Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 128 of 136
Found at i:44000454 original size:26 final size:27
Alignment explanation
Indices: 44000400--44000454 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
44000390 TTTAATGAAA
* ***
44000400 ATATTTTTTTATTATTTTCTAATTTTT
1 ATATATTTTTATTATTTTCTAAAAATT
44000427 ATATATTTTTATT-TTTTCTAAAAATT
1 ATATATTTTTATTATTTTCTAAAAATT
44000453 AT
1 AT
44000455 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (27 bp):
ATATATTTTTATTATTTTCTAAAAATT
Found at i:44005327 original size:29 final size:30
Alignment explanation
Indices: 44005256--44005321 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
44005246 GTTGCCAAGA
* *
44005256 GTAAATACTCAAATTTTGAGGGGTTGAAGT
1 GTAAATACTCAAAATTTGAGGGGTTAAAGT
*
44005286 GT-AATACTCAAAATTTGTGGGGTTAAAGT
1 GTAAATACTCAAAATTTGAGGGGTTAAAGT
44005315 GTAAATA
1 GTAAATA
44005322 TGAAAAGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (30 bp):
GTAAATACTCAAAATTTGAGGGGTTAAAGT
Found at i:44007469 original size:45 final size:45
Alignment explanation
Indices: 44007402--44007494 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
44007392 TGATGAACGA
* *
44007402 TATTATGTATTTAGTATATTGTTGAAAAATAGAATATTGTTAAAT
1 TATTATGTATTTAGCATATTGTTGAAAAATAGAATATTGTCAAAT
* *
44007447 TATTATGTATTTAGCATGTTGTTGAAAAATTGAATATTGTCAAAT
1 TATTATGTATTTAGCATATTGTTGAAAAATAGAATATTGTCAAAT
44007492 TAT
1 TAT
44007495 GAAATTGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (45 bp):
TATTATGTATTTAGCATATTGTTGAAAAATAGAATATTGTCAAAT
Found at i:44007732 original size:42 final size:42
Alignment explanation
Indices: 44007663--44007816 Score: 182
Period size: 42 Copynumber: 3.7 Consensus size: 42
44007653 TTAACTCATA
* * *
44007663 TGAGTTTCAGTTTAATCCTAATGGGTTTTCGTTCAGCTCTTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTTTCGTTCAACTCTTT
* *
44007705 TGAGCTTCAATTTAACCCTAATGGGTTTCCGTTCAACTCTTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTTTCGTTCAACTCTTT
* * * * *
44007747 TAAGCTTCAGTTTAACCCTTATAGGCTTTCGTTCAACTCTTA
1 TGAGCTTCAGTTTAACCCTAATGGGTTTTCGTTCAACTCTTT
* * * *
44007789 TGAGCTTCCGTTCAACCCTTACGGGTTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTT
44007817 CTGTTTAGAA
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTAATGGGTTTTCGTTCAACTCTTT
Found at i:44007788 original size:21 final size:21
Alignment explanation
Indices: 44007734--44007809 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
44007724 AATGGGTTTC
* * *
44007734 CGTTCAACTCTTTTAAGC-TT
1 CGTTCAACCCTTATAGGCTTT
*
44007754 CAGTTTAACCCTTATAGGCTTT
1 C-GTTCAACCCTTATAGGCTTT
* *
44007776 CGTTCAACTCTTAT-GAGCTTC
1 CGTTCAACCCTTATAG-GCTTT
44007797 CGTTCAACCCTTA
1 CGTTCAACCCTTA
44007810 CGGGTTTCTG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
20 2 0.04
21 40 0.89
22 3 0.07
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.39
Consensus pattern (21 bp):
CGTTCAACCCTTATAGGCTTT
Found at i:44022120 original size:21 final size:22
Alignment explanation
Indices: 44022107--44022149 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
44022097 ATCCTAAATC
*
44022107 CTAAACCTCGAAT-CTCAAACT
1 CTAAACCCCGAATCCTCAAACT
44022128 CTAAACCCCGAATCC-CAAACT
1 CTAAACCCCGAATCCTCAAACT
44022149 C
1 C
44022150 GAACTTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.37, C:0.40, G:0.05, T:0.19
Consensus pattern (22 bp):
CTAAACCCCGAATCCTCAAACT
Found at i:44022822 original size:5 final size:5
Alignment explanation
Indices: 44022812--44022837 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44022802 AATATTTACT
44022812 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
44022838 GGTGTGTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:44029691 original size:21 final size:21
Alignment explanation
Indices: 44029667--44029727 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
44029657 ATGAGTTTCC
*
44029667 GTTTAACCCTAATGGGTTTTA
1 GTTTAACCCTTATGGGTTTTA
** * * * *
44029688 GTTTTGCTCTTTTGAGCTTTA
1 GTTTAACCCTTATGGGTTTTA
44029709 GTTTAACCCTTATGGGTTT
1 GTTTAACCCTTATGGGTTT
44029728 CCTTTCAGCT
Statistics
Matches: 27, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.15, G:0.20, T:0.49
Consensus pattern (21 bp):
GTTTAACCCTTATGGGTTTTA
Found at i:44029743 original size:21 final size:21
Alignment explanation
Indices: 44029713--44029774 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
44029703 GCTTTAGTTT
*
44029713 AACCCTTATGGGTTTCCTTTC
1 AACCCTTATGGGTTTCCGTTC
* * * *
44029734 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
44029755 AACCCTTATGGGTTTCCGTT
1 AACCCTTATGGGTTTCCGTT
44029775 TAGCACTTGT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:44029791 original size:42 final size:42
Alignment explanation
Indices: 44029656--44029778 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
44029646 AGTTAACTCA
* * ** *
44029656 TATGAGTTTCCGTTTAACCCTAATGGGTTTTAGTTTTGCTCT
1 TATGAGCTTCCGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
* **
44029698 TTTGAGCTTTAGTTTAACCCTTATGGGTTTCC-TTTCAGCTCT
1 TATGAGCTTCCGTTTAACCCTTATGGGTTTCCGTTT-AGCTCT
*
44029740 TATGAGCTTCCGTTCAACCCTTATGGGTTTCCGTTTAGC
1 TATGAGCTTCCGTTTAACCCTTATGGGTTTCCGTTTAGC
44029779 ACTTGTGTGC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.04
42 61 0.91
43 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (42 bp):
TATGAGCTTCCGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
Found at i:44030995 original size:23 final size:20
Alignment explanation
Indices: 44030969--44031011 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 20
44030959 TTGATATGTA
44030969 TATTAAATGTTGTGAAATGTTCG
1 TATTAAAT-TTGT-AAA-GTTCG
*
44030992 TATTTAATTTGTAAAGTTCG
1 TATTAAATTTGTAAAGTTCG
44031012 ATAATGCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 4 0.21
23 7 0.37
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.47
Consensus pattern (20 bp):
TATTAAATTTGTAAAGTTCG
Found at i:44031548 original size:71 final size:71
Alignment explanation
Indices: 44031426--44031570 Score: 202
Period size: 71 Copynumber: 2.0 Consensus size: 71
44031416 ACTGAAAAAT
* * *
44031426 TTCAAAATATGCTAAGTGGGTGTCACGATATCCAAGACTTGGTATCGCGATCTCAAAGACAATAG
1 TTCAAAATATGCTAAGTGGGTATCACGATATCCAAGACTTGGCATCACGATCTCAAAGACAATAG
44031491 CCAAAC
66 CCAAAC
* * * *
44031497 TTCAAAATATG-TCAAGTGGGTATCGCGATATCCAGGGCTTGGCATCACGATCTCATAGACAATA
1 TTCAAAATATGCT-AAGTGGGTATCACGATATCCAAGACTTGGCATCACGATCTCAAAGACAATA
*
44031561 GCTAAAC
65 GCCAAAC
44031568 TTC
1 TTC
44031571 TCAATTTGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
70 1 0.02
71 64 0.98
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (71 bp):
TTCAAAATATGCTAAGTGGGTATCACGATATCCAAGACTTGGCATCACGATCTCAAAGACAATAG
CCAAAC
Found at i:44043638 original size:22 final size:22
Alignment explanation
Indices: 44043611--44043837 Score: 454
Period size: 22 Copynumber: 10.3 Consensus size: 22
44043601 CTCTCTAATC
44043611 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44043633 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44043655 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44043677 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44043699 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44043721 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44043743 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44043765 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44043787 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44043809 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44043831 CTCTCAA
1 CTCTCAA
44043838 ACTCATATTT
Statistics
Matches: 205, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 205 1.00
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:44043919 original size:31 final size:31
Alignment explanation
Indices: 44043883--44043946 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
44043873 CTCAAATCCA
*
44043883 TTTTTAAAATAATTATAATTTTTTTTATATT
1 TTTTTAAAATAATTATAAATTTTTTTATATT
*
44043914 TTTTTAAAATAATTTTAAATTTTTTTATATT
1 TTTTTAAAATAATTATAAATTTTTTTATATT
44043945 TT
1 TT
44043947 CATCAATGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTAAAATAATTATAAATTTTTTTATATT
Found at i:44044051 original size:25 final size:26
Alignment explanation
Indices: 44044019--44044091 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 26
44044009 ATGGTAAGTA
44044019 TTAA-ATTTAATT-TTTATTTATTAT
1 TTAAGATTTAATTATTTATTTATTAT
* *
44044043 TTAAGATTT-TTTATTTATGTATT-T
1 TTAAGATTTAATTATTTATTTATTAT
*
44044067 TT-AGA--TAATTATTAATTTATTAT
1 TTAAGATTTAATTATTTATTTATTAT
44044090 TT
1 TT
44044092 GTTATAAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
21 1 0.03
22 11 0.28
23 6 0.15
24 9 0.22
25 13 0.32
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (26 bp):
TTAAGATTTAATTATTTATTTATTAT
Found at i:44044711 original size:7 final size:7
Alignment explanation
Indices: 44044699--44044723 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44044689 AGTCGATTGA
44044699 TATTTAG
1 TATTTAG
44044706 TATTTAG
1 TATTTAG
44044713 TATTTAG
1 TATTTAG
44044720 TATT
1 TATT
44044724 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:44045396 original size:18 final size:18
Alignment explanation
Indices: 44045375--44045409 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44045365 AGGTATGTTT
* *
44045375 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
44045393 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
44045410 TCATTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:44045979 original size:28 final size:28
Alignment explanation
Indices: 44045941--44046058 Score: 182
Period size: 28 Copynumber: 4.1 Consensus size: 28
44045931 AAAACCCTAA
44045941 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAA-CCTAACCTAAATTAATTAAAAAC
* * *
44045970 CCTTATCTAACCTAAATTAACTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
44045998 CCTAACCTAACCTAAATTAATTAAAAAC
1 CCTAACCTAACCTAAATTAATTAAAAAC
44046026 CCTAAACCTAACCTAAAATTAATTAAAAAC
1 CCT-AACCTAACCT-AAATTAATTAAAAAC
44046056 CCT
1 CCT
44046059 GAAGTCCTGG
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
28 49 0.60
29 14 0.17
30 18 0.22
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.25
Consensus pattern (28 bp):
CCTAACCTAACCTAAATTAATTAAAAAC
Found at i:44047314 original size:130 final size:130
Alignment explanation
Indices: 44047081--44047450 Score: 715
Period size: 130 Copynumber: 2.9 Consensus size: 130
44047071 ATATAAGTTG
44047081 AAAAAA-TTATTTCTTACATGACCTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAA
1 AAAAAATTTATTTCTTACATGACCTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAA
44047145 TTTCTTCTCAAATAGCATCCTCGTAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAA
66 TTTCTTCTCAAATAGCATCCTCGTAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAA
44047210 AAAAAATTTATTTCTTACATGACCTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAA
1 AAAAAATTTATTTCTTACATGACCTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAA
44047275 TTTCTTCTCAAATAGCATCCTCGTAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAA
66 TTTCTTCTCAAATAGCATCCTCGTAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAA
44047340 AAAAAATTTATTTCTTACATGACCTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAA
1 AAAAAATTTATTTCTTACATGACCTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAA
* *
44047405 TTTCTTCTCAAATAGCATCCTGGTAGAAGCGATTTTATACTATTTG
66 TTTCTTCTCAAATAGCATCCTCGTAGAAACGATTTTATACTATTTG
44047451 ACCAGAGACG
Statistics
Matches: 238, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
129 6 0.03
130 232 0.97
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (130 bp):
AAAAAATTTATTTCTTACATGACCTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAA
TTTCTTCTCAAATAGCATCCTCGTAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAA
Found at i:44051565 original size:31 final size:31
Alignment explanation
Indices: 44051519--44051588 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
44051509 TTGAAAAATA
* * *
44051519 AAAACTCAGGAACTAATTTGAATATTAAAGC
1 AAAACTCAGGAACTAAATTAAAAATTAAAGC
* *
44051550 AAGACTCA-GATACTAAATTAAAAATTAAAGG
1 AAAACTCAGGA-ACTAAATTAAAAATTAAAGC
44051581 AAAACTCA
1 AAAACTCA
44051589 ATTACCAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (31 bp):
AAAACTCAGGAACTAAATTAAAAATTAAAGC
Found at i:44054098 original size:35 final size:35
Alignment explanation
Indices: 44054050--44054147 Score: 138
Period size: 28 Copynumber: 3.0 Consensus size: 35
44054040 GAGTTATGAA
*
44054050 ATAGGGGAGCAAGTTAACAAGATTTGAATTAGTTT
1 ATAGGGGAACAAGTTAACAAGATTTGAATTAGTTT
44054085 ATAGGGGAACAAGTTAAC-A-A---G-A-TAGTTT
1 ATAGGGGAACAAGTTAACAAGATTTGAATTAGTTT
44054113 ATAGGGGAACAAGTTAACAAGATTTGAATTAGTTT
1 ATAGGGGAACAAGTTAACAAGATTTGAATTAGTTT
44054148 TACTCATGCA
Statistics
Matches: 55, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
28 24 0.44
29 2 0.04
30 2 0.04
33 2 0.04
34 2 0.04
35 23 0.42
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (35 bp):
ATAGGGGAACAAGTTAACAAGATTTGAATTAGTTT
Found at i:44098223 original size:45 final size:45
Alignment explanation
Indices: 44098159--44098257 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 45
44098149 ATTTTGACCT
*
44098159 TAATTATATAATTTGTTGACCAATAAAACCGGGTAAGTAGAAAAC
1 TAATTATATAATTTGTTGACCAATAAAACCGGCTAAGTAGAAAAC
*
44098204 TAATTATATTATTTGTTGACCAATAAAACCGGCTAAGTAGAAAAC
1 TAATTATATAATTTGTTGACCAATAAAACCGGCTAAGTAGAAAAC
44098249 TAAGTTATA
1 TAA-TTATA
44098258 AAATGAGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 46 0.90
46 5 0.10
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (45 bp):
TAATTATATAATTTGTTGACCAATAAAACCGGCTAAGTAGAAAAC
Found at i:44100855 original size:65 final size:65
Alignment explanation
Indices: 44100773--44100904 Score: 237
Period size: 65 Copynumber: 2.0 Consensus size: 65
44100763 GTCCCTTCCC
* *
44100773 AATCAATTAATGACATGTTAGCTAATTTTTACATGTCATTTACACTTCATTTAATTAGATTTTTT
1 AATCAATTAATGACATGTCAGCTAATTTTTACATGTCATTTACACCTCATTTAATTAGATTTTTT
*
44100838 AATCATTTAATGACATGTCAGCTAATTTTTACATGTCATTTACACCTCATTTAATTAGATTTTTT
1 AATCAATTAATGACATGTCAGCTAATTTTTACATGTCATTTACACCTCATTTAATTAGATTTTTT
44100903 AA
1 AA
44100905 CCATAAATCC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.46
Consensus pattern (65 bp):
AATCAATTAATGACATGTCAGCTAATTTTTACATGTCATTTACACCTCATTTAATTAGATTTTTT
Found at i:44100878 original size:33 final size:33
Alignment explanation
Indices: 44100779--44100879 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
44100769 TCCCAATCAA
44100779 TTAATGACATGTTAGCTAATTTTTACATGTCAT
1 TTAATGACATGTTAGCTAATTTTTACATGTCAT
* **
44100812 TTACACT-TCAT-TTAATTAGATTTTTTA-A--TCAT
1 TTA-A-TGACATGTTAGCTA-A-TTTTTACATGTCAT
*
44100844 TTAATGACATGTCAGCTAATTTTTACATGTCAT
1 TTAATGACATGTTAGCTAATTTTTACATGTCAT
44100877 TTA
1 TTA
44100880 CACCTCATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
30 7 0.13
31 6 0.12
32 11 0.21
33 15 0.29
34 6 0.12
35 7 0.13
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.48
Consensus pattern (33 bp):
TTAATGACATGTTAGCTAATTTTTACATGTCAT
Found at i:44101095 original size:62 final size:60
Alignment explanation
Indices: 44101027--44101218 Score: 224
Period size: 62 Copynumber: 3.1 Consensus size: 60
44101017 CATGTCTCTG
* * * *
44101027 CCCTGCTGCTATTAAATTTTTTTCGGCAACTGCATTGCTACCTCTTCACGTCTCTTTGCGAC
1 CCCTGCTGCTATT-AATTTTTTTCGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGC-AA
* * *
44101089 CCCTGCTGCTGTT-ATTTTTTTCGGCAACTGTTTTGCTGCCTTTTCACGTCTCTCTGCAA
1 CCCTGCTGCTATTAATTTTTTTCGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGCAA
* ** * *
44101148 CCCTGCTGCTATTATTTTTTTTTCCAACAACTGCTTTGCTGCCTCTTCATGTCTCTCTACAA
1 CCCTGCTGCTATTA-ATTTTTTT-CGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGCAA
44101210 CTCCTGCTG
1 C-CCTGCTG
44101219 ATTTGCTTTG
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
59 13 0.12
60 39 0.35
61 7 0.06
62 45 0.41
63 7 0.06
ACGTcount: A:0.14, C:0.31, G:0.14, T:0.42
Consensus pattern (60 bp):
CCCTGCTGCTATTAATTTTTTTCGGCAACTGCTTTGCTGCCTCTTCACGTCTCTCTGCAA
Found at i:44106547 original size:4 final size:4
Alignment explanation
Indices: 44106538--44106565 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
44106528 TGTTGAAATT
44106538 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44106566 GATCCAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:44114851 original size:20 final size:18
Alignment explanation
Indices: 44114814--44114853 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
44114804 GTAGATGACA
*
44114814 TATTTTTTATTTTTATTT
1 TATTTTTTATTTTAATTT
44114832 TATTTTTTATATATTAATTT
1 TATTTTTTAT-T-TTAATTT
44114852 TA
1 TA
44114854 ATATAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 1 0.05
20 8 0.42
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTTTTTATTTTAATTT
Found at i:44114894 original size:51 final size:52
Alignment explanation
Indices: 44114817--44114920 Score: 192
Period size: 51 Copynumber: 2.0 Consensus size: 52
44114807 GATGACATAT
*
44114817 TTTTTATTTTTATTTTATTTTTTATATATTAATTTTAATATAAACTACATTA
1 TTTTTATTTTAATTTTATTTTTTATATATTAATTTTAATATAAACTACATTA
44114869 TTTTT-TTTTAATTTTATTTTTTATATATTAATTTTAATATAAACTACATTA
1 TTTTTATTTTAATTTTATTTTTTATATATTAATTTTAATATAAACTACATTA
44114920 T
1 T
44114921 GTAAAGTAGA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 46 0.90
52 5 0.10
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (52 bp):
TTTTTATTTTAATTTTATTTTTTATATATTAATTTTAATATAAACTACATTA
Found at i:44119054 original size:24 final size:24
Alignment explanation
Indices: 44119026--44119082 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
44119016 TTATTTTTTA
*
44119026 AATATGATTTTGAATGAAAA-ATG
1 AATATAATTTTGAATGAAAAGATG
* *
44119049 ACATATAATTTTGTATTAAAAGATG
1 A-ATATAATTTTGAATGAAAAGATG
44119074 AATATAATT
1 AATATAATT
44119083 ATTTTAACAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 24 0.83
25 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (24 bp):
AATATAATTTTGAATGAAAAGATG
Found at i:44120359 original size:10 final size:9
Alignment explanation
Indices: 44120330--44120358 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
44120320 AAACAATAGC
44120330 TTCTTTTTT
1 TTCTTTTTT
44120339 TTCTTTTTT
1 TTCTTTTTT
44120348 TTCTTTTTT
1 TTCTTTTTT
44120357 TT
1 TT
44120359 TTTAATCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:44123552 original size:11 final size:11
Alignment explanation
Indices: 44123532--44123628 Score: 52
Period size: 11 Copynumber: 9.4 Consensus size: 11
44123522 CAAAAATTAA
44123532 AAAAAGTATTTT
1 AAAAA-TATTTT
44123544 AAAAATATTTT
1 AAAAATATTTT
44123555 --AAA-A-TTT
1 AAAAATATTTT
44123562 AAAAAGTATTTT
1 AAAAA-TATTTT
**
44123574 AAAAA-AAATT
1 AAAAATATTTT
44123584 --AAA-A-TTT
1 AAAAATATTTT
*
44123591 AAAAA-ATTTAA
1 AAAAATATTT-T
44123602 AAAAAGTATTTT
1 AAAAA-TATTTT
*
44123614 AAAAGTATTTT
1 AAAAATATTTT
44123625 AAAA
1 AAAA
44123629 TTAAAAAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 23
0.70 0.06 0.24
Matches are distributed among these distances:
7 5 0.07
8 5 0.07
9 10 0.15
10 5 0.07
11 22 0.32
12 17 0.25
13 4 0.06
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:44123564 original size:18 final size:19
Alignment explanation
Indices: 44123541--44123577 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
44123531 AAAAAAGTAT
44123541 TTTAAAAA-TATTTTAAAA
1 TTTAAAAAGTATTTTAAAA
44123559 TTTAAAAAGTATTTTAAAA
1 TTTAAAAAGTATTTTAAAA
44123578 AAAATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TTTAAAAAGTATTTTAAAA
Found at i:44123568 original size:30 final size:30
Alignment explanation
Indices: 44123532--44123617 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
44123522 CAAAAATTAA
44123532 AAAAAGTATTTTAAAAATATTTTAAAATTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTT
**
44123562 AAAAAGTATTTTAAAAA-AAATTAAAATTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTT
*
44123591 AAAAA--ATTTAAAAAAAGTATTTTAAAA
1 AAAAAGTATTT-TAAAAA-TATTTTAAAA
44123618 GTATTTTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 15 0.31
30 24 0.50
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTT
Found at i:44123605 original size:18 final size:19
Alignment explanation
Indices: 44123541--44123604 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 19
44123531 AAAAAAGTAT
*
44123541 TTTAAAAATATTT-TAAAA
1 TTTAAAAATATTTAAAAAA
44123559 TTTAAAAAGTATTTTAAAAAAA
1 TTTAAAAA-TA-TTT-AAAAAA
*
44123581 ATT--AAA-ATTTAAAAAA
1 TTTAAAAATATTTAAAAAA
44123597 TTTAAAAA
1 TTTAAAAA
44123605 AAGTATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
16 8 0.22
17 3 0.08
18 12 0.32
19 2 0.05
20 6 0.16
22 6 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TTTAAAAATATTTAAAAAA
Found at i:44133029 original size:27 final size:24
Alignment explanation
Indices: 44132995--44133064 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 24
44132985 NNNNNNNNNT
44132995 ATATTACAATATTCATACAAAACTATA
1 ATATTACAATATTCATACAAAA--A-A
44133022 ATATTACAATATTCATAC--AAAA
1 ATATTACAATATTCATACAAAAAA
44133044 A-ATTACAATATTCATACAAAA
1 ATATTACAATATTCATACAAAA
44133065 TACTAATCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
21 16 0.39
22 2 0.05
23 3 0.07
25 2 0.05
27 18 0.44
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATTACAATATTCATACAAAAAA
Found at i:44133088 original size:48 final size:48
Alignment explanation
Indices: 44132997--44133090 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
44132987 NNNNNNNTAT
* * **
44132997 ATTACAATATTCATACAAAACTATAATATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAACTATAATACTAAAATATAAATACAAAAA
44133045 ATTACAATATTCATACAAAA-TACTAAT-CTAAAATTATAAATACAAA
1 ATTACAATATTCATACAAAACTA-TAATACTAAAA-TATAAATACAAA
44133091 TTTAATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 6 0.15
48 34 0.85
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (48 bp):
ATTACAATATTCATACAAAACTATAATACTAAAATATAAATACAAAAA
Found at i:44134142 original size:92 final size:89
Alignment explanation
Indices: 44134046--44134224 Score: 216
Period size: 92 Copynumber: 2.0 Consensus size: 89
44134036 ACCTCTCCTT
* * * *
44134046 TTTTTTGC-ACTCAATTGAGCACTTGAACTTTTAAAATGTATCAAAAAGGCCATCAAACTTCTTC
1 TTTTTT-CTACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCATCAAACTTCTTC
*
44134110 AAAGAAAAAGCAATTAAGCCCTTGCTTA
65 --A-AAAAAGCAATTAAGCCCCTGCTTA
* * * * * *
44134138 TTTTTTCTACTCAATTGGGTACTTGAACTTTCAACATGCATAAAAAAGACCCTCAAATTTTTTCA
1 TTTTTTCTACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCATCAAACTTCTTCA
44134203 AAAAAGCAATTAAGCCCCTGCT
66 AAAAAGCAATTAAGCCCCTGCT
44134225 CTTATTAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
89 21 0.28
90 1 0.01
91 1 0.01
92 52 0.69
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (89 bp):
TTTTTTCTACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCATCAAACTTCTTCA
AAAAAGCAATTAAGCCCCTGCTTA
Found at i:44135518 original size:51 final size:51
Alignment explanation
Indices: 44135437--44135650 Score: 347
Period size: 51 Copynumber: 4.2 Consensus size: 51
44135427 ACATATGATG
* *
44135437 ACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
* * * *
44135488 ACTTGTCACTTGTTACTGATCAGATAAGTGTAACTGAAGCTATCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
*
44135539 ACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
* *
44135590 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATC
1 ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
44135641 ACTTGTCACT
1 ACTTGTCACT
44135651 GTTCAGAAGT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 149 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
ACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
Found at i:44141792 original size:51 final size:51
Alignment explanation
Indices: 44141736--44142053 Score: 501
Period size: 51 Copynumber: 6.2 Consensus size: 51
44141726 TTACGTATGG
* * * *
44141736 TCACTTATCACTTGTCCCTGATCAGATAAGTATAGCTAAAGCTACCAGTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* *
44141787 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* *
44141838 TCACTTGCCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
*
44141889 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACATA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* * * *
44141940 TCACTTGCCACTTGTCACTGATAAGATAAGTGTAGCAAAAGCTACCACTGA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* *
44141991 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
44142042 TCACTTGTCACT
1 TCACTTGTCACT
44142054 GATCAGAAGT
Statistics
Matches: 243, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 243 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
Found at i:44142985 original size:26 final size:26
Alignment explanation
Indices: 44142956--44143010 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
44142946 TTTTATAAAA
*
44142956 TTTTAT-ATTTTCTAGAT-TTTGTATTT
1 TTTTATAATTTT-TA-ATATTTGAATTT
*
44142982 TTTTCTAATTTTTAATATTTGAATTT
1 TTTTATAATTTTTAATATTTGAATTT
44143008 TTT
1 TTT
44143011 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 2 0.08
26 18 0.72
27 5 0.20
ACGTcount: A:0.22, C:0.04, G:0.05, T:0.69
Consensus pattern (26 bp):
TTTTATAATTTTTAATATTTGAATTT
Found at i:44147742 original size:18 final size:19
Alignment explanation
Indices: 44147698--44147744 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
44147688 CAAATTTTTA
*
44147698 ACTTTTTTTTAAATATTTG
1 ACTTATTTTTAAATATTTG
* * *
44147717 ACTAATTTTTAATTGTTT-
1 ACTTATTTTTAAATATTTG
44147735 ACTTATTTTT
1 ACTTATTTTT
44147745 GGATCATTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (19 bp):
ACTTATTTTTAAATATTTG
Found at i:44152469 original size:3 final size:3
Alignment explanation
Indices: 44152461--44152485 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44152451 ACTCACTTTT
44152461 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
44152486 ACAGTGAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:44154833 original size:16 final size:16
Alignment explanation
Indices: 44154812--44154844 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44154802 TAAGGGCATT
*
44154812 AAATGTATTTTTAACA
1 AAATGTACTTTTAACA
44154828 AAATGTACTTTTAACA
1 AAATGTACTTTTAACA
44154844 A
1 A
44154845 TTAAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (16 bp):
AAATGTACTTTTAACA
Found at i:44158146 original size:41 final size:43
Alignment explanation
Indices: 44158085--44158168 Score: 154
Period size: 41 Copynumber: 2.0 Consensus size: 43
44158075 TGTGTTCAAT
44158085 TTCTCAATTTATTCCATTATTTTTGTTGCTTGTTGCTTAATCG
1 TTCTCAATTTATTCCATTATTTTTGTTGCTTGTTGCTTAATCG
44158128 TTCTCAA-TT-TTCCATTATTTTTGTTGCTTGTTGCTTAATCG
1 TTCTCAATTTATTCCATTATTTTTGTTGCTTGTTGCTTAATCG
44158169 GGTCGATTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 32 0.78
42 2 0.05
43 7 0.17
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.56
Consensus pattern (43 bp):
TTCTCAATTTATTCCATTATTTTTGTTGCTTGTTGCTTAATCG
Found at i:44160915 original size:3 final size:3
Alignment explanation
Indices: 44160909--44160943 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
44160899 TGTTAAATAG
44160909 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
44160944 TTTGTTACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:44161475 original size:21 final size:21
Alignment explanation
Indices: 44161445--44161488 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
44161435 AATTAAGTAT
44161445 TTGGTCTAAGTAAACTTAGAA
1 TTGGTCTAAGTAAACTTAGAA
* * *
44161466 TTGGTTTAAGTCAACTTCGAA
1 TTGGTCTAAGTAAACTTAGAA
44161487 TT
1 TT
44161489 TAACCAGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (21 bp):
TTGGTCTAAGTAAACTTAGAA
Found at i:44164043 original size:18 final size:18
Alignment explanation
Indices: 44164020--44164062 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
44164010 TTTTTTTAAA
* *
44164020 AATTTTATAAGTATTTTG
1 AATTTTAAAAATATTTTG
44164038 AATTTTTAAAAATATTTTG
1 AA-TTTTAAAAATATTTTG
*
44164057 GATTTT
1 AATTTT
44164063 TTGTTGAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (18 bp):
AATTTTAAAAATATTTTG
Found at i:44167602 original size:21 final size:21
Alignment explanation
Indices: 44167578--44167619 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44167568 CTTTTTGTTC
*
44167578 AATTAATTATCGGAACTTTAA
1 AATTAATTAACGGAACTTTAA
**
44167599 AATTTCTTAACGGAACTTTAA
1 AATTAATTAACGGAACTTTAA
44167620 TTCTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (21 bp):
AATTAATTAACGGAACTTTAA
Found at i:44169169 original size:45 final size:46
Alignment explanation
Indices: 44169076--44169170 Score: 124
Period size: 44 Copynumber: 2.1 Consensus size: 46
44169066 TAAATTTTAA
* *
44169076 AAAATTATAAAAATATATAAAATTTATTTTTAAAATTAAAGATCATT
1 AAAATTATAAAAATATATAAAA-TTATTTTTAAAATTAAAAATAATT
44169123 AAAATT-TAAAAAGTATA-AAAA-TATTTTTAAAATTAAAAAATAATT
1 AAAATTATAAAAA-TATATAAAATTATTTTTAAAATT-AAAAATAATT
44169168 AAA
1 AAA
44169171 TGCTTACATG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
44 13 0.30
45 11 0.25
46 10 0.23
47 10 0.23
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (46 bp):
AAAATTATAAAAATATATAAAATTATTTTTAAAATTAAAAATAATT
Found at i:44175562 original size:29 final size:29
Alignment explanation
Indices: 44175530--44175594 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
44175520 TTAATCTTTT
*
44175530 TACTTT-AATTTGATGAATTTTAGTCCTTA
1 TACTTTGAA-TTGATCAATTTTAGTCCTTA
*
44175559 TACTTTTGAATTGGTCAATTTTAGTCCTTA
1 TAC-TTTGAATTGATCAATTTTAGTCCTTA
44175589 TACTTT
1 TACTTT
44175595 TTGAATTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 6 0.19
30 24 0.75
31 2 0.06
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (29 bp):
TACTTTGAATTGATCAATTTTAGTCCTTA
Found at i:44190012 original size:35 final size:35
Alignment explanation
Indices: 44189952--44190019 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
44189942 CAGTAAAATA
*
44189952 TTTTCCGTAAAATGATTTCAGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTCAGGGAAAATATTTTAC
* *
44189987 TTTTCTGTAAAATGATTT-ACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTCA-GGGAAAATATTTT
44190020 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTCAGGGAAAATATTTTAC
Found at i:44191362 original size:27 final size:28
Alignment explanation
Indices: 44191307--44191371 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 28
44191297 ATAAAAAATA
*
44191307 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
44191335 ACCAAAATATTATAA-ATTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
44191362 ACCAAAATAT
1 ACCAAAATAT
44191372 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 21 0.58
28 15 0.42
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAACATTTTTTTATTT
Found at i:44191463 original size:27 final size:27
Alignment explanation
Indices: 44191424--44191509 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
44191414 GCCTGATCAG
* * * *
44191424 GCCAATCACATTGGAGGTGCCAAAGGT
1 GCCAATGAGATTGGAGGTACCAATGGT
44191451 GCCAATGAGATTGGCA-GTACCAATGGT
1 GCCAATGAGATTGG-AGGTACCAATGGT
* * *
44191478 GCCAAAGAGATTGGCGGCACCAATGGT
1 GCCAATGAGATTGGAGGTACCAATGGT
44191505 GCCAA
1 GCCAA
44191510 AGGACTAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.17
Consensus pattern (27 bp):
GCCAATGAGATTGGAGGTACCAATGGT
Found at i:44191510 original size:27 final size:27
Alignment explanation
Indices: 44191443--44191511 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
44191433 ATTGGAGGTG
* * *
44191443 CCAAAGGTGCCAATGAGATTGGCAGTA
1 CCAATGGTGCCAAAGAGATTGGCAGCA
*
44191470 CCAATGGTGCCAAAGAGATTGGCGGCA
1 CCAATGGTGCCAAAGAGATTGGCAGCA
44191497 CCAATGGTGCCAAAG
1 CCAATGGTGCCAAAG
44191512 GACTAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.32, C:0.22, G:0.30, T:0.16
Consensus pattern (27 bp):
CCAATGGTGCCAAAGAGATTGGCAGCA
Found at i:44192132 original size:37 final size:37
Alignment explanation
Indices: 44192091--44192174 Score: 168
Period size: 37 Copynumber: 2.3 Consensus size: 37
44192081 NNNNNNNNNN
44192091 AGAGTTATTAAATGAGAATAGTTTATTAAATTAAAAT
1 AGAGTTATTAAATGAGAATAGTTTATTAAATTAAAAT
44192128 AGAGTTATTAAATGAGAATAGTTTATTAAATTAAAAT
1 AGAGTTATTAAATGAGAATAGTTTATTAAATTAAAAT
44192165 AGAGTTATTA
1 AGAGTTATTA
44192175 CTTAATTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (37 bp):
AGAGTTATTAAATGAGAATAGTTTATTAAATTAAAAT
Found at i:44192179 original size:18 final size:19
Alignment explanation
Indices: 44192091--44192174 Score: 100
Period size: 18 Copynumber: 4.5 Consensus size: 19
44192081 NNNNNNNNNN
* *
44192091 AGAGTTATTAAATGAGAAT
1 AGAGTTATTAAATTAAAAT
*
44192110 AG-TTTATTAAATTAAAAT
1 AGAGTTATTAAATTAAAAT
* *
44192128 AGAGTTATTAAATGAGAAT
1 AGAGTTATTAAATTAAAAT
*
44192147 AG-TTTATTAAATTAAAAT
1 AGAGTTATTAAATTAAAAT
44192165 AGAGTTATTA
1 AGAGTTATTA
44192175 CTTAATTAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
18 30 0.57
19 23 0.43
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (19 bp):
AGAGTTATTAAATTAAAAT
Found at i:44192359 original size:27 final size:26
Alignment explanation
Indices: 44192321--44192397 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 26
44192311 CATTTTAGTC
*
44192321 CTTTCGCACCATTGGTGCTTCCAACCT
1 CTTTGGCACCATTGGTGC-TCCAACCT
* *
44192348 CTTTGGCACCATTGGTGCGCCAATCT
1 CTTTGGCACCATTGGTGCTCCAACCT
* *
44192374 CATTGGCACCTTTGGTGCCTCCAA
1 CTTTGGCACCATTGGTG-CTCCAA
44192398 TGTGATTGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.16, C:0.34, G:0.19, T:0.31
Consensus pattern (26 bp):
CTTTGGCACCATTGGTGCTCCAACCT
Found at i:44192379 original size:26 final size:27
Alignment explanation
Indices: 44192326--44192391 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 27
44192316 TAGTCCTTTC
* *
44192326 GCACCATTGGTGCTTCCAACCTCTTTG
1 GCACCATTGGTGCTGCCAACCTCATTG
*
44192353 GCACCATTGGTGC-GCCAATCTCATTG
1 GCACCATTGGTGCTGCCAACCTCATTG
*
44192379 GCACCTTTGGTGC
1 GCACCATTGGTGC
44192392 CTCCAATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
26 22 0.63
27 13 0.37
ACGTcount: A:0.15, C:0.32, G:0.23, T:0.30
Consensus pattern (27 bp):
GCACCATTGGTGCTGCCAACCTCATTG
Found at i:44192500 original size:26 final size:28
Alignment explanation
Indices: 44192448--44192505 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
44192438 TTTTTTTTGT
44192448 ATATTTTGGTAAATAAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAATTTATA
44192476 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAATTTATA
44192502 ATAT
1 ATAT
44192506 CTTGATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 9 0.30
27 7 0.23
28 14 0.47
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAATTTATA
Found at i:44200306 original size:32 final size:29
Alignment explanation
Indices: 44200269--44200373 Score: 77
Period size: 32 Copynumber: 3.4 Consensus size: 29
44200259 ATTTTTTTAA
44200269 ATGTATACAATTGAATCAAAATCAAAAGCTTT
1 ATGTATACAATTGAA-CAAAATC-AAAG-TTT
* * *
44200301 ATGTATGC-ATTCGAACCACAATCGAAATTTT
1 ATGTATACAATT-GAA-CAAAATC-AAAGTTT
* * *
44200332 ATGCATATAATTGTACAAAATCAAAGTTT
1 ATGTATACAATTGAACAAAATCAAAGTTT
* *
44200361 ATGTGTATAATTG
1 ATGTATACAATTG
44200374 CACATTACAT
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
29 17 0.29
30 6 0.10
31 13 0.22
32 22 0.38
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (29 bp):
ATGTATACAATTGAACAAAATCAAAGTTT
Found at i:44201855 original size:14 final size:15
Alignment explanation
Indices: 44201836--44201868 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
44201826 TTAATTGATT
44201836 TTTAATTAAAT-AAA
1 TTTAATTAAATGAAA
*
44201850 TTTAATTAATTGAAA
1 TTTAATTAAATGAAA
44201865 TTTA
1 TTTA
44201869 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TTTAATTAAATGAAA
Found at i:44201867 original size:15 final size:15
Alignment explanation
Indices: 44201824--44201868 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
44201814 CAGCCAAGTA
**
44201824 AATTAATTGATTTTT
1 AATTAATTGAAATTT
*
44201839 AATTAAAT-AAATTT
1 AATTAATTGAAATTT
44201853 AATTAATTGAAATTT
1 AATTAATTGAAATTT
44201868 A
1 A
44201869 TAAATTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (15 bp):
AATTAATTGAAATTT
Found at i:44205073 original size:16 final size:16
Alignment explanation
Indices: 44205052--44205097 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
44205042 TGCAACAACC
*
44205052 AAGAAATATTATAAAG
1 AAGAAATATTAAAAAG
*
44205068 AAGAAAAAGTTAAAAAG
1 AAGAAATA-TTAAAAAG
*
44205085 CAGAAATATTAAA
1 AAGAAATATTAAA
44205098 CTAACCAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.20
Consensus pattern (16 bp):
AAGAAATATTAAAAAG
Found at i:44217896 original size:23 final size:24
Alignment explanation
Indices: 44217858--44217902 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
44217848 CATTTTTCAC
*
44217858 TCATTTATATTCTT-AATATCATA
1 TCATTTAAATTCTTAAATATCATA
*
44217881 TCATTTAAATTGTTAAATATCA
1 TCATTTAAATTCTTAAATATCA
44217903 AAAATCAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (24 bp):
TCATTTAAATTCTTAAATATCATA
Found at i:44218709 original size:13 final size:13
Alignment explanation
Indices: 44218691--44218715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44218681 CATTTAAATT
44218691 TTTTTATAATTTA
1 TTTTTATAATTTA
44218704 TTTTTATAATTT
1 TTTTTATAATTT
44218716 TTAATAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATAATTTA
Found at i:44222123 original size:122 final size:123
Alignment explanation
Indices: 44221981--44222225 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 123
44221971 TTCTTTTTTT
44221981 TCTTTTTCATAGGCAAAAAGCTTAAAGGAAGTGGCGAATGGCAGGGGAGAAGTCAAATCAATTTT
1 TCTTTTTCATAGGCAAAAAGCTTAAAGGAAGTGGCGAATGGCAGGGGAGAAGTCAAATCAATTTT
44222046 TAGGGAAGTCGAATAAAATTTAATTTTTTTTAGTCTATATATTTATAATTTTTAAATA
66 TAGGGAAGTCGAATAAAATTTAATTTTTTTTAGTCTATATATTTATAATTTTTAAATA
44222104 TCTTTTTCAT-GGCAAAAAGCTTAAAGGAAGTGGCGAATGGCAGGGGAGAAGTCAAATCAATTTT
1 TCTTTTTCATAGGCAAAAAGCTTAAAGGAAGTGGCGAATGGCAGGGGAGAAGTCAAATCAATTTT
44222168 TAGGGAAGTCGAATAAAATTTAATTTTTTTTAGTCTATATATTTATAATTTTTAAATA
66 TAGGGAAGTCGAATAAAATTTAATTTTTTTTAGTCTATATATTTATAATTTTTAAATA
44222226 ATTAAATTAA
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 112 0.92
123 10 0.08
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (123 bp):
TCTTTTTCATAGGCAAAAAGCTTAAAGGAAGTGGCGAATGGCAGGGGAGAAGTCAAATCAATTTT
TAGGGAAGTCGAATAAAATTTAATTTTTTTTAGTCTATATATTTATAATTTTTAAATA
Found at i:44227894 original size:28 final size:28
Alignment explanation
Indices: 44227838--44227894 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
44227828 GCATAAGTGT
*
44227838 ATATATATTATAAATATTTAATGTGAAA
1 ATATATATTATAAATATTTAATATGAAA
*
44227866 ATATATATTAT-AATATTATAATATTAAA
1 ATATATATTATAAATATT-TAATATGAAA
44227894 A
1 A
44227895 CTTAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATATATATTATAAATATTTAATATGAAA
Found at i:44235814 original size:101 final size:100
Alignment explanation
Indices: 44235548--44235832 Score: 509
Period size: 100 Copynumber: 2.8 Consensus size: 100
44235538 NNNNNNNNNN
44235548 CAACCATTGGCAGGCCACCACTAATTTTTTTTTACTTTTTTCGTATATTGGTACCGACCATTGAC
1 CAACCATTGGCAGGCCACCACTAATTTTTTTTTACTTTTTTCGTATATTGGTACCGACCATTGAC
44235613 AGACCAAATATAAAAAAAATCCAAAAATGTGGTGT
66 AGACCAAATATAAAAAAAATCCAAAAATGTGGTGT
44235648 CAACCATTGGCAGGCCACCACTAATTTTTTTTTACTTTTTTCGTATATTGGTACCGACCATTGAC
1 CAACCATTGGCAGGCCACCACTAATTTTTTTTTACTTTTTTCGTATATTGGTACCGACCATTGAC
44235713 AGACCAAATATAAAAAAAATCCAAAAATGTGGTGT
66 AGACCAAATATAAAAAAAATCCAAAAATGTGGTGT
* * *
44235748 CAACCATTGGCAGGCCACCACTAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTGA
1 CAACCATTGGCAGGCCACCACTAA-TTTTTTTTTACTTTTTTCGTATATTGGTACCGACCATTGA
*
44235813 CAGATCAAA-AGTAAAAAAAA
65 CAGACCAAATA-TAAAAAAAA
44235833 AAAATTTTTG
Statistics
Matches: 179, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
100 125 0.70
101 54 0.30
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (100 bp):
CAACCATTGGCAGGCCACCACTAATTTTTTTTTACTTTTTTCGTATATTGGTACCGACCATTGAC
AGACCAAATATAAAAAAAATCCAAAAATGTGGTGT
Found at i:44235980 original size:27 final size:27
Alignment explanation
Indices: 44235943--44235996 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
44235933 ACCAAAAGTA
44235943 AAAAAAAATTATTTCCCATAAAGGTGG
1 AAAAAAAATTATTTCCCATAAAGGTGG
44235970 AAAAAAAATTATTTCCCATAAAGGTGG
1 AAAAAAAATTATTTCCCATAAAGGTGG
44235997 TGCCGGCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (27 bp):
AAAAAAAATTATTTCCCATAAAGGTGG
Found at i:44243503 original size:28 final size:28
Alignment explanation
Indices: 44243447--44243503 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
44243437 GCATAAGTGT
*
44243447 ATATATATTATAAATATTTAATGTGAAA
1 ATATATATTATAAATATTTAATATGAAA
*
44243475 ATATATATTAT-AATATTATAATATTAAA
1 ATATATATTATAAATATT-TAATATGAAA
44243503 A
1 A
44243504 CTTAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATATATATTATAAATATTTAATATGAAA
Found at i:44248839 original size:28 final size:28
Alignment explanation
Indices: 44248783--44248839 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
44248773 GCATAAGTGT
*
44248783 ATATATATTATAAATATTTAATGTGAAA
1 ATATATATTATAAATATTTAATATGAAA
*
44248811 ATATATATTAT-AATATTATAATATTAAA
1 ATATATATTATAAATATT-TAATATGAAA
44248839 A
1 A
44248840 CTTAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATATATATTATAAATATTTAATATGAAA
Found at i:44248944 original size:6 final size:6
Alignment explanation
Indices: 44248887--44248965 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
44248877 AATAACAATC
* * * * * *
44248887 AAAGAAA AAAGAA ATAGAAA GAAAGAA ACAGAG AAAGCCA AACGAA ACAGAA
1 AAAG-AA AAAGAA AAAG-AA -AAAGAA AAAGAA AAAG-AA AAAGAA AAAGAA
*
44248939 AAAGAA AAAG-G AAAGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG
44248966 GAAGGAGAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
5 4 0.07
6 36 0.67
7 11 0.20
8 3 0.06
ACGTcount: A:0.72, C:0.06, G:0.20, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:44248977 original size:17 final size:17
Alignment explanation
Indices: 44248935--44248968 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44248925 CAAACGAAAC
44248935 AGAAAAAGAAAAAGGAA
1 AGAAAAAGAAAAAGGAA
44248952 AGAAAAAGAAAAAGGAA
1 AGAAAAAGAAAAAGGAA
44248969 GGAGAAAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AGAAAAAGAAAAAGGAA
Found at i:44249898 original size:24 final size:24
Alignment explanation
Indices: 44249871--44249917 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
44249861 ATTGAAATGG
44249871 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
44249895 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
44249918 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:44250127 original size:41 final size:40
Alignment explanation
Indices: 44250070--44250206 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
44250060 CGACTTCAAG
44250070 TCGATGAGACACTGGGTGTTAATTTGTTACTTCAGATTAAT
1 TCGATGAGACACTGGGTGTTAATTT-TTACTTCAGATTAAT
* ** * *
44250111 TCGATGAGGCACTGGGTGCCAA--TTTACTTCAGTTTAAC
1 TCGATGAGACACTGGGTGTTAATTTTTACTTCAGATTAAT
* *
44250149 T-GATGAGACATTGGGTGTTAATTAATTACTTC-GAATT-AT
1 TCGATGAGACACTGGGTGTTAATT-TTTACTTCAG-ATTAAT
* *
44250188 CCGATGAGGCACTGGGTGT
1 TCGATGAGACACTGGGTGT
44250207 CAAACTGGTG
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
37 16 0.21
38 14 0.18
39 3 0.04
40 24 0.32
41 19 0.25
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTTAATTTTTACTTCAGATTAAT
Found at i:44254571 original size:24 final size:25
Alignment explanation
Indices: 44254523--44254570 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
44254513 AAAATAACTT
*
44254523 AAAATTTATATATAATAATATTTTA
1 AAAATTTATATATAAAAATATTTTA
44254548 AAAATTTATAT-TAAAAAATATTT
1 AAAATTTATATAT-AAAAATATTT
44254571 ATGAGTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAATTTATATATAAAAATATTTTA
Found at i:44256813 original size:24 final size:25
Alignment explanation
Indices: 44256765--44256812 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
44256755 AAAATAACTT
*
44256765 AAAATTTATATATAATAATATTTTA
1 AAAATTTATATATAAAAATATTTTA
44256790 AAAATTTATAT-TAAAAAATATTT
1 AAAATTTATATAT-AAAAATATTT
44256813 ATGAGTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAATTTATATATAAAAATATTTTA
Found at i:44264918 original size:21 final size:20
Alignment explanation
Indices: 44264888--44264936 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
44264878 TCAAACTCAA
*
44264888 AGAAAGAGAAAAAAAGATACC
1 AGAAAAAGAAAAAAA-ATACC
* *
44264909 AGAAAAAGAAACAAATTACC
1 AGAAAAAGAAAAAAAATACC
44264929 AGTAAAAA
1 AG-AAAAA
44264937 TAAATGTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.67, C:0.10, G:0.14, T:0.08
Consensus pattern (20 bp):
AGAAAAAGAAAAAAAATACC
Found at i:44273371 original size:13 final size:13
Alignment explanation
Indices: 44273353--44273400 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
44273343 TTCAAAATTT
*
44273353 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
44273366 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* * *
44273379 TCTACAGCACTTT
1 TCAAAAGCACTTC
44273392 TCAAAAGCA
1 TCAAAAGCA
44273401 TTGCCAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:44280049 original size:21 final size:21
Alignment explanation
Indices: 44280023--44280065 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
44280013 TCCGCCACAT
44280023 CCGCAGTCGCTGGCTCAGCAG
1 CCGCAGTCGCTGGCTCAGCAG
44280044 CCGCAGTCGCTGGCTCAGCAG
1 CCGCAGTCGCTGGCTCAGCAG
44280065 C
1 C
44280066 TCCTTGGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.40, G:0.33, T:0.14
Consensus pattern (21 bp):
CCGCAGTCGCTGGCTCAGCAG
Found at i:44294800 original size:52 final size:51
Alignment explanation
Indices: 44294723--44294824 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 51
44294713 CTTCTCCTTA
* * * *
44294723 CTTATCTTACATCACTTGTTTTGAAACACACAACATT-TTGCAAAGCTAAAGC
1 CTTATCCTACATCACTCGTTTTGAAACA-A-AAAATTGCTGCAAAGCTAAAGC
44294775 CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
1 CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
44294825 TATGCATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
50 5 0.11
51 14 0.31
52 26 0.58
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (51 bp):
CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAGC
Found at i:44313644 original size:22 final size:24
Alignment explanation
Indices: 44313600--44313644 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
44313590 ATTATAGGTA
*
44313600 AATAATTATTTTAATTTACATTTAT
1 AATAATTAATTT-ATTTACATTTAT
44313625 AATAATTAATTT-TTTA-ATTT
1 AATAATTAATTTATTTACATTT
44313645 TCAACTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
25 11 0.58
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
AATAATTAATTTATTTACATTTAT
Found at i:44321535 original size:15 final size:16
Alignment explanation
Indices: 44321497--44321557 Score: 62
Period size: 15 Copynumber: 4.1 Consensus size: 16
44321487 AAACCCGTTG
*
44321497 TAAGTCTGTTAGCGGT
1 TAAGTCTGTTAGCAGT
44321513 T-AGTCTGTTAGCAGT
1 TAAGTCTGTTAGCAGT
44321528 TAAG-CTGTTA-C--T
1 TAAGTCTGTTAGCAGT
44321540 TAAAGT-TGTTAGCAGT
1 T-AAGTCTGTTAGCAGT
44321556 TA
1 TA
44321558 GAAAGTTAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
12 2 0.05
13 8 0.21
14 2 0.05
15 21 0.55
16 5 0.13
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (16 bp):
TAAGTCTGTTAGCAGT
Found at i:44327087 original size:2 final size:2
Alignment explanation
Indices: 44327080--44327106 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44327070 TTCGGTCATT
44327080 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
44327107 TAATAGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44327297 original size:11 final size:11
Alignment explanation
Indices: 44327283--44327321 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
44327273 TTTTTTTTTC
44327283 ATTATTTTGTT
1 ATTATTTTGTT
*
44327294 ATTATTTTGCT
1 ATTATTTTGTT
*
44327305 ATTATTTTATT
1 ATTATTTTGTT
44327316 ATTATT
1 ATTATT
44327322 ATTTGGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (11 bp):
ATTATTTTGTT
Found at i:44329707 original size:18 final size:18
Alignment explanation
Indices: 44329671--44329707 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44329661 AAGAATTATT
* *
44329671 TTTTATTTTTTAAAGATA
1 TTTTATTTTTAAAAAATA
44329689 TTTTATTTTTAAAAAATA
1 TTTTATTTTTAAAAAATA
44329707 T
1 T
44329708 CTGTTGACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTATTTTTAAAAAATA
Found at i:44331390 original size:18 final size:18
Alignment explanation
Indices: 44331367--44331411 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
44331357 GAATAGGTTT
44331367 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
44331385 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
44331403 TTAATTAAA
1 TTAATTAAA
44331412 CCTTGAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:44332999 original size:18 final size:19
Alignment explanation
Indices: 44332978--44333040 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
44332968 TATATAGATC
44332978 TATTTTTTTGAATAAT-TT
1 TATTTTTTTGAATAATATT
* *
44332996 TATTATATATTTTAATTATATT
1 TATT-T-T-TTTGAATAATATT
*
44333018 TATTTTTTTGACACAATATT
1 TATTTTTTTGA-ATAATATT
44333038 TAT
1 TAT
44333041 AACTATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
20 11 0.31
21 9 0.26
22 6 0.17
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TATTTTTTTGAATAATATT
Found at i:44335626 original size:31 final size:29
Alignment explanation
Indices: 44335562--44335630 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
44335552 ACAATAACGT
** *
44335562 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATGGCAAACAA
*
44335591 AAGTGACTAAAATGTAACGTGAGGCAAACAA
1 AAGTGACTAAAATGTAACAT--GGCAAACAA
44335622 AAGTGACTA
1 AAGTGACTA
44335631 TTTTTATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGGCAAACAA
Found at i:44337711 original size:25 final size:24
Alignment explanation
Indices: 44337653--44337735 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 24
44337643 ATACGGAACA
* *
44337653 AATA-CAGAGAGCACAAATGTGCT
1 AATATCAGAGAGCACCAACGTGCT
***
44337676 AA-A-CAGAGAGCACTGCCGTGCT
1 AATATCAGAGAGCACCAACGTGCT
44337698 AAATATCAGAGAGCACCAACGTGCT
1 -AATATCAGAGAGCACCAACGTGCT
44337723 AATATCAGAGAGC
1 AATATCAGAGAGC
44337736 GCGCTAAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
22 16 0.32
23 4 0.08
24 14 0.28
25 16 0.32
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.16
Consensus pattern (24 bp):
AATATCAGAGAGCACCAACGTGCT
Found at i:44338826 original size:40 final size:40
Alignment explanation
Indices: 44338764--44338858 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
44338754 TTTTTCTTTC
* *
44338764 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
44338805 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
44338845 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
44338859 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:44338884 original size:3 final size:3
Alignment explanation
Indices: 44338876--44338926 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
44338866 TCATATATAT
*
44338876 ATA ATA AT- ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44338919 AT- ATA ATA
1 ATA ATA ATA
44338927 TAAAAACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
2 12 0.30
3 28 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:44338887 original size:8 final size:8
Alignment explanation
Indices: 44338874--44338929 Score: 62
Period size: 8 Copynumber: 6.8 Consensus size: 8
44338864 TGTCATATAT
44338874 ATATAATA
1 ATATAATA
44338882 ATATAATA
1 ATATAATA
44338890 ATATAATATA
1 ATAT-A-ATA
44338900 ATATAAT-
1 ATATAATA
44338907 ATATTAATA
1 ATA-TAATA
44338916 ATA-ATATA
1 ATATA-ATA
44338924 ATATAA
1 ATATAA
44338930 AAACATAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 4 0.10
8 25 0.60
9 6 0.14
10 7 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:44338889 original size:5 final size:5
Alignment explanation
Indices: 44338868--44338929 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
44338858 TTTCTTTGTC
44338868 ATATA TATATA ATA-A TATAATA ATATA ATATA ATATA ATAT- AT-TA
1 ATATA -ATATA ATATA -AT-ATA ATATA ATATA ATATA ATATA ATATA
44338913 ATAATA ATATA ATATA A
1 AT-ATA ATATA ATATA A
44338930 AAACATAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
3 1 0.02
4 5 0.10
5 31 0.62
6 12 0.24
7 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:44338937 original size:13 final size:13
Alignment explanation
Indices: 44338879--44338938 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
44338869 TATATATATA
*
44338879 ATAATATAATAAT
1 ATAATATAAAAAT
44338892 ATAATATAATATAAT
1 ATAATATAA-A-AAT
* *
44338907 ATATTAATAATAAT
1 ATAAT-ATAAAAAT
*
44338921 ATAATATAAAAAC
1 ATAATATAAAAAT
44338934 ATAAT
1 ATAAT
44338939 TATTACTTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 20 0.53
14 7 0.18
15 7 0.18
16 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATAAAAAT
Found at i:44338938 original size:37 final size:37
Alignment explanation
Indices: 44338868--44338938 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
44338858 TTTCTTTGTC
* *
44338868 ATATATATATAATAATATAATAATATAATATAATATA
1 ATATATATATAATAATATAATAATAAAACATAATATA
44338905 ATATAT-TAATAATAATATAAT-ATAAAAACATAAT
1 ATATATAT-ATAATAATATAATAAT-AAAACATAAT
44338939 TATTACTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 3 0.10
37 27 0.90
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (37 bp):
ATATATATATAATAATATAATAATAAAACATAATATA
Found at i:44350500 original size:109 final size:104
Alignment explanation
Indices: 44350311--44350530 Score: 298
Period size: 109 Copynumber: 2.1 Consensus size: 104
44350301 GTGTGAATAT
44350311 GTTGCTTTAATTTGTTGTGTGCCTGTTTTTTTTCTAGAGATGCATGTTATTGTTTGAAGCTAAAT
1 GTTGCTTTAATTTGTTGTGTGCCTGTTTTTTTTCTAGAGAT-CATGTTATTGTTTGAAGCTAAAT
**
44350376 GTGCCGATGTATATTCCAGACCTACATGGGAAATATATTG
65 GTGCCGATGTATATTCCAGACCTACACAGGAAATATATTG
* * *
44350416 GTTGCTTTAATTTGTTGTGTGGCTGTTTGTTTTTTTTCTAGGGAT-ATGTATTGTTGTTTGAAGC
1 GTTGCTTTAATTTGTTGTGT-GC---CTGTTTTTTTTCTAGAGATCATG--TTATTGTTTGAAGC
* *
44350480 TAAATGTGCTGATGTTTATTCCAGACCTACACAGGAAATATATTG
60 TAAATGTGCCGATGTATATTCCAGACCTACACAGGAAATATATTG
*
44350525 ATTGCT
1 GTTGCT
44350531 GTAAATCCTT
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
105 20 0.20
106 2 0.02
107 3 0.03
109 76 0.75
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.45
Consensus pattern (104 bp):
GTTGCTTTAATTTGTTGTGTGCCTGTTTTTTTTCTAGAGATCATGTTATTGTTTGAAGCTAAATG
TGCCGATGTATATTCCAGACCTACACAGGAAATATATTG
Found at i:44353680 original size:2 final size:2
Alignment explanation
Indices: 44353667--44353696 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
44353657 GTGCAGACAT
*
44353667 AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
44353697 TTGTTTCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:44357683 original size:66 final size:66
Alignment explanation
Indices: 44357577--44357955 Score: 589
Period size: 66 Copynumber: 5.7 Consensus size: 66
44357567 CAGGTTGACC
* * *
44357577 TTGAGGAATCAAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTACAAAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
44357642 T
66 T
* * * * *
44357643 TTGAGGAATCCAAGAAAA-AGGAAAGTGCAAGGTTTGAATCTATTTTGCATAAGAAGGAACTTGA
1 TTGAGGAATCCAA-AAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGA
44357707 GT
65 GT
*
44357709 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCACAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
44357774 T
66 T
* * * *
44357775 TTGAGGAATCCAAGAAACAGGAAAGTGAAAGGTTTGAATCTACTTTCCACAAGATGCAAGTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
44357840 T
66 T
**
44357841 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTACGCAAAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
44357906 T
66 T
* *
44357907 TTGAGGAATCCAAAAAACAGGAAAGAGCAAGGTTTGAATCTACTTTGCA
1 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCA
44357956 CAGAAAGGAA
Statistics
Matches: 287, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
65 4 0.01
66 279 0.97
67 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (66 bp):
TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
T
Found at i:44358003 original size:21 final size:21
Alignment explanation
Indices: 44357964--44358015 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
44357954 CACAGAAAGG
* * *
44357964 AACTTCAGTTTCAGCAACTGC
1 AACTTGAGTTGCAGAAACTGC
*
44357985 AATTTGAGTTGCAGAAACTGC
1 AACTTGAGTTGCAGAAACTGC
44358006 AACTTGAGTT
1 AACTTGAGTT
44358016 TGAGGAATCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (21 bp):
AACTTGAGTTGCAGAAACTGC
Found at i:44358099 original size:66 final size:66
Alignment explanation
Indices: 44358006--44358154 Score: 253
Period size: 66 Copynumber: 2.3 Consensus size: 66
44357996 CAGAAACTGC
*
44358006 AACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAG
1 AACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAG
44358071 G
66 G
* * * *
44358072 AACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGTACAAGAAG
1 AACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAG
44358137 G
66 G
44358138 AACTTGAGTTTCAGGAA
1 AACTTGAGTTTCAGGAA
44358155 CTGCAAGTTG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 78 1.00
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (66 bp):
AACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAG
G
Found at i:44358125 original size:174 final size:174
Alignment explanation
Indices: 44357828--44358192 Score: 525
Period size: 174 Copynumber: 2.1 Consensus size: 174
44357818 TTTCCACAAG
* * *** *
44357828 ATGCAAGTTGAGTTTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTACGCAAAA
1 ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
* * **
44357893 GATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGCAAGGTTTGAATCTACTTTGCAC-
66 GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
*
44357957 AGAAAGGAACTTCAGTTTCAGCAACTGCAATTTGAGTTGCAGAAA
131 AG-AAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
* ** *
44358002 CTGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAA
1 ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
* *
44358067 GAAGGAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGTACA
66 GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
* * *
44358132 AGAAGGAACTTGAGTTTCAGGAACTGCAAGTTGAGTTTCAGAAA
131 AGAAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
*
44358176 ATGCAACTTGAGCTTGA
1 ATGCAACTTGAGTTTGA
44358193 AGAAACAAAA
Statistics
Matches: 168, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
174 166 0.99
175 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (174 bp):
ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
AGAAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
Found at i:44358167 original size:21 final size:21
Alignment explanation
Indices: 44358138--44358187 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
44358128 TACAAGAAGG
* *
44358138 AACTTGAGTTTCAGGAACTGC
1 AACTTGAGTTTCAGAAAATGC
*
44358159 AAGTTGAGTTTCAGAAAATGC
1 AACTTGAGTTTCAGAAAATGC
44358180 AACTTGAG
1 AACTTGAG
44358188 CTTGAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (21 bp):
AACTTGAGTTTCAGAAAATGC
Found at i:44358979 original size:33 final size:33
Alignment explanation
Indices: 44358931--44359059 Score: 213
Period size: 33 Copynumber: 3.9 Consensus size: 33
44358921 CAGGAGATCC
* *
44358931 CCGTTGTTGATGATGAATCAATGAATAAACCTA
1 CCGTTATTGAAGATGAATCAATGAATAAACCTA
*
44358964 CCGTTATTGAAGATGAATCAATGAATAAACATA
1 CCGTTATTGAAGATGAATCAATGAATAAACCTA
44358997 CCGTTATTGAAGATGAATCAATGAATAAACCTA
1 CCGTTATTGAAGATGAATCAATGAATAAACCTA
* *
44359030 CCATTATTGACGATGAATCAATGAATAAAC
1 CCGTTATTGAAGATGAATCAATGAATAAAC
44359060 TTACTGCTGA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (33 bp):
CCGTTATTGAAGATGAATCAATGAATAAACCTA
Found at i:44359646 original size:348 final size:348
Alignment explanation
Indices: 44359009--44359849 Score: 1502
Period size: 348 Copynumber: 2.4 Consensus size: 348
44358999 GTTATTGAAG
*
44359009 ATGAATCAATGAATAAACCTACCATTATTGACGATGAATCAATGAATAAACTTACTGCTGAAAAT
1 ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTACTGCTGAAAAT
*
44359074 GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCAAATACTATCTCAGGTTTGACTAAAGGCT
66 GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTGACTAAAGGCT
*
44359139 TTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACCGCAGCAGCA
131 TTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACCACAGCAGCA
* *
44359204 GGCCATGCCGAGTTCACTGAGTACAACCATGTCAGGGGTGACATCTGCAGTAAGATAAATCTCAA
196 GACCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGATAAATCTCAA
* *
44359269 CATTGTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGTTCCTGTGGT
261 CATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGTTCCTGTGGC
44359334 TCAGGAGATCCCTGTCATTGACA
326 TCAGGAGATCCCTGTCATTGACA
* * *
44359357 ATGAATCAATGAATAAACCTACCGTTACTGACGATGAATCAATGAATAAACTTACCGCTGAAAAA
1 ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTACTGCTGAAAAT
*
44359422 GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTTGAATACTATCTCAGGTTTGACTAAAGGCT
66 GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTGACTAAAGGCT
44359487 TTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACCACAGCAGCA
131 TTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACCACAGCAGCA
*
44359552 GACCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGATATATCTCAA
196 GACCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGATAAATCTCAA
44359617 CATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGTTCCTGTGGC
261 CATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGTTCCTGTGGC
*
44359682 TCAGGAGATCCCTGTTATTGACA
326 TCAGGAGATCCCTGTCATTGACA
* *
44359705 ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATAAATAGACTTACTGCTGAAAAT
1 ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTACTGCTGAAAAT
* * * * *
44359770 GAGCAGCTGAAGGTATTGTTAGACATTTTTTGCTTCGAATACTATCTTAGTTTTGACTAAAAGCT
66 GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTGACTAAAGGCT
44359835 TTCTTGATGTCATTT
131 TTCTTGATGTCATTT
44359850 TTAAACTTGG
Statistics
Matches: 469, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
348 469 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (348 bp):
ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTACTGCTGAAAAT
GAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTGACTAAAGGCT
TTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACCACAGCAGCA
GACCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGATAAATCTCAA
CATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGTTCCTGTGGC
TCAGGAGATCCCTGTCATTGACA
Found at i:44363850 original size:34 final size:34
Alignment explanation
Indices: 44363807--44363874 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
44363797 GATGCAGGGG
44363807 CCCTTTGTCATTCTTATCCAATGACTCTTTCATT
1 CCCTTTGTCATTCTTATCCAATGACTCTTTCATT
*
44363841 CCCTTTGTCATTCTTATCCAATGATTCTTTCATT
1 CCCTTTGTCATTCTTATCCAATGACTCTTTCATT
44363875 TTTCTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.18, C:0.28, G:0.06, T:0.49
Consensus pattern (34 bp):
CCCTTTGTCATTCTTATCCAATGACTCTTTCATT
Found at i:44380471 original size:3 final size:3
Alignment explanation
Indices: 44380463--44380509 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
44380453 AGGGTTAGAG
44380463 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
44380510 GGAGAAGAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:44380617 original size:47 final size:48
Alignment explanation
Indices: 44380547--44380641 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 48
44380537 AAGTGATTCC
44380547 GGTGTGCTATTGTAGAAACCCAGCCAAATTAAACACTTCTTGGTCTAA
1 GGTGTGCTATTGTAGAAACCCAGCCAAATTAAACACTTCTTGGTCTAA
44380595 GGTGTGCTA-TGTAGAAACCCAGCCAAATTAAACACTTCTTGGTCTAA
1 GGTGTGCTATTGTAGAAACCCAGCCAAATTAAACACTTCTTGGTCTAA
44380642 TGACAACCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 38 0.81
48 9 0.19
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (48 bp):
GGTGTGCTATTGTAGAAACCCAGCCAAATTAAACACTTCTTGGTCTAA
Found at i:44380904 original size:36 final size:35
Alignment explanation
Indices: 44380864--44380966 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 35
44380854 TTGAAAACCG
*
44380864 GCTTATGTTTTGTAATATTGTTGCTGGTATATTGTT
1 GCTTATGTTTTGTAA-ATGGTTGCTGGTATATTGTT
* *
44380900 GCTTATG-TTGGTATACATGGTTGTTGGTATATTGTT
1 GCTTATGTTTTGTA-A-ATGGTTGCTGGTATATTGTT
*
44380936 GCTTATGTTGTTATAAATGGTTGCTGGTATA
1 GCTTATGTT-TTGTAAATGGTTGCTGGTATA
44380967 CATGGCTAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
35 5 0.09
36 47 0.82
37 2 0.04
38 3 0.05
ACGTcount: A:0.18, C:0.06, G:0.25, T:0.50
Consensus pattern (35 bp):
GCTTATGTTTTGTAAATGGTTGCTGGTATATTGTT
Found at i:44380913 original size:20 final size:20
Alignment explanation
Indices: 44380888--44380950 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
44380878 ATATTGTTGC
44380888 TGGTATATTGTTGCTTATGT
1 TGGTATATTGTTGCTTATGT
*
44380908 TGGTATACATG--G--T-TGT
1 TGGTATA-TTGTTGCTTATGT
44380924 TGGTATATTGTTGCTTATGT
1 TGGTATATTGTTGCTTATGT
*
44380944 TGTTATA
1 TGGTATA
44380951 AATGGTTGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
15 2 0.06
16 10 0.29
17 2 0.06
19 2 0.06
20 16 0.47
21 2 0.06
ACGTcount: A:0.17, C:0.05, G:0.25, T:0.52
Consensus pattern (20 bp):
TGGTATATTGTTGCTTATGT
Found at i:44381191 original size:23 final size:24
Alignment explanation
Indices: 44381146--44381191 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
44381136 GGAAAAAAAA
*
44381146 ACATTTGTATTTCTCAATGCTCAC
1 ACATTTGTATTTCTCAATACTCAC
*
44381170 ACATTTGT-TTTTTCAATACTCA
1 ACATTTGTATTTCTCAATACTCA
44381192 TATGTTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.46
Consensus pattern (24 bp):
ACATTTGTATTTCTCAATACTCAC
Found at i:44381623 original size:21 final size:22
Alignment explanation
Indices: 44381592--44381647 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
44381582 TTTTCTCTTA
*
44381592 GGGCAGCTTGTTGA-TGAGTTG
1 GGGCAACTTGTTGACTGAGTTG
* *
44381613 GGGCAATTTG-TAACTGAGTTG
1 GGGCAACTTGTTGACTGAGTTG
*
44381634 GGGCAGCTTGTTGA
1 GGGCAACTTGTTGA
44381648 GTTGGGGTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.18, C:0.11, G:0.39, T:0.32
Consensus pattern (22 bp):
GGGCAACTTGTTGACTGAGTTG
Found at i:44381675 original size:21 final size:21
Alignment explanation
Indices: 44381645--44381695 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
44381635 GGCAGCTTGT
44381645 TGAGTTGGGGTA-CACTATTGC
1 TGAGTTGGGGTAGC-CTATTGC
* *
44381666 TGATTTGGGGTAGCCTGTTGC
1 TGAGTTGGGGTAGCCTATTGC
44381687 TGAGTTGGG
1 TGAGTTGGG
44381696 ACACCAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.14, C:0.12, G:0.39, T:0.35
Consensus pattern (21 bp):
TGAGTTGGGGTAGCCTATTGC
Found at i:44382395 original size:24 final size:25
Alignment explanation
Indices: 44382367--44382416 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
44382357 TAGTCACTAC
*
44382367 ATGTATA-TTATTAAAAAATACTCA
1 ATGTATACATATTAAAAAATACTCA
* *
44382391 ATGTATACATATTAGAAAATAGTCA
1 ATGTATACATATTAAAAAATACTCA
44382416 A
1 A
44382417 CACACCAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (25 bp):
ATGTATACATATTAAAAAATACTCA
Found at i:44385553 original size:65 final size:65
Alignment explanation
Indices: 44385472--44385616 Score: 209
Period size: 65 Copynumber: 2.2 Consensus size: 65
44385462 GCCATATCAA
* *
44385472 GACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAACAT
1 GACGCTCACAAAGAGCTACATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAACAG
* * * * * *
44385537 GACGCTCACAAAGAGCTACGTTTGTGTCTGCAATATATGTAGGATCACAATCGATTATATAACAG
1 GACGCTCACAAAGAGCTACATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAACAG
*
44385602 GACACTCACAAAGAG
1 GACGCTCACAAAGAG
44385617 TTGCGGTAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 71 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (65 bp):
GACGCTCACAAAGAGCTACATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAACAG
Found at i:44386613 original size:30 final size:30
Alignment explanation
Indices: 44386579--44386638 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44386569 ATTATTTAAT
*
44386579 TAATTATCATC-TTTTATTTTTTTCACTTTC
1 TAATT-TCATCATTTTATTTATTTCACTTTC
* *
44386609 TAATTTCATCATTTTCTTTATTTCATTTTC
1 TAATTTCATCATTTTATTTATTTCACTTTC
44386639 CATAGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (30 bp):
TAATTTCATCATTTTATTTATTTCACTTTC
Found at i:44392301 original size:25 final size:27
Alignment explanation
Indices: 44392237--44392302 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 27
44392227 ACATGGAACT
*
44392237 TTTAATCAGGAAGCTTACAAAGAGCCA
1 TTTAATCAGGAAGCTCACAAAGAGCCA
*
44392264 TTTAA-C-GGAAGCTCACGAAGAGCCA
1 TTTAATCAGGAAGCTCACAAAGAGCCA
44392289 -TTAATCAGG-AGCTC
1 TTTAATCAGGAAGCTC
44392303 TGAATAGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.11
25 23 0.66
26 3 0.09
27 5 0.14
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
TTTAATCAGGAAGCTCACAAAGAGCCA
Found at i:44392425 original size:65 final size:65
Alignment explanation
Indices: 44392344--44392486 Score: 214
Period size: 65 Copynumber: 2.2 Consensus size: 65
44392334 GCCATATCAA
* ** * *
44392344 GATGCTCACAAAGAGCTGCGTTTGTGTCTGCAACATATGTAGGATTACAACCGATCATAAAACAG
1 GATGCTCACAAAGAGCTGCGTTTATGTCCACAACATATGCAGGATCACAACCGATCATAAAACAG
* * *
44392409 GATGCTCACAAAGAGCTGCGTTTATGTCCACAATATATGCAGGATCATAACCGATCATATAACAG
1 GATGCTCACAAAGAGCTGCGTTTATGTCCACAACATATGCAGGATCACAACCGATCATAAAACAG
44392474 GATGCTCACAAAG
1 GATGCTCACAAAG
44392487 TGTTGCGGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (65 bp):
GATGCTCACAAAGAGCTGCGTTTATGTCCACAACATATGCAGGATCACAACCGATCATAAAACAG
Found at i:44394955 original size:18 final size:18
Alignment explanation
Indices: 44394934--44394991 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
44394924 TTCAAAATTG
44394934 AAATCAAAATCGAAATCA
1 AAATCAAAATCGAAATCA
*
44394952 AAATCAAAATCAAAATCA
1 AAATCAAAATCGAAATCA
* * *
44394970 AAATTAGAATCGAAATTA
1 AAATCAAAATCGAAATCA
44394988 AAAT
1 AAAT
44394992 TGAAATTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATCAAAATCGAAATCA
Found at i:44394992 original size:6 final size:6
Alignment explanation
Indices: 44394934--44394973 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
44394924 TTCAAAATTG
*
44394934 AAATCA AAATCG AAATCA AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
44394974 TAGAATCGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.65, C:0.15, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Done.