAA-TTAATAAAAT
1 TAATATTTAAAATTTAATTAAAT
18793232 AAAAGTTCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 16 0.38
30 23 0.55
31 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TAATATTTAAAATTTAATTAAATTTAAAAA
Found at i:18794280 original size:27 final size:27
Alignment explanation
Indices: 18794250--18794306 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
18794240 ATAAAAAGAA
*
18794250 AAAT-AAAAAACAAAAGAAAGAAAAGGG
1 AAATGAAAAAACAAAACAAA-AAAAGGG
* *
18794277 AAATGAAAGAACGAAACAAAAAAAGGG
1 AAATGAAAAAACAAAACAAAAAAAGGG
18794304 AAA
1 AAA
18794307 GGAGGGGACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.04
Consensus pattern (27 bp):
AAATGAAAAAACAAAACAAAAAAAGGG
Found at i:18795014 original size:163 final size:162
Alignment explanation
Indices: 18794740--18795079 Score: 520
Period size: 163 Copynumber: 2.1 Consensus size: 162
18794730 AGTTTTCAAT
18794740 TTAATCCTTTGACTGTTTGACTGCACCAAAGGCTGCCACATGTCATTTTTTGGCTTATTTATGCA
1 TTAATCCTTTGACTGTTTGACTGCACCAAAGGCTGCCACATGTCATTTTTTGGCTTATTTATGCA
* * * *
18794805 TTTAGTCCCTAACATTTTTGATTTGTTTTAATTTAATCCCTAAATCAACTTATATTTAATTATAA
66 TCTAGTCCCTAACATTTCTAATTTGTTTTAATTTAATCCCTAAATCAACTTATATTTAATTACAA
* *
18794870 AATTGGCCCAAGAATTTTTCACAG-TTTATAAA
131 AATTGGCCCAAGAATTTTT-AAAGATTTACAAA
* * * *
18794902 TTAATCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTTGGCTTATTTCTGC
1 TTAATCCTTTGACTGTTTGACTGCACCAAAGGCTGCCACATGTCA-TTTTTTGGCTTATTTATGC
* * *
18794967 ATCTAGTCCCTGACATTTCTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACA
65 ATCTAGTCCCTAACATTTCTAATTTGTTTTAATTTAATCCCTAAATCAACTTATATTTAATTACA
*
18795032 AAATTGGCCCAAGAATTTTTAAAGATTTACAAT
130 AAATTGGCCCAAGAATTTTTAAAGATTTACAAA
*
18795065 TTAATCCCTTGACTG
1 TTAATCCTTTGACTG
18795080 CTGGATGCCT
Statistics
Matches: 161, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
162 45 0.28
163 116 0.72
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.43
Consensus pattern (162 bp):
TTAATCCTTTGACTGTTTGACTGCACCAAAGGCTGCCACATGTCATTTTTTGGCTTATTTATGCA
TCTAGTCCCTAACATTTCTAATTTGTTTTAATTTAATCCCTAAATCAACTTATATTTAATTACAA
AATTGGCCCAAGAATTTTTAAAGATTTACAAA
Found at i:18795213 original size:29 final size:29
Alignment explanation
Indices: 18795181--18795497 Score: 161
Period size: 30 Copynumber: 10.8 Consensus size: 29
18795171 AAAATTTTAG
*
18795181 AAAATTACTATTTTACCCCCGAACCTTCT
1 AAAATTACCATTTTACCCCCGAACCTTCT
* *
18795210 AAAATT-CCATTTTTAACCCC-AA-TTTCAT
1 AAAATTACCA-TTTTACCCCCGAACCTTC-T
18795238 CGAAAATTACCATTTTACCCCCGAACCTTCT
1 --AAAATTACCATTTTACCCCCGAACCTTCT
* *** ** *
18795269 AAAATT-CCATTTTTAACCCCGGTTTCACCC
1 AAAATTACCA-TTTT-ACCCCCGAACCTTCT
*
18795299 AAAATTACCATTTTACCCTCGAA-CTTCT
1 AAAATTACCATTTTACCCCCGAACCTTCT
* ** ** *
18795327 AAAATT-CCATTTTTAACCCCGATTTCACCA
1 AAAATTACCA-TTTTACCCCCGA-ACCTTCT
* * *
18795357 AAAATTACCGTTTTACCCTCGAA-CTTCC
1 AAAATTACCATTTTACCCCCGAACCTTCT
* *
18795385 AAAATT-CCATTTTTAACCCCG-A-TTTCAT
1 AAAATTACCA-TTTTACCCCCGAACCTTC-T
*
18795413 CAAAGATTACCATTTTACCCCCGAACTTTCT
1 -AAA-ATTACCATTTTACCCCCGAACCTTCT
* * ** * *
18795444 AAAA-TACCATTTTTAACCCCTATTTCATCA
1 AAAATTACCA-TTTTACCCCCGA-ACCTTCT
*
18795474 AAAATTACCATTTTACCCCTGAAC
1 AAAATTACCATTTTACCCCCGAAC
18795498 TCTCAAAAAT
Statistics
Matches: 214, Mismatches: 50, Indels: 48
0.69 0.16 0.15
Matches are distributed among these distances:
27 12 0.06
28 48 0.22
29 44 0.21
30 82 0.38
31 21 0.10
32 7 0.03
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAACCTTCT
Found at i:18795243 original size:59 final size:58
Alignment explanation
Indices: 18795181--18795553 Score: 514
Period size: 59 Copynumber: 6.4 Consensus size: 58
18795171 AAAATTTTAG
* * *
18795181 AAAATTACTATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCAATTTCATCG
1 AAAATTACCATTTTACCCCCGAA-CTTCTAAAATTCCATTTTTAACCCCGATTTCATCA
* * *
18795240 AAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGGTTTCACCC
1 AAAATTACCATTTTACCCCCGAA-CTTCTAAAATTCCATTTTTAACCCCGATTTCATCA
* *
18795299 AAAATTACCATTTTACCCTCGAACTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTCTAAAATTCCATTTTTAACCCCGATTTCATCA
* * *
18795357 AAAATTACCGTTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
1 AAAATTACCATTTTACCCCCGAACTTCTAAAATTCCATTTTTAACCCCGATTTCATCA
* * *
18795415 AAGATTACCATTTTACCCCCGAACTTTCTAAAATACCATTTTTAACCCCTATTTCATCA
1 AAAATTACCATTTTACCCCCGAAC-TTCTAAAATTCCATTTTTAACCCCGATTTCATCA
* * * * *
18795474 AAAATTACCATTTTACCCCTGAACTCTCAAAAATTCTATTTTTTAACCCCGACTTCA-CC
1 AAAATTACCATTTTACCCCCGAACT-TCTAAAATTCCA-TTTTTAACCCCGATTTCATCA
*
18795533 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
18795554 GGTGTCCAAA
Statistics
Matches: 284, Mismatches: 27, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
58 110 0.39
59 158 0.56
60 16 0.06
ACGTcount: A:0.31, C:0.30, G:0.04, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAACTTCTAAAATTCCATTTTTAACCCCGATTTCATCA
Found at i:18795361 original size:117 final size:115
Alignment explanation
Indices: 18795181--18795553 Score: 530
Period size: 117 Copynumber: 3.2 Consensus size: 115
18795171 AAAATTTTAG
* *
18795181 AAAATTACTATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCAATTTCATCGAAAATT
1 AAAATTACCATTTTACCCCCGAA-CTTCTAAAATTCCATTTTTAACCCCAATTTCATCAAAAATT
* *
18795246 ACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGGTTTCACCC
65 ACCATTTTACCCCCGAA-CTTCAAAAATTCCATTTTTAACCCCGATTTCA-CC
* * *
18795299 AAAATTACCATTTTACCCTCGAACTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTA
1 AAAATTACCATTTTACCCCCGAACTTCTAAAATTCCATTTTTAACCCCAATTTCATCAAAAATTA
* * * *
18795364 CCGTTTTACCCTCGAACTTCCAAAATTCCATTTTTAACCCCGATTTCATC
66 CCATTTTACCCCCGAACTTCAAAAATTCCATTTTTAACCCCGATTTCACC
* *
18795414 AAAGATTACCATTTTACCCCCGAACTTTCTAAAATACCATTTTTAACCCCTATTTCATCAAAAAT
1 AAA-ATTACCATTTTACCCCCGAAC-TTCTAAAATTCCATTTTTAACCCCAATTTCATCAAAAAT
* * *
18795479 TACCATTTTACCCCTGAACTCTCAAAAATTCTATTTTTTAACCCCGACTTCACC
64 TACCATTTTACCCCCGAACT-TCAAAAATTCCA-TTTTTAACCCCGATTTCACC
*
18795533 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
18795554 GGTGTCCAAA
Statistics
Matches: 229, Mismatches: 22, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
115 4 0.02
116 50 0.22
117 106 0.46
118 48 0.21
119 21 0.09
ACGTcount: A:0.31, C:0.30, G:0.04, T:0.34
Consensus pattern (115 bp):
AAAATTACCATTTTACCCCCGAACTTCTAAAATTCCATTTTTAACCCCAATTTCATCAAAAATTA
CCATTTTACCCCCGAACTTCAAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:18799029 original size:24 final size:24
Alignment explanation
Indices: 18798976--18799031 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
18798966 AAAAACAGAA
*
18798976 ATAC-AAAAAATCAAACAAAATTT
1 ATACTAAAAAATCAAACAAAACTT
* *
18798999 GTA-TAAAAAATCCAACAAAACTT
1 ATACTAAAAAATCAAACAAAACTT
18799022 ATACTAAAAA
1 ATACTAAAAA
18799032 TGTTGAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.21
Consensus pattern (24 bp):
ATACTAAAAAATCAAACAAAACTT
Found at i:18803694 original size:18 final size:17
Alignment explanation
Indices: 18803672--18803787 Score: 90
Period size: 17 Copynumber: 6.4 Consensus size: 17
18803662 TAAAATGATT
18803672 TTTAAATTTATTTCTAAA
1 TTTAAATTTATTT-TAAA
*
18803690 ATTAAATTTACTTTAAACTTAAA
1 TTTAAATTTA-TTT-----TAAA
*
18803713 TTTAAATTCATTTTTAAA
1 TTTAAATTTA-TTTTAAA
18803731 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
18803748 TTTTAATTTAGTTTAAA
1 TTTAAATTTATTTTAAA
*
18803765 TTTGAAA-TAATTTTAAA
1 TTT-AAATTTATTTTAAA
*
18803782 ATTAAA
1 TTTAAA
18803788 ACTAAAAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
16 3 0.04
17 35 0.44
18 24 0.30
19 3 0.04
23 15 0.19
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:18803705 original size:41 final size:41
Alignment explanation
Indices: 18803660--18803747 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
18803650 TTAATTTAAG
** *
18803660 TTTAAAATGATTTTTAAATTTATTTCTAAAATTAAATTTAC
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
* * * * *
18803701 TTTAAACTTAAATTTAAATTCATTTTTAAATTTAAATTTAT
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
18803742 TTTAAA
1 TTTAAA
18803748 TTTTAATTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (41 bp):
TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
Found at i:18803756 original size:41 final size:41
Alignment explanation
Indices: 18803672--18803757 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
18803662 TAAAATGATT
*
18803672 TTTAAATTTATTTCTAAAATTAAATTTACTTTAAACTTAAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAACTTAAA
* * * * *
18803713 TTTAAATTCATTTTTAAATTTAAATTTATTTTAAATTTTAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAACTTAAA
18803754 TTTA
1 TTTA
18803758 GTTTAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (41 bp):
TTTAAATTCATTTCTAAAATTAAATTTACTTTAAACTTAAA
Found at i:18805078 original size:16 final size:16
Alignment explanation
Indices: 18805036--18805079 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
18805026 TTGGTCAAAG
* *
18805036 GAAAGAAGGGGGAAAA
1 GAAAGAAGAGAGAAAA
18805052 GAGAGAGAAGAGAGAAAA
1 GA-A-AGAAGAGAGAAAA
18805070 GAAAGAAGAG
1 GAAAGAAGAG
18805080 GGGGGTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (16 bp):
GAAAGAAGAGAGAAAA
Found at i:18805504 original size:163 final size:161
Alignment explanation
Indices: 18805321--18805650 Score: 534
Period size: 163 Copynumber: 2.0 Consensus size: 161
18805311 TTCAATTTAG
* *
18805321 TCCTTTGACTGTTTGACTGCACCAGAGGCTGCCATGTGTCACTTTTTGGCTTATTTATGTATCTA
1 TCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTA
* * * *
18805386 GTCCCTGTCTTTTTTTTATTTGTTTTAATTTAATCCTTAAATCAACTTTTACTTAATTACAAAAT
66 GTCCCTGTC-ATTTTTAATTTGTTTTAATTTAATCCTTAAATAAACTTTCACTTAATTACAAAAT
18805451 TGGCCCAAGAATTTTTCAAGATCTATAAATTAA
130 TGGCCCAAGAA-TTTTCAAGATCTATAAATTAA
18805484 TCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTA
1 TCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTA
*
18805549 GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATAAACTTTCATTTAATTACAAAATT
66 GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATAAACTTTCACTTAATTACAAAATT
* * * * *
18805614 GGCTCGAGAATTTTCAGGATTTATAAATTAG
131 GGCCCAAGAATTTTCAAGATCTATAAATTAA
18805645 TCCTTT
1 TCCTTT
18805651 GACTTCTAGG
Statistics
Matches: 155, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
161 24 0.15
162 59 0.38
163 72 0.46
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (161 bp):
TCCTTTAACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTA
GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATAAACTTTCACTTAATTACAAAATT
GGCCCAAGAATTTTCAAGATCTATAAATTAA
Found at i:18805769 original size:29 final size:29
Alignment explanation
Indices: 18805727--18805950 Score: 107
Period size: 29 Copynumber: 7.7 Consensus size: 29
18805717 AGACAGTACA
*
18805727 AAAATTACCA-TTTTACCCCCGAACTTTCC
1 AAAA-TACCATTTTTAACCCCGAACTTTCC
* * *
18805756 AAAATCCCATTTTTAACCTCG-A-TTTCATAA
1 AAAATACCATTTTTAACCCCGAACTTTC---C
*
18805786 AAAATTACCA-TTTTACCCCCGAACTTTCC
1 AAAA-TACCATTTTTAACCCCGAACTTTCC
* ** *
18805815 AAAATTCCA-TTTTAACCTTG--GTTTCAC
1 AAAATACCATTTTTAACCCCGAACTTTC-C
*
18805842 AAAAAATACCA-TTTT-ACCCCTAAACTTTCC
1 --AAAATACCATTTTTAACCCC-GAACTTTCC
* *
18805872 AAAATTCCATTTTTAACCTCG-A-TTTCATC
1 AAAATACCATTTTTAACCCCGAACTTTC--C
18805901 AAAAATTACCA-TTTT-ACCCCGAACTTTCC
1 -AAAA-TACCATTTTTAACCCCGAACTTTCC
*
18805930 AAAAT-CCTATCTTTAACCCCG
1 AAAATACC-ATTTTTAACCCCG
18805951 GTTTCACCAA
Statistics
Matches: 147, Mismatches: 24, Indels: 48
0.67 0.11 0.22
Matches are distributed among these distances:
26 6 0.04
27 11 0.07
28 36 0.24
29 46 0.31
30 27 0.18
31 17 0.12
32 4 0.03
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATACCATTTTTAACCCCGAACTTTCC
Found at i:18805794 original size:59 final size:59
Alignment explanation
Indices: 18805726--18806022 Score: 370
Period size: 58 Copynumber: 5.0 Consensus size: 59
18805716 TAGACAGTAC
* *
18805726 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCATA
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACA
* *
18805785 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAACCTTGGTTTCACA
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACA
**
18805843 AAAAA-TACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATC-
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA-CA
* * * *
18805901 AAAAATTACCATTTTA-CCCCGAACTTTCCAAAA-TCCTATCTTTAACCCCGGTTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCC-ATTTTTAACCTCGATTTCACA
* * *
18805959 AAAAATCACCATTTTACCTCTCCCCCCGAACTTTCCAAAATTCCATTTTTAGCCCCGATTTCAC
1 AAAAATTACCATTTTA------CCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
18806023 CAAAGTTTCC
Statistics
Matches: 208, Mismatches: 17, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
57 35 0.17
58 87 0.42
59 49 0.24
65 34 0.16
66 3 0.01
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACA
Found at i:18805945 original size:116 final size:116
Alignment explanation
Indices: 18805724--18806026 Score: 412
Period size: 116 Copynumber: 2.6 Consensus size: 116
18805714 CCTAGACAGT
* * *
18805724 ACAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCATAAAAA
1 ACAAAAAATACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATCAAAA
**
18805789 ATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCTTGGTTTC
66 ATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCCGGTTTC
**
18805840 ACAAAAAATACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATCAAAA
1 ACAAAAAATACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATCAAAA
18805905 ATTACCATTTTA-CCCCGAACTTTCCAAAA-TCCTATCTTTAACCCCGGTTTC
66 ATTACCATTTTACCCCCGAACTTTCCAAAATTCC-AT-TTTAACCCCGGTTTC
* * *
18805956 ACCAAAAATCACCATTTTACCTCTCCCCCCGAACTTTCCAAAATTCCATTTTTAGCCCCGATTTC
1 ACAAAAAAT-ACCATTTTA------CCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTC
*
18806021 ACCAAA
59 ATCAAA
18806027 GTTTCCAAAA
Statistics
Matches: 165, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
114 3 0.02
115 19 0.12
116 93 0.56
117 9 0.05
123 41 0.25
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.33
Consensus pattern (116 bp):
ACAAAAAATACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATCAAAA
ATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCCGGTTTC
Found at i:18806063 original size:38 final size:38
Alignment explanation
Indices: 18805990--18806064 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
18805980 CCCCCCGAAC
* * *
18805990 TTTCCAAAATTCCATTTTTAGCCCCGATTTCACCAAAG
1 TTTCCAAAATTCCATTTTTAACCCCAATTTAACCAAAG
*
18806028 TTTCCAAAATTCCATTTTTAACCTCAATTTAACCAAA
1 TTTCCAAAATTCCATTTTTAACCCCAATTTAACCAAA
18806065 AATTACCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (38 bp):
TTTCCAAAATTCCATTTTTAACCCCAATTTAACCAAAG
Found at i:18818420 original size:51 final size:50
Alignment explanation
Indices: 18818229--18818460 Score: 256
Period size: 51 Copynumber: 4.7 Consensus size: 50
18818219 ATCAGATCAA
18818229 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAG
1 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGT-GGAAGAAAG
*
18818280 ACCAACATTATTTTCCTATCCTCTTGAAATTGAAGTAA-AGCTGGATA-ACAAG
1 ACCAACATTATTTTCCTACCCTC-TGAAATTGAAGTAAGAG-TGGA-AGA-AAG
* * *
18818332 --C--C------TTCGT-CCCTCTGAAATTGAAGTAAGAGTGAAAAGAAGG
1 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTG-GAAGAAAG
18818372 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAG
1 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGT-GGAAGAAAG
*
18818423 ACCAACATTATTTTCCTATCCTCTTGAAATTGAAGTAA
1 ACCAACATTATTTTCCTACCCTC-TGAAATTGAAGTAA
18818461 AGCTGGATAT
Statistics
Matches: 152, Mismatches: 9, Indels: 39
0.76 0.05 0.19
Matches are distributed among these distances:
40 19 0.12
41 8 0.05
42 5 0.03
44 1 0.01
48 1 0.01
50 5 0.03
51 79 0.52
52 34 0.22
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (50 bp):
ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTGGAAGAAAG
Found at i:18818560 original size:76 final size:76
Alignment explanation
Indices: 18818434--18818954 Score: 801
Period size: 76 Copynumber: 7.0 Consensus size: 76
18818424 CCAACATTAT
* * * *
18818434 TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
18818499 GAGCAAGATCA
66 GAGCAAGATCA
18818510 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
18818575 GAGCAAGATCA
66 GAGCAAGATCA
18818586 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
18818651 GAGCAAGATCA
66 GAGCAAGATCA
** * * * *
18818662 TTTCCTATATTTTTGAAATTGAAGTTGAGTTAGATAATAAGTCTTTATCTCTGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
18818727 GAGCAAG---A
66 GAGCAAGATCA
18818735 --T-C-AT--TCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
*
18818794 GAGCAACATCA
66 GAGCAAGATCA
* * *
18818805 TTCCCTATACTCTTGAAATTGAAGTAGAGTTGGATAACAGGTCTTTATCTCTGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
18818870 GAGCAAGATCA
66 GAGCAAGATCA
* * * *
18818881 TTTCTTTAT-CTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTA
1 TTTC-CTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTA
18818945 AGAGCAAGAT
65 AGAGCAAGAT
18818955 GAAGCCTCGA
Statistics
Matches: 411, Mismatches: 24, Indels: 20
0.90 0.05 0.04
Matches are distributed among these distances:
67 57 0.14
69 2 0.00
70 2 0.00
71 1 0.00
73 2 0.00
74 2 0.00
76 342 0.83
77 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (76 bp):
TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
GAGCAAGATCA
Found at i:18818822 original size:219 final size:222
Alignment explanation
Indices: 18818443--18818954 Score: 818
Period size: 219 Copynumber: 2.3 Consensus size: 222
18818433 TTTTCCTATC
*
18818443 CTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCAAGAT
1 CTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG--
18818508 CATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGT
64 -A--TCCTAT-CTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGT
* * *
18818573 AAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCT
125 AAGAGCAACATCATTCCCTATACTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCT
18818638 GAAATTGAAGTAAGAGCAAGATCATTTCCTATAT
190 GAAATTGAAGTAAGAGCAAGATCATTT-CTATAT
* ** * *
18818672 -TTTTGAAATTGAAGTTGAGTTAGATAAT-AAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGA
1 CTCTTGAAATTGAAGTAAAGCTGGAT-ATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGA
18818735 T-C-AT-TCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAG
65 TCCTATCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAG
*
18818797 CAACATCATTCCCTATACTCTTGAAATTGAAGTAGAGTTGGATAACAGGTCTTTATCTCTGAAAT
130 CAACATCATTCCCTATACTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
*
18818862 TGAAGTAAGAGCAAGATCATTTCTTTAT
195 TGAAGTAAGAGCAAGATCATTTCTATAT
18818890 CTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGAT
1 CTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGAT
18818955 GAAGCCTCGA
Statistics
Matches: 264, Mismatches: 16, Indels: 16
0.89 0.05 0.05
Matches are distributed among these distances:
218 7 0.03
219 197 0.75
221 2 0.01
222 1 0.00
223 1 0.00
225 1 0.00
228 53 0.20
229 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (222 bp):
CTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGAT
CCTATCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGC
AACATCATTCCCTATACTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATT
GAAGTAAGAGCAAGATCATTTCTATAT
Found at i:18819267 original size:18 final size:17
Alignment explanation
Indices: 18819245--18819360 Score: 90
Period size: 17 Copynumber: 6.4 Consensus size: 17
18819235 TAAAATGATT
18819245 TTTAAATTTATTTCTAAA
1 TTTAAATTTATTT-TAAA
*
18819263 ATTAAATTTACTTTAAACTTAAA
1 TTTAAATTTA-TTT-----TAAA
*
18819286 TTTAAATTCATTTTTAAA
1 TTTAAATTTA-TTTTAAA
18819304 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
18819321 TTTTAATTTAGTTTAAA
1 TTTAAATTTATTTTAAA
*
18819338 TTTGAAA-TAATTTTAAA
1 TTT-AAATTTATTTTAAA
*
18819355 ATTAAA
1 TTTAAA
18819361 ACTAAAAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
16 3 0.04
17 35 0.44
18 24 0.30
19 3 0.04
23 15 0.19
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:18819278 original size:41 final size:41
Alignment explanation
Indices: 18819233--18819320 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
18819223 TTAATTTAAG
** *
18819233 TTTAAAATGATTTTTAAATTTATTTCTAAAATTAAATTTAC
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
* * * * *
18819274 TTTAAACTTAAATTTAAATTCATTTTTAAATTTAAATTTAT
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
18819315 TTTAAA
1 TTTAAA
18819321 TTTTAATTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (41 bp):
TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
Found at i:18819329 original size:41 final size:41
Alignment explanation
Indices: 18819245--18819330 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
18819235 TAAAATGATT
*
18819245 TTTAAATTTATTTCTAAAATTAAATTTACTTTAAACTTAAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAACTTAAA
* * * * *
18819286 TTTAAATTCATTTTTAAATTTAAATTTATTTTAAATTTTAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAACTTAAA
18819327 TTTA
1 TTTA
18819331 GTTTAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (41 bp):
TTTAAATTCATTTCTAAAATTAAATTTACTTTAAACTTAAA
Found at i:18821063 original size:161 final size:162
Alignment explanation
Indices: 18820877--18821216 Score: 583
Period size: 162 Copynumber: 2.1 Consensus size: 162
18820867 GTTGGTTTTC
* * *
18820877 AATTAAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCATGTGTCACTTTTTGGCTTATTTCT
1 AATTAA-TCCTTTGATTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTAT
* * *
18820942 GTATCTAGTCCCTGT-TTTTTTTATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTA
65 GTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTA
*
18821006 CAAAATTAGCCCAATAATTTTTCAAGATTTATA
130 CAAAATTAGCCCAAGAATTTTTCAAGATTTATA
18821039 AATTAATCCTTTGATTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATG
1 AATTAATCCTTTGATTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATG
18821104 TATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTAC
66 TATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTAC
*
18821169 AAAATTAGCCCAAGAATTTTTCAGGATTTATA
131 AAAATTAGCCCAAGAATTTTTCAAGATTTATA
*
18821201 AATTAGTCCTTTGATT
1 AATTAATCCTTTGATT
18821217 TCTAGGTACC
Statistics
Matches: 168, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
161 70 0.42
162 98 0.58
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (162 bp):
AATTAATCCTTTGATTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATG
TATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTAC
AAAATTAGCCCAAGAATTTTTCAAGATTTATA
Found at i:18821312 original size:30 final size:29
Alignment explanation
Indices: 18821276--18821367 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 29
18821266 TTTTATAGGT
18821276 CCCTAAACTATACAAAAATTACCATTTTAC
1 CCCTAAACTAT-CAAAAATTACCATTTTAC
* *
18821306 CCCTAAACTTTCAAAAATT-CTATTTTTAAC
1 CCCTAAACTATCAAAAATTACCA-TTTT-AC
* **
18821336 CCC-GATTTCATCAAAAATTACCATTTTAC
1 CCCTAAACT-ATCAAAAATTACCATTTTAC
18821365 CCC
1 CCC
18821368 GAACTTTCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
28 2 0.04
29 19 0.37
30 28 0.55
31 2 0.04
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (29 bp):
CCCTAAACTATCAAAAATTACCATTTTAC
Found at i:18821368 original size:29 final size:28
Alignment explanation
Indices: 18821288--18821425 Score: 95
Period size: 29 Copynumber: 4.8 Consensus size: 28
18821278 CTAAACTATA
* *
18821288 CAAAAATTACCATTTTACCCCTAAACTT-T
1 CAAAAATTACCATTTTACCCC--GATTTCT
*
18821317 CAAAAATT-CTATTTTTAACCCCGATTTCAT
1 CAAAAATTACCA-TTTT-ACCCCGATTTC-T
18821347 CAAAAATTACCATTTTACCCCGAACTTTC-
1 CAAAAATTACCATTTTACCCCG-A-TTTCT
* * * *
18821376 CAAAATCTTATC-TTTAACCCCGATTTCAC
1 CAAAA-ATTACCATTTTACCCCGATTTC-T
*
18821405 CAAAAATCACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
18821426 CTCCAAACTT
Statistics
Matches: 87, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
27 4 0.05
28 9 0.10
29 45 0.52
30 23 0.26
31 6 0.07
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (28 bp):
CAAAAATTACCATTTTACCCCGATTTCT
Found at i:18821401 original size:58 final size:59
Alignment explanation
Indices: 18821288--18821470 Score: 226
Period size: 58 Copynumber: 3.1 Consensus size: 59
18821278 CTAAACTATA
* *
18821288 CAAAAATTACCATTTTACCCCTAAACTTTCAAAAATTCTATTTTTAACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCAAAAATTCTATCTTTAACCCCGATTTCAC
* *
18821347 CAAAAATTACCATTTTACCCC-GAACTTTCCAAAA-TCTTATCTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCAAAAATTC-TATCTTTAACCCCGATTTCAC
* * * * * *
18821405 CAAAAATCACCATTTTACCCCCTCCAAACTTTCCAAAATTCCATTTTTAGCCTCGATTTCAC
1 CAAAAATTACCATTTTA-CCCCT--AAACTTTCAAAAATTCTATCTTTAACCCCGATTTCAC
18821467 CAAA
1 CAAA
18821471 GTTTCCAAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
57 2 0.02
58 46 0.43
59 25 0.23
62 33 0.31
63 2 0.02
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCTAAACTTTCAAAAATTCTATCTTTAACCCCGATTTCAC
Found at i:18821507 original size:38 final size:38
Alignment explanation
Indices: 18821428--18821508 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
18821418 TTTACCCCCT
* * *
18821428 CCAAACTTTCCAAAATTCCATTTTTAGCCTCGATTTCA
1 CCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTAA
* *
18821466 CCAAAGTTTCCAAAATTCCATTTTTAACCCCGGTTTAA
1 CCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTAA
18821504 CCAAA
1 CCAAA
18821509 AATTACCATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.33
Consensus pattern (38 bp):
CCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTAA
Found at i:18823750 original size:29 final size:30
Alignment explanation
Indices: 18823687--18823752 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
18823677 ATTTTTCTAG
*
18823687 TTTT-TTT-TGGATTTATTAAATGATACAT
1 TTTTATTTGTGGAGTTATTAAATGATACAT
*
18823715 TTTTATTTGTGGAGTTATT-AATGA-ATAT
1 TTTTATTTGTGGAGTTATTAAATGATACAT
18823743 TTTATATTTG
1 TTT-TATTTG
18823753 AATTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 10 0.30
29 14 0.42
30 9 0.27
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.58
Consensus pattern (30 bp):
TTTTATTTGTGGAGTTATTAAATGATACAT
Found at i:18824916 original size:18 final size:18
Alignment explanation
Indices: 18824895--18824930 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18824885 TCCAGATTAA
*
18824895 CGAGCTCACAGCAAGTGG
1 CGAGCTCACAACAAGTGG
18824913 CGAGCTCACAACAAGTGG
1 CGAGCTCACAACAAGTGG
18824931 TGAAGAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.31, T:0.11
Consensus pattern (18 bp):
CGAGCTCACAACAAGTGG
Found at i:18824970 original size:28 final size:28
Alignment explanation
Indices: 18824934--18825002 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
18824924 CAAGTGGTGA
18824934 AGAAACTGCGAAGTGCGAACTGTCATAG
1 AGAAACTGCGAAGTGCGAACTGTCATAG
*
18824962 AGAAGCTGCGAAGTGCGAACTGTCATAG
1 AGAAACTGCGAAGTGCGAACTGTCATAG
* *
18824990 TGAAATTGCGAAG
1 AGAAACTGCGAAG
18825003 AAATTGAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (28 bp):
AGAAACTGCGAAGTGCGAACTGTCATAG
Found at i:18827696 original size:22 final size:22
Alignment explanation
Indices: 18827671--18827782 Score: 114
Period size: 22 Copynumber: 5.4 Consensus size: 22
18827661 ATTATATTGT
18827671 TGTTTTGGTGCTATTTTTTTAC
1 TGTTTTGGTGCTATTTTTTTAC
* *
18827693 TGTTTTGGTTGTTA-TTTTTTGC
1 TGTTTTGG-TGCTATTTTTTTAC
* *
18827715 TGTTTTGGTGTTGTTTTTTTAC
1 TGTTTTGGTGCTATTTTTTTAC
18827737 TGTTTT-G-G---TTTTTTTAC
1 TGTTTTGGTGCTATTTTTTTAC
*
18827754 TATTTTGGTGC-A-TTTTTTAC
1 TGTTTTGGTGCTATTTTTTTAC
18827774 TGTTTTGGT
1 TGTTTTGGT
18827783 ATTGTTTTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
17 14 0.18
18 1 0.01
19 1 0.01
20 17 0.22
21 5 0.06
22 36 0.46
23 4 0.05
ACGTcount: A:0.07, C:0.06, G:0.21, T:0.66
Consensus pattern (22 bp):
TGTTTTGGTGCTATTTTTTTAC
Found at i:18827749 original size:17 final size:17
Alignment explanation
Indices: 18827727--18827782 Score: 76
Period size: 17 Copynumber: 3.1 Consensus size: 17
18827717 TTTTGGTGTT
18827727 GTTTTTTTACTGTTTTG
1 GTTTTTTTACTGTTTTG
*
18827744 GTTTTTTTACTATTTTG
1 GTTTTTTTACTGTTTTG
18827761 GTGCATTTTTTACTGTTTTG
1 GT---TTTTTTACTGTTTTG
18827781 GT
1 GT
18827783 ATTGTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 18 0.53
20 16 0.47
ACGTcount: A:0.09, C:0.07, G:0.18, T:0.66
Consensus pattern (17 bp):
GTTTTTTTACTGTTTTG
Found at i:18829269 original size:28 final size:28
Alignment explanation
Indices: 18829237--18829311 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
18829227 TAGCGAACAC
* *
18829237 TGAAGTTGCAAAGTGCGAATTATCACAG
1 TGAAGCTGCGAAGTGCGAATTATCACAG
* *
18829265 TGAAGCTGTGAAGTGCGAATTGTCACAG
1 TGAAGCTGCGAAGTGCGAATTATCACAG
*
18829293 TGAAGCTACGAAGTGCGAA
1 TGAAGCTGCGAAGTGCGAA
18829312 CCGTTATAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (28 bp):
TGAAGCTGCGAAGTGCGAATTATCACAG
Found at i:18829322 original size:28 final size:28
Alignment explanation
Indices: 18829259--18829333 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
18829249 GTGCGAATTA
* **
18829259 TCACAGTGAAGCTGTGAAGTGCGAATTG
1 TCACAGTGAAGCTATGAAGTGCGAACCG
*
18829287 TCACAGTGAAGCTACGAAGTGCGAACCG
1 TCACAGTGAAGCTATGAAGTGCGAACCG
* *
18829315 TTATAGTGAAGCTATGAAG
1 TCACAGTGAAGCTATGAAG
18829334 AAATTGAAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (28 bp):
TCACAGTGAAGCTATGAAGTGCGAACCG
Found at i:18829627 original size:17 final size:17
Alignment explanation
Indices: 18829607--18829651 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
18829597 ATCTTAGTTT
18829607 ATTTTAAATTTAAATTC
1 ATTTTAAATTTAAATTC
*
18829624 A-TTTAGAATTTAAATTT
1 ATTTTA-AATTTAAATTC
*
18829641 ATGTTAAATTT
1 ATTTTAAATTT
18829652 GAACTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 17 0.71
18 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
ATTTTAAATTTAAATTC
Found at i:18830488 original size:15 final size:15
Alignment explanation
Indices: 18830463--18830501 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18830453 CTAATAATAA
*
18830463 TAAATATATTATTTAT
1 TAAA-ATATTAATTAT
18830479 TAAAATATTAATTAT
1 TAAAATATTAATTAT
18830494 TAATAATA
1 TAA-AATA
18830502 ATAAAAAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAAATATTAATTAT
Found at i:18831914 original size:117 final size:118
Alignment explanation
Indices: 18831651--18832079 Score: 604
Period size: 117 Copynumber: 3.7 Consensus size: 118
18831641 CTAAATTATT
* ** * *
18831651 CAAAAATTACCATTTCACCCCCGAACTTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAA
1 CAAAAATTACCATTTTACCCCTAAAC-TTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAA
* * *
18831716 ATTACCATTTTACCTCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
65 ATTACCATTTTACCCCCAAACTTTCCAAGATTCCATTTTTAACCCCGATTTCAC
*
18831770 CAAAAATTACCA-TTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCATC-AAAA
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAA
18831833 TTACCATTTTACCCCCAAACTTTCCAAGATTCCATTTTTAACCCCTG-TTTCAC
66 TTACCATTTTACCCCCAAACTTTCCAAGATTCCATTTTTAACCCC-GATTTCAC
* *
18831886 CAAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCAATTTTAACCCCGATTTCATC-AAAA
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAA
* *
18831950 TTACCATTTTACCCCCAAACTTTCCAAGATTCCATTTTTGACCTCGATTTCAC
66 TTACCATTTTACCCCCAAACTTTCCAAGATTCCATTTTTAACCCCGATTTCAC
* * * *
18832003 C-AAAATTACCATTTTA-CCCTCGAA-TTTCCCAAAATTCCATTTTTGACCTCGATTTCA-CGAA
1 CAAAAATTACCATTTTACCCCT-AAACTTT-CCAAAATTCCATTTTTAACCCCGATTTCATCAAA
*
18832064 AATTACCATCTTACCC
64 AATTACCATTTTACCC
18832080 TCGGGTATCC
Statistics
Matches: 286, Mismatches: 18, Indels: 15
0.90 0.06 0.05
Matches are distributed among these distances:
115 8 0.03
116 124 0.43
117 132 0.46
118 10 0.03
119 12 0.04
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.34
Consensus pattern (118 bp):
CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAA
TTACCATTTTACCCCCAAACTTTCCAAGATTCCATTTTTAACCCCGATTTCAC
Found at i:18831972 original size:175 final size:174
Alignment explanation
Indices: 18831653--18832079 Score: 610
Period size: 175 Copynumber: 2.4 Consensus size: 174
18831643 AAATTATTCA
*
18831653 AAAATTACCATTTCACCCCCGAACTTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAAT
1 AAAATTACCATTTTACCCCCGAAC-TTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAAT
* *
18831718 TACCATTTTACCTCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCAT
65 TACCATTTTACC-CCAAACTTTCCAAAATTCCAATTTTAACCCCGATTTCACCAAAAATTACCAT
* * *
18831783 TTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCATC
129 TTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * *
18831829 AAAATTACCATTTTACCCCCAAACTTTCCAAGATTCCATTTTTAACCCCTG-TTTCACCAAAAAT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCACCAAAAAT
* *
18831893 TACCATTTTACCCCTAAACTTTCTAAAATTCCAATTTTAACCCCGATTTCATC-AAAATTACCAT
65 TACCATTTTACCCC-AAACTTTCCAAAATTCCAATTTTAACCCCGATTTCACCAAAAATTACCA-
* * *
18831957 TTTACCCCCAAACTTTCCAAGATTCCATTTTTGACCTCGATTTCACC
128 TTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * *
18832004 AAAATTACCATTTTACCCTCGAA-TTTCCCAAAATTCCATTTTTGACCTCGATTTCA-CGAAAAT
1 AAAATTACCATTTTACCCCCGAACTTT-CCAAAATTCCATTTTTAACCTCGATTTCACCAAAAAT
*
18832067 TACCATCTTACCC
65 TACCATTTTACCC
18832080 TCGGGTATCC
Statistics
Matches: 225, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
174 34 0.15
175 168 0.75
176 23 0.10
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.35
Consensus pattern (174 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
ACCATTTTACCCCAAACTTTCCAAAATTCCAATTTTAACCCCGATTTCACCAAAAATTACCATTT
ACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:18832081 original size:29 final size:29
Alignment explanation
Indices: 18831653--18832082 Score: 205
Period size: 29 Copynumber: 14.7 Consensus size: 29
18831643 AAATTATTCA
* * *
18831653 AAAATTACCATTTCACCCCCGAACTTT-TCC
1 AAAATTACCATTTTACCCTCG-A-TTTCACC
*
18831683 AAAATT-CCATTTTTAACCTCGATTTCACC
1 AAAATTACCA-TTTTACCCTCGATTTCACC
18831712 AAAAATTACCATTTTA-CCTCCGAACTTT--CC
1 -AAAATTACCATTTTACCCT-CG-A-TTTCACC
18831742 AAAATT-CCATTTTTAACCC-CGATTTCACC
1 AAAATTACCA-TTTT-ACCCTCGATTTCACC
** *
18831771 AAAAATTACCA-TTTACCCCTAAACTTT--CT
1 -AAAATTACCATTTTA-CCCTCGA-TTTCACC
*
18831800 AAAATT-CCATTTTTAACCC-CGATTTCATC
1 AAAATTACCA-TTTT-ACCCTCGATTTCACC
* *
18831829 AAAATTACCATTTTACCCCCAAACTTT--CC
1 AAAATTACCATTTTACCCTC-GA-TTTCACC
*
18831858 AAGATT-CCATTTTTAACCC-CTG-TTTCACC
1 AAAATTACCA-TTTT-ACCCTC-GATTTCACC
** *
18831887 AAAAATTACCATTTTACCCCTAAACTTT--CT
1 -AAAATTACCATTTTA-CCCTCGA-TTTCACC
*
18831917 AAAATT-CCAATTTTAACCC-CGATTTCATC
1 AAAATTACC-ATTTT-ACCCTCGATTTCACC
* *
18831946 AAAATTACCATTTTACCCCCAAACTTT--CC
1 AAAATTACCATTTTACCCTC-GA-TTTCACC
*
18831975 AAGATT-CCATTTTTGA-CCTCGATTTCACC
1 AAAATTACCA-TTTT-ACCCTCGATTTCACC
18832004 AAAATTACCATTTTACCCTCGAATTTC-CC
1 AAAATTACCATTTTACCCTCG-ATTTCACC
*
18832033 AAAATT-CCATTTTTGA-CCTCGATTTCACG
1 AAAATTACCA-TTTT-ACCCTCGATTTCACC
*
18832062 AAAATTACCATCTTACCCTCG
1 AAAATTACCATTTTACCCTCG
18832083 GGTATCCAAA
Statistics
Matches: 312, Mismatches: 32, Indels: 113
0.68 0.07 0.25
Matches are distributed among these distances:
27 18 0.06
28 43 0.14
29 148 0.47
30 76 0.24
31 21 0.07
32 6 0.02
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGATTTCACC
Found at i:18832082 original size:58 final size:59
Alignment explanation
Indices: 18831651--18832079 Score: 584
Period size: 58 Copynumber: 7.3 Consensus size: 59
18831641 CTAAATTATT
* * *
18831651 CAAAAATTACCATTTCACCCCCGAACTTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAAC-TTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* *
18831711 CAAAAATTACCATTTTACCTCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
18831770 CAAAAATTACCA-TTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
*
18831828 C-AAAATTACCATTTTACCCCCAAACTTTCCAAGATTCCATTTTTAACCCCTG-TTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCC-GATTTCAC
* * * *
18831886 CAAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCAATTTTAACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
18831945 C-AAAATTACCATTTTACCCCCAAACTTTCCAAGATTCCATTTTTGACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * * *
18832003 C-AAAATTACCATTTTACCCTCGAA-TTTCCCAAAATTCCATTTTTGACCTCGATTTCA-
1 CAAAAATTACCATTTTACCCCCAAACTTT-CCAAAATTCCATTTTTAACCCCGATTTCAC
* *
18832060 CGAAAATTACCATCTTACCC
1 CAAAAATTACCATTTTACCC
18832080 TCGGGTATCC
Statistics
Matches: 335, Mismatches: 28, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
57 14 0.04
58 201 0.60
59 96 0.29
60 24 0.07
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:18833199 original size:11 final size:10
Alignment explanation
Indices: 18833172--18833198 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
18833162 GTGGTGACTC
18833172 CCTTTTTATT
1 CCTTTTTATT
18833182 CCTTTTTATT
1 CCTTTTTATT
18833192 CCTTTTT
1 CCTTTTT
18833199 TTCAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.70
Consensus pattern (10 bp):
CCTTTTTATT
Found at i:18844405 original size:76 final size:76
Alignment explanation
Indices: 18844278--18844894 Score: 1000
Period size: 76 Copynumber: 8.0 Consensus size: 76
18844268 AATGAAGCAC
* *
18844278 CAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAA
1 CAACATCA-TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAA
18844343 TTGAAGTAAGAG
65 TTGAAGTAAGAG
18844355 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
*
18844420 TGAAGAAAGAG
66 TGAAGTAAGAG
*
18844431 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
18844496 TGAAGAAGTAAGAG
66 T---GAAGTAAGAG
* * * *
18844510 CAAGATCATTTCTTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
18844575 TGAAGTAAGAG
66 TGAAGTAAGAG
18844586 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
18844651 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * *
18844662 CAAGATCATTTCCTACCCTCTTCAAATTGAAGTAGAGTTGGTTAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
*
18844727 TAAAGTAAGAG
66 TGAAGTAAGAG
* *
18844738 TAACATCATTTCCTATCCTCTTAAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
18844803 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * *
18844814 CAAGATCATTTCCTTTCCTCTTGAAATTGAAGTAAAGTTGGATAGCAACTCTTTATCTCTCTGAA
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTGAA
18844879 ATTGAAGTAAGAG
64 ATTGAAGTAAGAG
18844892 CAA
1 CAA
18844895 GATGAAGCCT
Statistics
Matches: 505, Mismatches: 30, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
76 401 0.79
77 8 0.02
78 24 0.05
79 72 0.14
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (76 bp):
CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:18844695 original size:231 final size:228
Alignment explanation
Indices: 18844278--18844897 Score: 1051
Period size: 231 Copynumber: 2.7 Consensus size: 228
18844268 AATGAAGCAC
18844278 CAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAA
1 CAACATCA-TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAA
18844343 TTGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTT
65 TTGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTT
* * *
18844408 TATCTCTGAAATTGAAGAAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGA
130 TATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTACCCTCTTCAAATTGAAGTAGAGTTGGA
18844473 TAACAAGTCTTTATCTCTGAAATTGAAGAAGTAAGAG
195 TAACAAGTCTTTATCTCTGAAATT--A-AAGTAAGAG
* *
18844510 CAAGATCATTTCTTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
18844575 TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTT
66 TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTT
*
18844640 ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTACCCTCTTCAAATTGAAGTAGAGTTGGTT
131 ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTACCCTCTTCAAATTGAAGTAGAGTTGGAT
18844705 AACAAGTCTTTATCTCTGAAATTAAAGTAAGAG
196 AACAAGTCTTTATCTCTGAAATTAAAGTAAGAG
* * * *
18844738 TAACATCATTTCCTATCCTCTTAAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
* * * * *
18844803 TGAAGTAAGAGCAAGATCATTTCCTTTCCTCTTGAAATTGAAGTAAAGTTGGATAGCAACTCTTT
66 TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTT
18844868 ATCTCTCTGAAATTGAAGTAAGAGCAAGAT
131 A--TCTCTGAAATTGAAGTAAGAGCAAGAT
18844898 GAAGCCTCGA
Statistics
Matches: 369, Mismatches: 17, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
228 129 0.35
229 1 0.00
230 27 0.07
231 205 0.56
232 7 0.02
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (228 bp):
CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTT
ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTACCCTCTTCAAATTGAAGTAGAGTTGGAT
AACAAGTCTTTATCTCTGAAATTAAAGTAAGAG
Found at i:18845194 original size:17 final size:17
Alignment explanation
Indices: 18845172--18845260 Score: 110
Period size: 17 Copynumber: 5.2 Consensus size: 17
18845162 AACTTTTAAT
*
18845172 TTTTAAATCTT-AGTTTA
1 TTTTAAAT-TTAAATTTA
18845189 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
*
18845206 TTTTAAATTTAAATTCA
1 TTTTAAATTTAAATTTA
18845223 -TTTAGAATTTAAATTTA
1 TTTTA-AATTTAAATTTA
* *
18845240 TGTTAAATTTGAATTTA
1 TTTTAAATTTAAATTTA
18845257 TTTT
1 TTTT
18845261 GGATTAAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
16 6 0.10
17 54 0.86
18 3 0.05
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:18845201 original size:23 final size:23
Alignment explanation
Indices: 18845173--18845220 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
18845163 ACTTTTAATT
*
18845173 TTTAAATCTTAGTTT-ATTTTAAA
1 TTTAAAT-TTAGTTTAAATTTAAA
*
18845196 TTTAAATTTATTTTAAATTTAAA
1 TTTAAATTTAGTTTAAATTTAAA
18845219 TT
1 TT
18845221 CATTTAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAATTTAGTTTAAATTTAAA
Found at i:18845232 original size:7 final size:6
Alignment explanation
Indices: 18845190--18845256 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
18845180 CTTAGTTTAT
* *
18845190 TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA -TT-CA TTTAGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA
*
18845236 TTT--A TGTTAAA TTTGAA TTTA
1 TTTAAA T-TTAAA TTTAAA TTTA
18845257 TTTTGGATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
4 3 0.06
5 10 0.21
6 28 0.58
7 7 0.15
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:18846073 original size:15 final size:15
Alignment explanation
Indices: 18846048--18846086 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18846038 CTAATAATAA
*
18846048 TAAATATATTATTTAT
1 TAAA-ATATTAATTAT
18846064 TAAAATATTAATTAT
1 TAAAATATTAATTAT
18846079 TAATAATA
1 TAA-AATA
18846087 ATAAAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAAATATTAATTAT
Found at i:18847014 original size:162 final size:161
Alignment explanation
Indices: 18846810--18847111 Score: 390
Period size: 162 Copynumber: 1.9 Consensus size: 161
18846800 AATTATTTGC
* * * * * *
18846810 AATTTTGCCCGGTAATTTTGATTGGTTTTTAATTTAATCCTTTGACTGTTTGACTGCACCAAAGG
1 AATTTGGCCCAGTAATTTTGATTGCTTTTCAATTTAATCCTTTAACTGTTTGAATGCACCAAAGG
* *
18846875 CCGCCACGTGTCGT-TGTTTTGGCATATTTATGAAATTAGTCCCTTTTATTTTTAATTTATTTTA
66 CCGCCA--TGTCGTATATTTTGGCATATTTATGAAATTAGTACCTTTTATTTTTAATTTATTTTA
*
18846939 ATTTAATCCTTTTCATACTTTTAACTATTTTTT
129 ATCTAATCCTTTTCATACTTTTAACTATTTTTT
* * * * *
18846972 AATTTGGCCCAGTAATTTTGTTTGCTTTTCAATTTGATCCTTTAACTTTTTGAATGCATCAGAGG
1 AATTTGGCCCAGTAATTTTGATTGCTTTTCAATTTAATCCTTTAACTGTTTGAATGCACCAAAGG
* * * * * *
18847037 CTGCCATGTGGTACTATTTTGGCTTATTTGTGCAATTAGTACCTTTTATTTTTAATTTGTTTTAA
66 CCGCCATGTCGTA-TATTTTGGCATATTTATGAAATTAGTACCTTTTATTTTTAATTTATTTTAA
18847102 TCTAATCCTT
130 TCTAATCCTT
18847112 AAATCAACTT
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
160 5 0.04
162 113 0.96
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.49
Consensus pattern (161 bp):
AATTTGGCCCAGTAATTTTGATTGCTTTTCAATTTAATCCTTTAACTGTTTGAATGCACCAAAGG
CCGCCATGTCGTATATTTTGGCATATTTATGAAATTAGTACCTTTTATTTTTAATTTATTTTAAT
CTAATCCTTTTCATACTTTTAACTATTTTTT
Found at i:18847219 original size:29 final size:30
Alignment explanation
Indices: 18847187--18847523 Score: 175
Period size: 29 Copynumber: 11.5 Consensus size: 30
18847177 CCAAGAATTT
18847187 CCAAAATT-CCATTTTTAACCCCGATTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
*
18847216 CCAAAAATTACCA-TTTT-ACCTTCGAACTTT--
1 CC-AAAATTACCATTTTTAACC-CCG-A-TTTCA
* *
18847246 CCAAAATT-CCATTTTTAACCTCGGTTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
*
18847275 CCAAAAATTACCA-TTTT-ACCCCTAAACTTT--
1 CC-AAAATTACCATTTTTAACCCC--GA-TTTCA
*
18847305 CTAAAATT-CCATTTTTAACCCCGATTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
*
18847334 TCAAAATTACCA-TTTT-ACCCTCGAACTTT--
1 CCAAAATTACCATTTTTAACCC-CG-A-TTTCA
* * *
18847363 CTAAAATT-CCATTTTTAATCTCGATTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
*
18847392 TCAAAATTACCA-TTTT-ACCCTCGAACTTT--
1 CCAAAATTACCATTTTTAACCC-CG-A-TTTCA
* * * * *
18847421 CCAAGATT-CCATTTTTGATCTCAATTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
* *
18847450 CCAAAATTACCA-TTTTACCCCCAAATTT--
1 CCAAAATTACCATTTTTAACCCC-GATTTCA
* *
18847478 CCAAAATT-CCATTTTTGACCTCGATTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
*
18847507 TCGAAAATTACCATTTT
1 -CCAAAATTACCATTTT
18847524 GCCCCCGGGT
Statistics
Matches: 235, Mismatches: 32, Indels: 80
0.68 0.09 0.23
Matches are distributed among these distances:
27 19 0.08
28 36 0.15
29 94 0.40
30 60 0.26
31 20 0.09
32 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (30 bp):
CCAAAATTACCATTTTTAACCCCGATTTCA
Found at i:18847366 original size:58 final size:59
Alignment explanation
Indices: 18847184--18847523 Score: 465
Period size: 58 Copynumber: 5.8 Consensus size: 59
18847174 AACCCAAGAA
* *
18847184 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCTTCGAAC
1 TTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCTCGAAC
* *
18847243 TTTCCAAAATTCCATTTTTAACCTCGGTTTCACCAAAAATTACCATTTTACCC-CTAAAC
1 TTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCTC-GAAC
* * *
18847302 TTTCTAAAATTCCATTTTTAACCCCGATTTCATC-AAAATTACCATTTTACCCTCGAAC
1 TTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCTCGAAC
* * *
18847360 TTTCTAAAATTCCATTTTTAATCTCGATTTCATC-AAAATTACCATTTTACCCTCGAAC
1 TTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCTCGAAC
* * * * * *
18847418 TTTCCAAGATTCCATTTTTGATCTCAATTTCACC-AAAATTACCATTTTACCC-CCAAA
1 TTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCTCGAAC
* * *
18847475 TTTCCAAAATTCCATTTTTGACCTCGATTTCATCGAAAATTACCATTTT
1 TTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTT
18847524 GCCCCCGGGT
Statistics
Matches: 256, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
57 33 0.13
58 139 0.54
59 84 0.33
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (59 bp):
TTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCTCGAAC
Found at i:18847564 original size:116 final size:114
Alignment explanation
Indices: 18847184--18847564 Score: 465
Period size: 116 Copynumber: 3.3 Consensus size: 114
18847174 AACCCAAGAA
*
18847184 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCTTCGAACTTTCCA
1 TTTCCAAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTACC-CCGAACTTTCCA
* * **
18847249 AAATTCCATTTTTAACCTCGGTTTCACCAAAAATTACCATTTTACCCCTAAAC
64 AAATTCCATTTTTAACCTCGATTTCATC-AAAATTACCATTTTACCCC-CGAC
* * *
18847302 TTTCTAAAATTCCATTTTTAACCCCGATTTCATCAAAATTACCATTTTACCCTCGAACTTTCTAA
1 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCC-CGAACTTTCCAA
* *
18847367 AATTCCATTTTTAATCTCGATTTCATCAAAATTACCATTTTACCCTCGAAC
65 AATTCCATTTTTAACCTCGATTTCATCAAAATTACCATTTTACCCCCG-AC
* * * * * * *
18847418 TTTCCAAGATTCCATTTTTGATCTCAATTTCACCAAAATTACCATTTTACCCCCAAATTTCCAAA
1 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCGAACTTTCCAAA
* * **
18847483 ATTCCATTTTTGACCTCGATTTCATCGAAAATTACCATTTTGCCCCCGGG
66 ATTCCATTTTTAACCTCGATTTCATC-AAAATTACCATTTTACCCCCGAC
* * * *
18847533 TATCCAAAAGTCTCGTTTTCAACCCCGATTTC
1 TTTCCAAAATTC-CATTTTTAACCCCGATTTC
18847565 GTCATTTCTT
Statistics
Matches: 224, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
115 43 0.19
116 97 0.43
117 52 0.23
118 32 0.14
ACGTcount: A:0.30, C:0.28, G:0.05, T:0.37
Consensus pattern (114 bp):
TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCGAACTTTCCAAA
ATTCCATTTTTAACCTCGATTTCATCAAAATTACCATTTTACCCCCGAC
Found at i:18848686 original size:11 final size:10
Alignment explanation
Indices: 18848659--18848685 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
18848649 GTGGCAACTC
18848659 CCTTTTTATT
1 CCTTTTTATT
18848669 CCTTTTTATT
1 CCTTTTTATT
18848679 CCTTTTT
1 CCTTTTT
18848686 TTCAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.70
Consensus pattern (10 bp):
CCTTTTTATT
Found at i:18851777 original size:58 final size:58
Alignment explanation
Indices: 18851712--18851840 Score: 151
Period size: 57 Copynumber: 2.2 Consensus size: 58
18851702 AGAAATGGTG
* *
18851712 AAATGGAGAAATAGTAAAT-ATTTGGAAA-AAAT-TAAGGTTTTCTTCAAAATCAAAAT-AA
1 AAATGGAGAAAT-G-AAATCATTTGGAAATAAATGT--GATTTTCTCCAAAATCAAAATGAA
*
18851770 AAATGGAGAAATGAAATCATTTGGAAATAAATGTGATTTTCTCCAAAATGAAAATGAA
1 AAATGGAGAAATGAAATCATTTGGAAATAAATGTGATTTTCTCCAAAATCAAAATGAA
*
18851828 AAAT-GAAAAATGA
1 AAATGGAGAAATGA
18851841 CTTAAAAATG
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
56 4 0.06
57 36 0.57
58 22 0.35
59 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.27
Consensus pattern (58 bp):
AAATGGAGAAATGAAATCATTTGGAAATAAATGTGATTTTCTCCAAAATCAAAATGAA
Found at i:18852591 original size:11 final size:12
Alignment explanation
Indices: 18852575--18852603 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
18852565 CACAATCAAC
18852575 TTTATTTATT-T
1 TTTATTTATTCT
18852586 TTTATTTATTCT
1 TTTATTTATTCT
18852598 TTTATT
1 TTTATT
18852604 AGAGCCTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTATTTATTCT
Found at i:18856213 original size:14 final size:14
Alignment explanation
Indices: 18856194--18856223 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18856184 TTTTAAACTA
*
18856194 TATTTTAATTTTTT
1 TATTTTAATTATTT
18856208 TATTTTAATTATTT
1 TATTTTAATTATTT
18856222 TA
1 TA
18856224 AATTTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTTAATTATTT
Found at i:18856435 original size:25 final size:25
Alignment explanation
Indices: 18856406--18856453 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18856396 AAAAAACTAA
*
18856406 AAAAATAATTATATATATATATATG
1 AAAAATAATTAAATATATATATATG
* *
18856431 AAAAATATTTAAATGTATATATA
1 AAAAATAATTAAATATATATATA
18856454 ATTTATCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
AAAAATAATTAAATATATATATATG
Found at i:18857475 original size:24 final size:25
Alignment explanation
Indices: 18857435--18857500 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
18857425 TTTCAAAAAA
** *
18857435 TAATAATAAATTTAAAT-TTTATAT
1 TAATAATAAATAAAAATAATTATAT
18857459 TAATAATAAATAAAAATAATTATAT
1 TAATAATAAATAAAAATAATTATAT
* *
18857484 TAAATATTATATAAAAA
1 T-AATAATAAATAAAAA
18857501 AAAAACTCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 15 0.43
25 7 0.20
26 13 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TAATAATAAATAAAAATAATTATAT
Found at i:18864457 original size:18 final size:16
Alignment explanation
Indices: 18864431--18864476 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
18864421 TGAATTTTTT
*
18864431 AAAAGTATTTTTAGTAAA
1 AAAAATATTTTT--TAAA
18864449 AAAAATA-TTTTTAAA
1 AAAAATATTTTTTAAA
18864464 AAAAATATTTTTT
1 AAAAATATTTTTT
18864477 TTACCAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 11 0.42
16 5 0.19
17 4 0.15
18 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
AAAAATATTTTTTAAA
Found at i:18864463 original size:15 final size:15
Alignment explanation
Indices: 18864445--18864475 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18864435 GTATTTTTAG
18864445 TAAAAAAAATATTTT
1 TAAAAAAAATATTTT
18864460 TAAAAAAAATATTTT
1 TAAAAAAAATATTTT
18864475 T
1 T
18864476 TTTACCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAAAAAATATTTT
Found at i:18870933 original size:24 final size:24
Alignment explanation
Indices: 18870901--18870950 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
18870891 TCGAATTCTC
18870901 ATTAGCTGATTTAGCATTTCACTA
1 ATTAGCTGATTTAGCATTTCACTA
18870925 ATTAGCTGATTTAGCATTTCACTA
1 ATTAGCTGATTTAGCATTTCACTA
18870949 AT
1 AT
18870951 GGTTTAACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (24 bp):
ATTAGCTGATTTAGCATTTCACTA
Found at i:18871041 original size:29 final size:31
Alignment explanation
Indices: 18870991--18871050 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
18870981 ATTGATAATT
* * *
18870991 CAAGTATCATATTGGATATTTT-T-AAAGTA
1 CAAGTACCACATTAGATATTTTATGAAAGTA
*
18871020 CAAGTACCACATTAGATGTTTTATGAAAGTA
1 CAAGTACCACATTAGATATTTTATGAAAGTA
18871051 TAGTTGCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 18 0.72
30 1 0.04
31 6 0.24
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (31 bp):
CAAGTACCACATTAGATATTTTATGAAAGTA
Found at i:18874910 original size:31 final size:32
Alignment explanation
Indices: 18874866--18874957 Score: 123
Period size: 31 Copynumber: 2.8 Consensus size: 32
18874856 ACCAATGTGT
18874866 TGGTTGAATAGCTCTTACGAGCATACTGTT-AC
1 TGGTTG-ATAGCTCTTACGAGCATACTGTTCAC
* *
18874898 TGGTTGATAGCTCTTACGAGCATATTATTCAC
1 TGGTTGATAGCTCTTACGAGCATACTGTTCAC
* *
18874930 TGATTGATTAGCTCTTATGAGCATACTG
1 TGGTTGA-TAGCTCTTACGAGCATACTG
18874958 CGAATTTACA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
31 21 0.40
32 14 0.27
33 17 0.33
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (32 bp):
TGGTTGATAGCTCTTACGAGCATACTGTTCAC
Found at i:18893108 original size:19 final size:18
Alignment explanation
Indices: 18893080--18893115 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
18893070 ATTAAAAGAC
18893080 TCATTTTTGCACATTTTT
1 TCATTTTTGCACATTTTT
18893098 TCATATTTTGCACATTTT
1 TCAT-TTTTGCACATTTT
18893116 ATTAACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.19, C:0.17, G:0.06, T:0.58
Consensus pattern (18 bp):
TCATTTTTGCACATTTTT
Found at i:18897429 original size:3 final size:3
Alignment explanation
Indices: 18897421--18897449 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
18897411 GATATTTTTC
18897421 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18897450 TGCTAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:18904148 original size:2 final size:2
Alignment explanation
Indices: 18904141--18904187 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
18904131 AATAATTTAA
*
18904141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18904183 AT AT A
1 AT AT A
18904188 ATTGACTACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18905731 original size:195 final size:195
Alignment explanation
Indices: 18905346--18905786 Score: 444
Period size: 195 Copynumber: 2.3 Consensus size: 195
18905336 ACATGAGGGC
* * * **
18905346 TGAGGTACCGCATATGTTGTGAGTCCTCGAAAGCTCGTGTAAGCACCATCGTGAGTCGAGAAATG
1 TGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTAAGCAGCATCGTGACCCGAGAAATG
* * *
18905411 AGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAGTGCATATT
66 AGAAAAGAATCCAAGAATGGATTACAAGCCCTACGATGGCTGAGATTTATGCATAAGCGCATACT
* * * * **
18905476 CTCGACAGCTCATGTGAGCAGCATTGTTAGGGAATAGTTATATGCACAGATATTGTATCGATGAT
131 CTCGACAGCTCATGTGAGCAGAATCGTTAGGGAATAGTTATATACACAGACACCGTATCGATGAT
* * * * *
18905541 TGAGGTACCACATATGTTGCGAGTCCTCGACAGCTTGTTTTAGCAGCATCGTGACCCGGGAAA-G
1 TGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTAAGCAGCATCGTGACCCGAGAAATG
* * * ** * * * *
18905605 AGATATGGATCTTA-AATGGATTATAAGCCCTACGATGGCTGGGA-TTATGCTTTA-CGCATACT
66 AGAAAAGAATCCAAGAATGGATTACAAGCCCTACGATGGCTGAGATTTATGCATAAGCGCATACT
* * * *
18905667 CTCGACAGCTCGTGTGAGTAGAATCGTTAGGGAGCA-ATTTATAGTACAAACAGGCACCGTATCG
131 CTCGACAGCTCATGTGAGCAGAATCGTTAGGGA--ATAGTTATA-TAC--ACAGACACCGTATCG
*
18905731 ATGGT
191 ATGAT
** * * *
18905736 T-AGGGTATTGCATATATTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCG
1 TGA-GGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTAAGCAGCATCG
18905787 AGTACTGGTA
Statistics
Matches: 199, Mismatches: 41, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
191 35 0.18
192 14 0.07
193 30 0.15
194 11 0.06
195 109 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (195 bp):
TGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTAAGCAGCATCGTGACCCGAGAAATG
AGAAAAGAATCCAAGAATGGATTACAAGCCCTACGATGGCTGAGATTTATGCATAAGCGCATACT
CTCGACAGCTCATGTGAGCAGAATCGTTAGGGAATAGTTATATACACAGACACCGTATCGATGAT
Found at i:18906580 original size:21 final size:21
Alignment explanation
Indices: 18906541--18906587 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18906531 TCTTTAGTAC
* *
18906541 CGGTAAAAGCATGATTTATTT
1 CGGTAAAAGCATGACTTATAT
* *
18906562 CGGTAAAAGCTTTACTTATAT
1 CGGTAAAAGCATGACTTATAT
18906583 CGGTA
1 CGGTA
18906588 GAACTGTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (21 bp):
CGGTAAAAGCATGACTTATAT
Found at i:18909935 original size:120 final size:120
Alignment explanation
Indices: 18909702--18909924 Score: 295
Period size: 120 Copynumber: 1.9 Consensus size: 120
18909692 ACATAAACCA
* * **
18909702 TATCGATGGTTGAGGTACCGAATATGTTACGAGTCCTCAACAGCTCATGTGAGCATTATCATATA
1 TATCGATAGCTGAGGTACCGAATATGTTACGAGTCCTCAACAGCTCATGTGAGCAGCATCATATA
* *
18909767 CTGGCAACAAAGTTGATACAGACATGAGAATGAAATTCGAGATTATAGCATACCG
66 CTGGCAACAAAGTTGACACAGACAAGAGAATGAAATTCGAGATTATAGCATACCG
* * ** *
18909822 TATCGATAGCTGAGGTACC-ACATATGTTGCGAGTCCTCGACAGCTTGTGTGAGCAGCATCGTAT
1 TATCGATAGCTGAGGTACCGA-ATATGTTACGAGTCCTCAACAGCTCATGTGAGCAGCATCATAT
* * * *
18909886 ATTGGTAACAAAGTTTACACAGACAAGAGGATGAAATTC
65 ACTGGCAACAAAGTTGACACAGACAAGAGAATGAAATTC
18909925 TGGGTTATAG
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
119 1 0.01
120 86 0.99
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (120 bp):
TATCGATAGCTGAGGTACCGAATATGTTACGAGTCCTCAACAGCTCATGTGAGCAGCATCATATA
CTGGCAACAAAGTTGACACAGACAAGAGAATGAAATTCGAGATTATAGCATACCG
Found at i:18912894 original size:19 final size:19
Alignment explanation
Indices: 18912872--18912912 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
18912862 TAGTATTGGA
18912872 GCTATTAATTTTTCATTTC
1 GCTATTAATTTTTCATTTC
18912891 GCTATTAATTTTTCATTTC
1 GCTATTAATTTTTCATTTC
18912910 GCT
1 GCT
18912913 TCCAACAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.56
Consensus pattern (19 bp):
GCTATTAATTTTTCATTTC
Found at i:18915258 original size:24 final size:24
Alignment explanation
Indices: 18915214--18915261 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18915204 TTAAAGTTAT
*
18915214 TATTTATATTATTTTAAAATATAA
1 TATTTATATTATATTAAAATATAA
*
18915238 TATTT-TATTAATATTATAATATAA
1 TATTTATATT-ATATTAAAATATAA
18915262 ATAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTTATATTATATTAAAATATAA
Found at i:18919788 original size:18 final size:17
Alignment explanation
Indices: 18919754--18919791 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
18919744 AAAAAAATGA
18919754 AATTTTATTATTTTAAT
1 AATTTTATTATTTTAAT
*
18919771 AA-TTTA-TATTTTTAT
1 AATTTTATTATTTTAAT
18919786 AATTTT
1 AATTTT
18919792 TAAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 10 0.53
16 7 0.37
17 2 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTTATTATTTTAAT
Found at i:18935706 original size:18 final size:18
Alignment explanation
Indices: 18935683--18935717 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18935673 TTAGTTTCGT
*
18935683 TTTTTTTCTTTCATTTTC
1 TTTTTTTATTTCATTTTC
18935701 TTTTTTTATTTCATTTT
1 TTTTTTTATTTCATTTT
18935718 AAAAAAATCC
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:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTATTTCATTTTC
Found at i:18936063 original size:12 final size:12
Alignment explanation
Indices: 18936046--18936071 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18936036 GTTTTATAAA
18936046 TTAATTTTCTTT
1 TTAATTTTCTTT
18936058 TTAATTTTCTTT
1 TTAATTTTCTTT
18936070 TT
1 TT
18936072 TTTTGCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTAATTTTCTTT
Found at i:18951118 original size:19 final size:19
Alignment explanation
Indices: 18951096--18951139 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
18951086 TTTAAGTACA
18951096 AATTA-ATTATTTTATAATT
1 AATTATATTATTTTATAA-T
*
18951115 AATTTATATTTTTTTATAAT
1 AA-TTATATTATTTTATAAT
18951135 AATTA
1 AATTA
18951140 CTAAGAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 6 0.27
21 11 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTATATTATTTTATAAT
Found at i:18954376 original size:12 final size:12
Alignment explanation
Indices: 18954361--18954397 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
18954351 GTGGAACAAA
*
18954361 AGGTGCATTTGG
1 AGGTGCATTCGG
*
18954373 AGGTGTATTCGG
1 AGGTGCATTCGG
18954385 AGGTGCATTCGG
1 AGGTGCATTCGG
18954397 A
1 A
18954398 TGTGTATCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.19, C:0.11, G:0.41, T:0.30
Consensus pattern (12 bp):
AGGTGCATTCGG
Found at i:18954388 original size:24 final size:24
Alignment explanation
Indices: 18954361--18954409 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
18954351 GTGGAACAAA
* *
18954361 AGGTGCATTTGGAGGTGTATTCGG
1 AGGTGCATTCGGAGGTGTATCCGG
*
18954385 AGGTGCATTCGGATGTGTATCCGG
1 AGGTGCATTCGGAGGTGTATCCGG
18954409 A
1 A
18954410 AGTACGGGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.18, C:0.12, G:0.39, T:0.31
Consensus pattern (24 bp):
AGGTGCATTCGGAGGTGTATCCGG
Found at i:18954409 original size:12 final size:12
Alignment explanation
Indices: 18954361--18954409 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
18954351 GTGGAACAAA
* *
18954361 AGGTGCATTTGG
1 AGGTGTATTCGG
18954373 AGGTGTATTCGG
1 AGGTGTATTCGG
*
18954385 AGGTGCATTCGG
1 AGGTGTATTCGG
* *
18954397 ATGTGTATCCGG
1 AGGTGTATTCGG
18954409 A
1 A
18954410 AGTACGGGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.18, C:0.12, G:0.39, T:0.31
Consensus pattern (12 bp):
AGGTGTATTCGG
Found at i:18962945 original size:15 final size:14
Alignment explanation
Indices: 18962925--18962954 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
18962915 ACTTCATCCC
18962925 AAGATTGATGTCTAA
1 AAGATTGATG-CTAA
18962940 AAGATTGATGCTAA
1 AAGATTGATGCTAA
18962954 A
1 A
18962955 TATTTTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (14 bp):
AAGATTGATGCTAA
Done.