Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 44 of 131
Found at i:14355176 original size:7 final size:7
Alignment explanation
Indices: 14355164--14355188 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14355154 TAAAGAAGGT
14355164 TTAGGGG
1 TTAGGGG
14355171 TTAGGGG
1 TTAGGGG
14355178 TTAGGGG
1 TTAGGGG
14355185 TTAG
1 TTAG
14355189 AGATTAAGAG
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:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:14355309 original size:13 final size:13
Alignment explanation
Indices: 14355284--14355321 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
14355274 TATTAAATAA
14355284 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTAG
14355298 GGATTT-GGGTTAG
1 GG-TTTAGGGTTAG
14355311 GGTTTAGGGTT
1 GGTTTAGGGTT
14355322 TAGATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 2 0.09
15 3 0.14
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:14355342 original size:74 final size:76
Alignment explanation
Indices: 14355232--14355375 Score: 202
Period size: 74 Copynumber: 1.9 Consensus size: 76
14355222 TCGGTATCAA
* * *
14355232 GTTAAGGTTTAGGGTTTAGATTAACTAGTGCATTTTAA-TT-TATATTAAATAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
14355295 TAGGGATTTGG
66 TAGGGATTTGG
* * * **
14355306 GTTAGGGTTTAGGGTTTAGATTTATTAATATTTTTTAATTTATATATTAAAGAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
14355371 TAGGG
66 TAGGG
14355376 GTTAGGGGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 31 0.52
75 2 0.03
76 27 0.45
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (76 bp):
GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
TAGGGATTTGG
Found at i:14355375 original size:7 final size:7
Alignment explanation
Indices: 14355363--14355387 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14355353 TAAAGAAGGT
14355363 TTAGGGG
1 TTAGGGG
14355370 TTAGGGG
1 TTAGGGG
14355377 TTAGGGG
1 TTAGGGG
14355384 TTAG
1 TTAG
14355388 AGATTAAGAG
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:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:14355508 original size:13 final size:13
Alignment explanation
Indices: 14355483--14355520 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
14355473 TATTAAATAA
14355483 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTAG
14355497 GGATTT-GGGTTAG
1 GG-TTTAGGGTTAG
14355510 GGTTTAGGGTT
1 GGTTTAGGGTT
14355521 TAGATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 2 0.09
15 3 0.14
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:14355541 original size:74 final size:76
Alignment explanation
Indices: 14355431--14355574 Score: 202
Period size: 74 Copynumber: 1.9 Consensus size: 76
14355421 TCGGTATCAA
* * *
14355431 GTTAAGGTTTAGGGTTTAGATTAACTAGTGCATTTTAA-TT-TATATTAAATAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
14355494 TAGGGATTTGG
66 TAGGGATTTGG
* * * **
14355505 GTTAGGGTTTAGGGTTTAGATTTATTAATATTTTTTAATTTATATATTAAAGAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
14355570 TAGGG
66 TAGGG
14355575 GTTAGGGGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 31 0.52
75 2 0.03
76 27 0.45
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (76 bp):
GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
TAGGGATTTGG
Found at i:14355574 original size:7 final size:7
Alignment explanation
Indices: 14355562--14355586 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14355552 TAAAGAAGGT
14355562 TTAGGGG
1 TTAGGGG
14355569 TTAGGGG
1 TTAGGGG
14355576 TTAGGGG
1 TTAGGGG
14355583 TTAG
1 TTAG
14355587 AGATTAAGAG
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:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:14355707 original size:13 final size:13
Alignment explanation
Indices: 14355682--14355719 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
14355672 TATTAAATAA
14355682 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTAG
14355696 GGATTT-GGGTTAG
1 GG-TTTAGGGTTAG
14355709 GGTTTAGGGTT
1 GGTTTAGGGTT
14355720 TAGATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 2 0.09
15 3 0.14
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:14355740 original size:74 final size:76
Alignment explanation
Indices: 14355630--14355773 Score: 202
Period size: 74 Copynumber: 1.9 Consensus size: 76
14355620 TCGGTATCAA
* * *
14355630 GTTAAGGTTTAGGGTTTAGATTAACTAGTGCATTTTAA-TT-TATATTAAATAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
14355693 TAGGGATTTGG
66 TAGGGATTTGG
* * * **
14355704 GTTAGGGTTTAGGGTTTAGATTTATTAATATTTTTTAATTTATATATTAAAGAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
14355769 TAGGG
66 TAGGG
14355774 GTTAGGGGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 31 0.52
75 2 0.03
76 27 0.45
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (76 bp):
GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
TAGGGATTTGG
Found at i:14355773 original size:7 final size:7
Alignment explanation
Indices: 14355761--14355785 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14355751 TAAAGAAGGT
14355761 TTAGGGG
1 TTAGGGG
14355768 TTAGGGG
1 TTAGGGG
14355775 TTAGGGG
1 TTAGGGG
14355782 TTAG
1 TTAG
14355786 AGATTAAGAG
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:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:14355906 original size:13 final size:13
Alignment explanation
Indices: 14355881--14355918 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
14355871 TATTAAATAA
14355881 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTAG
14355895 GGATTT-GGGTTAG
1 GG-TTTAGGGTTAG
14355908 GGTTTAGGGTT
1 GGTTTAGGGTT
14355919 TAGATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 2 0.09
15 3 0.14
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:14355939 original size:74 final size:76
Alignment explanation
Indices: 14355829--14355972 Score: 202
Period size: 74 Copynumber: 1.9 Consensus size: 76
14355819 TCGGTATCAA
* * *
14355829 GTTAAGGTTTAGGGTTTAGATTAACTAGTGCATTTTAA-TT-TATATTAAATAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
14355892 TAGGGATTTGG
66 TAGGGATTTGG
* * * **
14355903 GTTAGGGTTTAGGGTTTAGATTTATTAATATTTTTTAATTTATATATTAAAGAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
14355968 TAGGG
66 TAGGG
14355973 GTTAGGGGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 31 0.52
75 2 0.03
76 27 0.45
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (76 bp):
GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
TAGGGATTTGG
Found at i:14355972 original size:7 final size:7
Alignment explanation
Indices: 14355960--14355984 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14355950 TAAAGAAGGT
14355960 TTAGGGG
1 TTAGGGG
14355967 TTAGGGG
1 TTAGGGG
14355974 TTAGGGG
1 TTAGGGG
14355981 TTAG
1 TTAG
14355985 AGATTAAGAG
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:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:14356105 original size:13 final size:13
Alignment explanation
Indices: 14356080--14356117 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
14356070 TATTAAATAA
14356080 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTAG
14356094 GGATTT-GGGTTAG
1 GG-TTTAGGGTTAG
14356107 GGTTTAGGGTT
1 GGTTTAGGGTT
14356118 TAGATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 2 0.09
15 3 0.14
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:14356813 original size:42 final size:42
Alignment explanation
Indices: 14356651--14356963 Score: 421
Period size: 43 Copynumber: 7.4 Consensus size: 42
14356641 TAATAGTACT
* *
14356651 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTATAGGT-CTGGGTC
1 TTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTCCT-GGTC
* *
14356694 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTAGTC
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCCTGGTC
** * * *
14356737 TTTAGCGGCACTTGTGAGAAAATCGCCGCTAAAGGTCTTGGCC
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCCTGGTC
* *
14356780 TTTAGCGGCGTTTGTGGAAAAGCGTCGCTAAAGGTGCTGGTC
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGGTC
* *
14356822 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGGTC
* * *
14356864 TTTAGCGGCGTTTTTGGGAAAGCACCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGGTC
*
14356906 TTTAGCGGCGTTTGTGGGAAAAGCGGCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCCTGGTC
14356949 TTTAGCGGCGTTTGT
1 TTTAGCGGCGTTTGT
14356964 TTCTAAAAAC
Statistics
Matches: 240, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
42 114 0.47
43 124 0.52
44 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGGTC
Found at i:14356884 original size:85 final size:85
Alignment explanation
Indices: 14356651--14356963 Score: 416
Period size: 85 Copynumber: 3.7 Consensus size: 85
14356641 TAATAGTACT
* * **
14356651 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTATAGGT-CTGGGTCTTTAGCGGCGTTTGTGAAAAA
1 TTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTCCT-GGTCTTTAGCGGCGTTTGTGGGAAA
*
14356715 AGCGCCGCTAAAGGTCCTAGTC
64 AGCGCCGCTAAAGGTCCTGGTC
** * * *
14356737 TTTAGCGGCACTTGTGAGAAAATCGCCGCTAAAGGTCTTGGCCTTTAGCGGCGTTTGT-GGAAAA
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAA
* *
14356801 GCGTCGCTAAAGGTGCTGGTC
65 GCGCCGCTAAAGGTCCTGGTC
* * *
14356822 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTGGG-AAAG
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAG
*
14356886 CACCGCTAAAGGTCCTGGTC
66 CGCCGCTAAAGGTCCTGGTC
*
14356906 TTTAGCGGCGTTTGTGGGAAAAGCGGCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGT
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGT
14356964 TTCTAAAAAC
Statistics
Matches: 196, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
84 71 0.36
85 76 0.39
86 47 0.24
87 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAG
CGCCGCTAAAGGTCCTGGTC
Found at i:14358255 original size:106 final size:107
Alignment explanation
Indices: 14358059--14358272 Score: 421
Period size: 106 Copynumber: 2.0 Consensus size: 107
14358049 TTTGATTCAT
14358059 ACAAAATATTAATTATATATATTTTACCAAAATTATCAATATAAATAGTTATAGTAATAATTTCG
1 ACAAAATATTAATTATATATATTTTACCAAAATTATCAATATAAATAGTTATAGTAATAATTTCG
14358124 ATCAAAATATAAAAGGACATGGATAGTGATATTCTTTTGGAA
66 ATCAAAATATAAAAGGACATGGATAGTGATATTCTTTTGGAA
14358166 ACAAAATATT-ATTATATATATTTTACCAAAATTATCAATATAAATAGTTATAGTAATAATTTCG
1 ACAAAATATTAATTATATATATTTTACCAAAATTATCAATATAAATAGTTATAGTAATAATTTCG
14358230 ATCAAAATATAAAAGGACATGGATAGTGATATTCTTTTGGAA
66 ATCAAAATATAAAAGGACATGGATAGTGATATTCTTTTGGAA
14358272 A
1 A
14358273 GGATATAATA
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 97 0.91
107 10 0.09
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.36
Consensus pattern (107 bp):
ACAAAATATTAATTATATATATTTTACCAAAATTATCAATATAAATAGTTATAGTAATAATTTCG
ATCAAAATATAAAAGGACATGGATAGTGATATTCTTTTGGAA
Found at i:14361673 original size:26 final size:26
Alignment explanation
Indices: 14361617--14361676 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
14361607 TTATAGCTCG
* *
14361617 CCAGGCCCACTAGCGATCCTCGTTCG
1 CCAGGCCCACTAGAGATCCTCGTTCA
*
14361643 CCAGGCCCACTGGAGATCC-CAGTTCA
1 CCAGGCCCACTAGAGATCCTC-GTTCA
*
14361669 TCAGGCCC
1 CCAGGCCC
14361677 TTTGGCGATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.18, C:0.42, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGGCCCACTAGAGATCCTCGTTCA
Found at i:14361762 original size:30 final size:30
Alignment explanation
Indices: 14361726--14361787 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
14361716 AGTTCACTAA
14361726 ACCCACTAGTAACCCTATTTCGCCAGGCCT
1 ACCCACTAGTAACCCTATTTCGCCAGGCCT
14361756 ACCCACTAGTAACCCTATTTCGCCAGGCCT
1 ACCCACTAGTAACCCTATTTCGCCAGGCCT
14361786 AC
1 AC
14361788 TAGTGAACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.40, G:0.13, T:0.23
Consensus pattern (30 bp):
ACCCACTAGTAACCCTATTTCGCCAGGCCT
Found at i:14369683 original size:27 final size:27
Alignment explanation
Indices: 14369625--14369687 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
14369615 AACACGTTAA
*
14369625 GAAAGGAATGCCTATGTGGCACAATAC
1 GAAAGGAACGCCTATGTGGCACAATAC
* * * * *
14369652 AAAAGGAACGTCTATGTGGCGCATTAT
1 GAAAGGAACGCCTATGTGGCACAATAC
14369679 GAAAGGAAC
1 GAAAGGAAC
14369688 ACCTTTATGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.19
Consensus pattern (27 bp):
GAAAGGAACGCCTATGTGGCACAATAC
Found at i:14371747 original size:250 final size:250
Alignment explanation
Indices: 14371306--14371807 Score: 907
Period size: 250 Copynumber: 2.0 Consensus size: 250
14371296 AATGAATACA
14371306 ATGAAAGCTCATAAGTGTTTACAAGAACAAGTATGAAAGAATTAAGCTCTTAGGTTGTTTTTATT
1 ATGAAAGCTCATAAGTGTTTACAAGAACAAGTATGAAAGAATTAAGCTCTTAGGTTGTTTTTATT
*
14371371 GATCTTTAAGCTTTACACATATCTCTTATTGTTGTGGGACTTTTGGAATATGATATTTATACTCT
66 GATCTTTAAGCTTTACACATATCTCTTATTGTTGTGGGACTTTTGGAATATGATATTTACACTCT
*
14371436 CTAATTGATTTCCAATCGTTCTGGTTGTTTACGAATTGGATATAGCCATTGGGATGGAAATAACA
131 CTAATTGATTTCCAATCGTTCTGGTTGTTAACGAATTGGATATAGCCATTGGGATGGAAATAACA
*
14371501 GTTCATTAAATTCACCTACAACATTGAGTATCGATATTTTTTGTAATTAATGCAT
196 GTTCATTAAATACACCTACAACATTGAGTATCGATATTTTTTGTAATTAATGCAT
14371556 ATGAAAGCTCATAAGTGTTTACAAGAA-AAGGTATGAAAGAATTAAGCTCTTAGGTTGTTTTTAT
1 ATGAAAGCTCATAAGTGTTTACAAGAACAA-GTATGAAAGAATTAAGCTCTTAGGTTGTTTTTAT
*
14371620 TGATCTTTAAGCTTTACACATATCTCTTGTTGTTGTGGGACTTTTGGAATATGATATTTACACTC
65 TGATCTTTAAGCTTTACACATATCTCTTATTGTTGTGGGACTTTTGGAATATGATATTTACACTC
* ** *
14371685 TCTAATTGATTTTCAATCGTTCTGGTTGTTAACGAATTGGATATAGCTGTTGGGATGGAAATACC
130 TCTAATTGATTTCCAATCGTTCTGGTTGTTAACGAATTGGATATAGCCATTGGGATGGAAATAAC
*
14371750 AGTTCATTAAATACACCTACAACATTGAGTCTCGATATTTTTTGTAATTAATGCAT
195 AGTTCATTAAATACACCTACAACATTGAGTATCGATATTTTTTGTAATTAATGCAT
14371806 AT
1 AT
14371808 TTCAGTGACC
Statistics
Matches: 242, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
249 2 0.01
250 240 0.99
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (250 bp):
ATGAAAGCTCATAAGTGTTTACAAGAACAAGTATGAAAGAATTAAGCTCTTAGGTTGTTTTTATT
GATCTTTAAGCTTTACACATATCTCTTATTGTTGTGGGACTTTTGGAATATGATATTTACACTCT
CTAATTGATTTCCAATCGTTCTGGTTGTTAACGAATTGGATATAGCCATTGGGATGGAAATAACA
GTTCATTAAATACACCTACAACATTGAGTATCGATATTTTTTGTAATTAATGCAT
Found at i:14371871 original size:21 final size:21
Alignment explanation
Indices: 14371845--14371884 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14371835 GATACCTGGT
14371845 AAAAGGTATCAATACTTTTTG
1 AAAAGGTATCAATACTTTTTG
*
14371866 AAAAGGTATCGATACTTTT
1 AAAAGGTATCAATACTTTT
14371885 GTCATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (21 bp):
AAAAGGTATCAATACTTTTTG
Found at i:14377967 original size:230 final size:230
Alignment explanation
Indices: 14377557--14378015 Score: 747
Period size: 230 Copynumber: 2.0 Consensus size: 230
14377547 CACGAGAGAT
14377557 TTGCTTGAAGACAAGTCAAGATGGACCTTAGAAATCAAAATGATGGACAAGGTAATGGAGTCAAT
1 TTGCTTGAAGACAAGTCAAGATGGACCTTAGAAATCAAAATGATGGACAAGGTAATGGAGTCAAT
* * *
14377622 CATATGTACAACCTAATCCTTATTGTTGATGATAGGGTTCCTGCCATAAGACAATACGTTTTGCT
66 CATATGTACAACCTAATCCTTATTGTTGATGATAGGGATCATGCCATAAGACAATACGCTTTGCT
* * *
14377687 ACTCTTCAATGAATTAAATTCAGGAGTCAGGAGGCTGAATATCGAGGCACCTCATTTTGAATTGA
131 ACTCTTCAATGAATTAAATTCAGGAGTCAAGAGGCCGAATATCAAGGCACCTCATTTTGAATTGA
*
14377752 AACCAGTGATGTTTTAAATGCTCTAAACAGTGGGC
196 AACCAGTGATGTTTCAAATGCTCTAAACAGTGGGC
** * * *
14377787 TTGCTTGAAGACAAGTTGAGATGGACCTTGGAAATCAAAATGGTGGACAAGGTAATGGAGTTAAT
1 TTGCTTGAAGACAAGTCAAGATGGACCTTAGAAATCAAAATGATGGACAAGGTAATGGAGTCAAT
* *
14377852 CATATGTACAACGTAATCCTTATTGTTGATGATAGGGATCATGCCATAAGAGAATACGCTTTGCT
66 CATATGTACAACCTAATCCTTATTGTTGATGATAGGGATCATGCCATAAGACAATACGCTTTGCT
** *
14377917 ACTCTTCAATGAATTAAATTTGGGAGTCAAGAGGCCGAATATTAAGGCACCTCATTTTGAATTGA
131 ACTCTTCAATGAATTAAATTCAGGAGTCAAGAGGCCGAATATCAAGGCACCTCATTTTGAATTGA
* *
14377982 AACCAGTGATGTTTCGAATGCTCTAAATAGTGGG
196 AACCAGTGATGTTTCAAATGCTCTAAACAGTGGG
14378016 TCGGTTTAGT
Statistics
Matches: 210, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
230 210 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (230 bp):
TTGCTTGAAGACAAGTCAAGATGGACCTTAGAAATCAAAATGATGGACAAGGTAATGGAGTCAAT
CATATGTACAACCTAATCCTTATTGTTGATGATAGGGATCATGCCATAAGACAATACGCTTTGCT
ACTCTTCAATGAATTAAATTCAGGAGTCAAGAGGCCGAATATCAAGGCACCTCATTTTGAATTGA
AACCAGTGATGTTTCAAATGCTCTAAACAGTGGGC
Found at i:14380363 original size:33 final size:33
Alignment explanation
Indices: 14380316--14380421 Score: 104
Period size: 33 Copynumber: 3.2 Consensus size: 33
14380306 TTTGAATCTT
* * **
14380316 ACACACCAGATGCTCACATGAGCCAATCCCTCAA
1 ACACACTA-ATGCTCACAAGAGCCAATCCAACAA
* * *
14380350 ACACACTAATGCTCATAAGAGCTAATCCAACCA
1 ACACACTAATGCTCACAAGAGCCAATCCAACAA
** * *
14380383 ACACACTAATGCTCTTAAGAGCTAATCCAACCA
1 ACACACTAATGCTCACAAGAGCCAATCCAACAA
14380416 ACACAC
1 ACACAC
14380422 CAAATAGAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 57 0.89
34 7 0.11
ACGTcount: A:0.40, C:0.34, G:0.09, T:0.17
Consensus pattern (33 bp):
ACACACTAATGCTCACAAGAGCCAATCCAACAA
Found at i:14381384 original size:21 final size:21
Alignment explanation
Indices: 14381346--14381387 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14381336 GAAATTAAAA
*
14381346 TGTTTTAATTGCACTTTAATT
1 TGTTTTAATTCCACTTTAATT
14381367 TGTTTTAATTTCCA-TTTAATT
1 TGTTTTAA-TTCCACTTTAATT
14381388 ACAAAATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.60
Consensus pattern (21 bp):
TGTTTTAATTCCACTTTAATT
Found at i:14397796 original size:142 final size:142
Alignment explanation
Indices: 14397540--14397811 Score: 499
Period size: 142 Copynumber: 1.9 Consensus size: 142
14397530 CGCCGCATCA
* * * *
14397540 CCTTGCGCAGTCCCCTCTCCAGCCGCCGCAAGATTCGGAGATAGCCTCCTCCACGCGCGCTGCTC
1 CCTTGCGCAGCCCCCCCCCCAGCCGCCGCAAGATTCGGAGATAGCCTCCTCCACACGCGCTGCTC
14397605 CTCTACGCACGCCTCTAGCCATACCTGCAGCAACAAACGGAAACAAGCAACAACGAAATAATAGG
66 CTCTACGCACGCCTCTAGCCATACCTGCAGCAACAAACGGAAACAAGCAACAACGAAATAATAGG
14397670 CGGCGCCCCACC
131 CGGCGCCCCACC
*
14397682 CCTTGCGCGGCCCCCCCCCCAGCCGCCGCAAGATTCGGAGATAGCCTCCTCCACACGCGCTGCTC
1 CCTTGCGCAGCCCCCCCCCCAGCCGCCGCAAGATTCGGAGATAGCCTCCTCCACACGCGCTGCTC
14397747 CTCTACGCACGCCTCTAGCCATACCTGCAGCAACAAACGGAAACAAGCAACAACGAAATAATAGG
66 CTCTACGCACGCCTCTAGCCATACCTGCAGCAACAAACGGAAACAAGCAACAACGAAATAATAGG
14397812 AATAATAGAA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 125 1.00
ACGTcount: A:0.26, C:0.40, G:0.20, T:0.14
Consensus pattern (142 bp):
CCTTGCGCAGCCCCCCCCCCAGCCGCCGCAAGATTCGGAGATAGCCTCCTCCACACGCGCTGCTC
CTCTACGCACGCCTCTAGCCATACCTGCAGCAACAAACGGAAACAAGCAACAACGAAATAATAGG
CGGCGCCCCACC
Found at i:14398039 original size:18 final size:18
Alignment explanation
Indices: 14398009--14398043 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14397999 CCTAGGAAGG
14398009 ATTTTCTTTTTTCTTTTT
1 ATTTTCTTTTTTCTTTTT
14398027 ATTTT-TTTATTTCTTTT
1 ATTTTCTTT-TTTCTTTT
14398044 CGGTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (18 bp):
ATTTTCTTTTTTCTTTTT
Found at i:14398795 original size:18 final size:18
Alignment explanation
Indices: 14398774--14398834 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
14398764 ATTCATATGT
*
14398774 ATTTTATAGTATATATAC
1 ATTTTATAATATATATAC
* *
14398792 ATTTCATAATATTTATAC
1 ATTTTATAATATATATAC
*
14398810 ATTTTCTATAATATACATAC
1 A-TTT-TATAATATATATAC
14398830 ATTTT
1 ATTTT
14398835 TTATATCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 17 0.49
19 6 0.17
20 12 0.34
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTTTATAATATATATAC
Found at i:14398804 original size:28 final size:29
Alignment explanation
Indices: 14398747--14398805 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
14398737 TGCGTATACA
* *
14398747 TTTATATATATATATATATTCATATGTAT
1 TTTATATATATATACATATTCATATATAT
14398776 TTTATAGTATATATACAT-TTCATA-ATAT
1 TTTATA-TATATATACATATTCATATATAT
14398804 TT
1 TT
14398806 ATACATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 5 0.19
29 12 0.44
30 10 0.37
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.54
Consensus pattern (29 bp):
TTTATATATATATACATATTCATATATAT
Found at i:14398820 original size:20 final size:20
Alignment explanation
Indices: 14398778--14398839 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
14398768 ATATGTATTT
*
14398778 TATAGTATATATACA-TTTC
1 TATAATATATATACATTTTC
*
14398797 -ATAATATTTATACATTTTC
1 TATAATATATATACATTTTC
* *
14398816 TATAATATACATACATTTTT
1 TATAATATATATACATTTTC
14398836 TATA
1 TATA
14398840 TCTTTTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.33
19 4 0.11
20 20 0.56
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.50
Consensus pattern (20 bp):
TATAATATATATACATTTTC
Found at i:14406402 original size:18 final size:18
Alignment explanation
Indices: 14406372--14406406 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14406362 CCTAGGAAGG
14406372 ATTTTCTTTTTTCTTTTT
1 ATTTTCTTTTTTCTTTTT
14406390 ATTTT-TTTATTTCTTTT
1 ATTTTCTTT-TTTCTTTT
14406407 CGGTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (18 bp):
ATTTTCTTTTTTCTTTTT
Found at i:14407158 original size:18 final size:18
Alignment explanation
Indices: 14407137--14407197 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
14407127 ATTCATATGT
*
14407137 ATTTTATAGTATATATAC
1 ATTTTATAATATATATAC
* *
14407155 ATTTCATAATATTTATAC
1 ATTTTATAATATATATAC
*
14407173 ATTTTCTATAATATACATAC
1 A-TTT-TATAATATATATAC
14407193 ATTTT
1 ATTTT
14407198 TTATATCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 17 0.49
19 6 0.17
20 12 0.34
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTTTATAATATATATAC
Found at i:14407167 original size:28 final size:27
Alignment explanation
Indices: 14407111--14407168 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
14407101 GCGTATACAT
* *
14407111 TTTTATATATATATATATTCATATGTA
1 TTTTATATATATATACATTCATATATA
14407138 TTTTATAGTATATATACATTTCATA-ATA
1 TTTTATA-TATATATACA-TTCATATATA
14407166 TTT
1 TTT
14407169 ATACATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 14 0.52
29 6 0.22
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.55
Consensus pattern (27 bp):
TTTTATATATATATACATTCATATATA
Found at i:14407183 original size:20 final size:20
Alignment explanation
Indices: 14407141--14407202 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
14407131 ATATGTATTT
*
14407141 TATAGTATATATACA-TTTC
1 TATAATATATATACATTTTC
*
14407160 -ATAATATTTATACATTTTC
1 TATAATATATATACATTTTC
* *
14407179 TATAATATACATACATTTTT
1 TATAATATATATACATTTTC
14407199 TATA
1 TATA
14407203 TCTTTTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.33
19 4 0.11
20 20 0.56
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.50
Consensus pattern (20 bp):
TATAATATATATACATTTTC
Found at i:14411075 original size:11 final size:11
Alignment explanation
Indices: 14411059--14411083 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14411049 AGTAAAATAT
14411059 ATTATAATTTA
1 ATTATAATTTA
14411070 ATTATAATTTA
1 ATTATAATTTA
14411081 ATT
1 ATT
14411084 TCTCAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATAATTTA
Found at i:14411175 original size:15 final size:15
Alignment explanation
Indices: 14411127--14411179 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
14411117 AATCGATTTC
14411127 ATATTAATATAA-TA
1 ATATTAATATAATTA
* *
14411141 AGATT-TTATAAGTTA
1 ATATTAATATAA-TTA
14411156 A-ATTAATATAATTA
1 ATATTAATATAATTA
14411170 ATATTAATAT
1 ATATTAATAT
14411180 TTAAATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.16
14 11 0.34
15 16 0.50
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (15 bp):
ATATTAATATAATTA
Found at i:14420036 original size:34 final size:34
Alignment explanation
Indices: 14419975--14420042 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
14419965 GCACAGTTGA
* *
14419975 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
14420010 ACAGT-TTGGGCCTCAA-CCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCT-AAGCCCATCTCAGTACAGTG
14420043 TCAAAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.17
34 18 0.60
35 7 0.23
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:14425809 original size:25 final size:25
Alignment explanation
Indices: 14425781--14425852 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
14425771 CAAGCCCATT
*
14425781 TTCATAGCTTGTGTGAGCATACCGA
1 TTCATAGCTTGTGTGAGCATACCAA
* *
14425806 TTCATAGCTTGCGCGAGCATACCAA
1 TTCATAGCTTGTGTGAGCATACCAA
* **
14425831 TTCACAGCTCATGTGAGCATAC
1 TTCATAGCTTGTGTGAGCATAC
14425853 ATGTATAGGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (25 bp):
TTCATAGCTTGTGTGAGCATACCAA
Found at i:14429387 original size:5 final size:5
Alignment explanation
Indices: 14429370--14429426 Score: 60
Period size: 5 Copynumber: 11.2 Consensus size: 5
14429360 ATATATATTT
* * * * *
14429370 CATTC CATAC CATTC CATTC CATAC TATTC CATTT CATAC CATTC CATTCC
1 CATTC CATTC CATTC CATTC CATTC CATTC CATTC CATTC CATTC CATT-C
14429421 CATTC C
1 CATTC C
14429427 TTTCATCAAG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
5 36 0.88
6 5 0.12
ACGTcount: A:0.25, C:0.39, G:0.00, T:0.37
Consensus pattern (5 bp):
CATTC
Found at i:14429390 original size:15 final size:15
Alignment explanation
Indices: 14429370--14429420 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
14429360 ATATATATTT
14429370 CATTCCATACCATTC
1 CATTCCATACCATTC
*
14429385 CATTCCATACTATTC
1 CATTCCATACCATTC
*
14429400 CATTTCATACCATTC
1 CATTCCATACCATTC
14429415 CATTCC
1 CATTCC
14429421 CATTCCTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.25, C:0.37, G:0.00, T:0.37
Consensus pattern (15 bp):
CATTCCATACCATTC
Found at i:14430558 original size:51 final size:51
Alignment explanation
Indices: 14430479--14430662 Score: 208
Period size: 51 Copynumber: 3.6 Consensus size: 51
14430469 GGTACTCATA
** * * *
14430479 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAG
1 TAGCCTTCACACAGTACTACACACGTGACCATAATTTATCGATTCACGTAG
* * * * ** *
14430530 TAGCCTTCACACAGTACTACACACGTGACCA-AAGCTTCTCGGTACATATTG
1 TAGCCTTCACACAGTACTACACACGTGACCATAA-TTTATCGATTCACGTAG
** * *
14430581 TAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATTCACGTAG
1 TAGCCTTCACACAGTACTACACACGTGACCATAATTTATCGATTCACGTAG
14430632 TAGCCTTCACACAGTACTACACACGTGACCA
1 TAGCCTTCACACAGTACTACACACGTGACCA
14430663 ACACTTTCAC
Statistics
Matches: 105, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
50 1 0.01
51 103 0.98
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (51 bp):
TAGCCTTCACACAGTACTACACACGTGACCATAATTTATCGATTCACGTAG
Found at i:14430655 original size:102 final size:102
Alignment explanation
Indices: 14430479--14430663 Score: 352
Period size: 102 Copynumber: 1.8 Consensus size: 102
14430469 GGTACTCATA
14430479 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAGTAGCCTTCACACAG
1 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAGTAGCCTTCACACAG
14430544 TACTACACACGTGACCAAAGCTTCTCGGTACATATTG
66 TACTACACACGTGACCAAAGCTTCTCGGTACATATTG
* *
14430581 TAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATTCACGTAGTAGCCTTCACACAG
1 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAGTAGCCTTCACACAG
14430646 TACTACACACGTGACCAA
66 TACTACACACGTGACCAA
14430664 CACTTTCACT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 81 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (102 bp):
TAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAGTAGCCTTCACACAG
TACTACACACGTGACCAAAGCTTCTCGGTACATATTG
Found at i:14432455 original size:13 final size:13
Alignment explanation
Indices: 14432437--14432463 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14432427 ATAATTTCTC
14432437 AGTGATACTCAGA
1 AGTGATACTCAGA
14432450 AGTGATACTCAGA
1 AGTGATACTCAGA
14432463 A
1 A
14432464 AAGAACGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (13 bp):
AGTGATACTCAGA
Found at i:14432793 original size:18 final size:19
Alignment explanation
Indices: 14432765--14432800 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14432755 CTAATATTTC
*
14432765 TTCCAAAACTATTTTTACT
1 TTCCAAAACTATTATTACT
14432784 TTCC-AAACTATTATTAC
1 TTCCAAAACTATTATTAC
14432801 CTCTGTATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCCAAAACTATTATTACT
Found at i:14434398 original size:5 final size:5
Alignment explanation
Indices: 14434388--14434445 Score: 71
Period size: 5 Copynumber: 11.6 Consensus size: 5
14434378 TCATATATAT
* * * * *
14434388 ATTCC ATTCC ATTCC ATACT ATTCC ATTTC ATACC ATTTC ATTCC ATTCC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC
14434438 ATTCC ATT
1 ATTCC ATT
14434446 TCATCAAGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTCC
Found at i:14434445 original size:20 final size:20
Alignment explanation
Indices: 14434388--14434449 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
14434378 TCATATATAT
*
14434388 ATTCCATTCCATTCCA-TAC
1 ATTCCATTCCATTCCATTTC
* *
14434407 TATTCCATTTCATACCATTTC
1 -ATTCCATTCCATTCCATTTC
14434428 ATTCCATTCCATTCCATTTC
1 ATTCCATTCCATTCCATTTC
14434448 AT
1 AT
14434450 CAAGCATTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 34 0.94
21 2 0.06
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTCCATTCCATTCCATTTC
Found at i:14435527 original size:51 final size:51
Alignment explanation
Indices: 14435354--14435793 Score: 574
Period size: 51 Copynumber: 8.7 Consensus size: 51
14435344 TCGATACACT
* * * **
14435354 TAGTAGCCTTCACATAGTACTACACAC-GTGATCA--ATTTTTACGGTTCACG
1 TAGTAGCCTTCACTTAGTACTACAC-CTGTGACCATCATTTAT-CAATTCACG
* * *** ** *
14435404 TAGTAGCCTTCACATAGTACTACACAC-GTGATCAAGTTTTA-CGGTTCATG
1 TAGTAGCCTTCACTTAGTACTACAC-CTGTGACCATCATTTATCAATTCACG
* * * ** * *
14435454 TAGTAGCCTTCACATAGTACTACATAC-GTGACTA-CAGCTTT-TCGGTACACA
1 TAGTAGCCTTCACTTAGTACTACA-CCTGTGACCATCA--TTTATCAATTCACG
14435505 TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
1 TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
14435556 TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
1 TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
14435607 TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
1 TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
14435658 TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
1 TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
14435709 TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
1 TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
14435760 TAGTAGCCTTCACTTAGTACTACACAC-GTGACCA
1 TAGTAGCCTTCACTTAGTACTACAC-CTGTGACCA
14435794 ACACTTTCAC
Statistics
Matches: 362, Mismatches: 18, Indels: 19
0.91 0.05 0.05
Matches are distributed among these distances:
50 76 0.21
51 280 0.77
52 6 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
TAGTAGCCTTCACTTAGTACTACACCTGTGACCATCATTTATCAATTCACG
Found at i:14440917 original size:18 final size:17
Alignment explanation
Indices: 14440884--14440922 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
14440874 TTTTATAAAT
14440884 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
14440902 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
14440919 TGTG
1 TGTG
14440923 GAAGGAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:14441175 original size:23 final size:23
Alignment explanation
Indices: 14441148--14441246 Score: 146
Period size: 23 Copynumber: 4.3 Consensus size: 23
14441138 AATGTTATTG
*
14441148 ATCAGTGGTAGCTTCGACTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
*
14441170 ATTCAGTGGTAGCTACGGCTACAT
1 A-TCAGTGGTAGCTTCGGCTACAT
14441194 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
14441217 TTCAGTGGTAGCTCCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
14441240 ATCAGTG
1 ATCAGTG
14441247 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
22 1 0.01
23 67 0.97
24 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:14441201 original size:46 final size:46
Alignment explanation
Indices: 14441148--14441246 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
14441138 AATGTTATTG
14441148 ATCAGTGGTAGCTTCGACTACAATTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGACTACAATTCAGTGGTAGCTACGGCTACAT
* * *
14441194 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTCCGGCTACAT
1 ATCAGTGGTAGCTTCGACTACAATTCAGTGGTAGCTACGGCTACAT
14441240 ATCAGTG
1 ATCAGTG
14441247 TGGCACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.29
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGACTACAATTCAGTGGTAGCTACGGCTACAT
Found at i:14454122 original size:3 final size:3
Alignment explanation
Indices: 14454114--14454158 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
14454104 TTCACCAATT
14454114 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14454159 ACAAAAGCGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14455236 original size:9 final size:9
Alignment explanation
Indices: 14455219--14455249 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14455209 TCGAGTTGAT
14455219 TCGAATAAC
1 TCGAATAAC
*
14455228 TCGATTAAC
1 TCGAATAAC
14455237 TCGAATAAC
1 TCGAATAAC
14455246 TCGA
1 TCGA
14455250 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:14455702 original size:17 final size:17
Alignment explanation
Indices: 14455680--14455717 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
14455670 ATATTATGTA
14455680 ATTATTTGAAATTAT-AT
1 ATTATTT-AAATTATAAT
*
14455697 ATTATTTATATTATAAT
1 ATTATTTAAATTATAAT
14455714 ATTA
1 ATTA
14455718 GGTAATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTATTTAAATTATAAT
Found at i:14456826 original size:21 final size:20
Alignment explanation
Indices: 14456772--14456826 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
14456762 AACTTTCAAT
*
14456772 AAATAAAA-AAATATATAAA
1 AAATAAAATAAATAAATAAA
*
14456791 AATATAAAACT-AATAAATATTA
1 AA-ATAAAA-TAAATAAATA-AA
14456813 AAATAAAATAAATA
1 AAATAAAATAAATA
14456827 TTTTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 2 0.07
20 7 0.24
21 17 0.59
22 3 0.10
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATAAAATAAATAAATAAA
Found at i:14457437 original size:123 final size:124
Alignment explanation
Indices: 14457288--14457535 Score: 489
Period size: 123 Copynumber: 2.0 Consensus size: 124
14457278 TATAAAAAAT
14457288 TTGAAAATATCTTCTAATTTGTTGAATTTTTATCTTTTTTCTCAATTTTTAAGATCTTTTTCATA
1 TTGAAAATATCTTCTAATTTGTTGAATTTTTATCTTTTTTCTCAATTTTTAAGATCTTTTTCATA
14457353 TTTTTTTAGAAAATTTTTTCTAAACATTTGAAATTTTTAACCATTTATAAATTATTTAA
66 TTTTTTTAGAAAATTTTTTCTAAACATTTGAAATTTTTAACCATTTATAAATTATTTAA
14457412 TTGAAAATATC-TCTAATTTGTTGAATTTTTATCTTTTTTCTCAATTTTTAAGATCTTTTTCATA
1 TTGAAAATATCTTCTAATTTGTTGAATTTTTATCTTTTTTCTCAATTTTTAAGATCTTTTTCATA
14457476 TTTTTTTAGAAAATTTTTTCTAAACATTTGAAATTTTTAACCATTTATAAATTATTTAA
66 TTTTTTTAGAAAATTTTTTCTAAACATTTGAAATTTTTAACCATTTATAAATTATTTAA
14457535 T
1 T
14457536 AATGTGATAT
Statistics
Matches: 124, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
123 113 0.91
124 11 0.09
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (124 bp):
TTGAAAATATCTTCTAATTTGTTGAATTTTTATCTTTTTTCTCAATTTTTAAGATCTTTTTCATA
TTTTTTTAGAAAATTTTTTCTAAACATTTGAAATTTTTAACCATTTATAAATTATTTAA
Found at i:14471388 original size:25 final size:25
Alignment explanation
Indices: 14471354--14471404 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14471344 AGTATGGAAC
14471354 TCACTTGATCGGGATTACAAAGGGA
1 TCACTTGATCGGGATTACAAAGGGA
14471379 TCACTTGATCGGGATTACAAAGGGA
1 TCACTTGATCGGGATTACAAAGGGA
14471404 T
1 T
14471405 GAATAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (25 bp):
TCACTTGATCGGGATTACAAAGGGA
Found at i:14471489 original size:20 final size:20
Alignment explanation
Indices: 14471450--14471489 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14471440 ATATACTCTA
**
14471450 TTTTTTTTAACTTCGTATAC
1 TTTTTTTTAACTTCAAATAC
*
14471470 TTTTTTTTCACTTCAAATAC
1 TTTTTTTTAACTTCAAATAC
14471490 AATTGAATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTTTTTAACTTCAAATAC
Found at i:14471871 original size:17 final size:18
Alignment explanation
Indices: 14471835--14471873 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
14471825 TAACAAATAA
14471835 AAAAAGATAGATAAGATAG
1 AAAAAGATAGAT-AGATAG
14471854 AAAAAGATAGAT-GATAG
1 AAAAAGATAGATAGATAG
14471871 AAA
1 AAA
14471874 TGGTTACCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (18 bp):
AAAAAGATAGATAGATAG
Found at i:14474758 original size:439 final size:440
Alignment explanation
Indices: 14473929--14474807 Score: 1751
Period size: 439 Copynumber: 2.0 Consensus size: 440
14473919 ATAATTTGAA
14473929 TATATATATTATATTATTAATATTATAATATTAGGTAACATTTTGATTTGCATCATAATTATTAT
1 TATATATATTATATTATTAATATTATAATATTAGGTAACATTTTGATTTGCATCATAATTATTAT
14473994 AATATTTTAGAATATTTGAGTTCAAATACATTTTCTTTTAAGTATTATCTCCACTTTTAATAATG
66 AATATTTTAGAATATTTGAGTTCAAATACATTTTCTTTTAAGTATTATCTCCACTTTTAATAATG
14474059 AGAAATTACAAACTTATTTAAAAATTACGTGAAGTATATTATATATTAATTATAATTTAATTTCT
131 AGAAATTACAAACTTATTTAAAAATTACGTGAAGTATATTATATATTAATTATAATTTAATTTCT
14474124 CAATTATTAAGCTGATTAATATTTTATATTAAGTGCGTATGAATGATTGGATCCTTGAACGTATT
196 CAATTATTAAGCTGATTAATATTTTATATTAAGTGCGTATGAATGATTGGATCCTTGAACGTATT
14474189 CATGGATCTTCCGAAATAGCATATAAAAATAAAATTGATGTCGTAAATTAACTGGTCTGTCATCT
261 CATGGATCTTCCGAAATAGCATATAAAAATAAAATTGATGTCGTAAATTAACTGGTCTGTCATCT
14474254 ACATTTAATGGGATCGTTCCAAACCCATTAACATGATTTCTCCTACACTTGTCAGCTCTGTTATT
326 ACATTTAATGGGATCGTTCCAAACCCATTAACATGATTTCTCCTACACTTGTCAGCTCTGTTATT
14474319 GGGCCTACATTTATATCCCTTTTATTTTATTTTCATTATATAGCAAATGG
391 GGGCCTACATTTATATCCCTTTTATTTTATTTTCATTATATAGCAAATGG
14474369 TATATATATT-TATTATTAATATTATAATATTAGGTAACATTTTGATTTGCATCATAATTATTAT
1 TATATATATTATATTATTAATATTATAATATTAGGTAACATTTTGATTTGCATCATAATTATTAT
14474433 AATATTTTAGAATATTTGAGTTCAAATACATTTTCTTTTAAGTATTATCTCCACTTTTAATAATG
66 AATATTTTAGAATATTTGAGTTCAAATACATTTTCTTTTAAGTATTATCTCCACTTTTAATAATG
14474498 AGAAATTACAAACTTATTTAAAAATTACGTGAAGTATATTATATATTAATTATAATTTAATTTCT
131 AGAAATTACAAACTTATTTAAAAATTACGTGAAGTATATTATATATTAATTATAATTTAATTTCT
14474563 CAATTATTAAGCTGATTAATATTTTATATTAAGTGCGTATGAATGATTGGATCCTTGAACGTATT
196 CAATTATTAAGCTGATTAATATTTTATATTAAGTGCGTATGAATGATTGGATCCTTGAACGTATT
14474628 CATGGATCTTCCGAAATAGCATATAAAAATAAAATTGATGTCGTAAATTAACTGGTCTGTCATCT
261 CATGGATCTTCCGAAATAGCATATAAAAATAAAATTGATGTCGTAAATTAACTGGTCTGTCATCT
14474693 ACATTTAATGGGATCGTTCCAAACCCATTAACATGATTTCTCCTACACTTGTCAGCTCTGTTATT
326 ACATTTAATGGGATCGTTCCAAACCCATTAACATGATTTCTCCTACACTTGTCAGCTCTGTTATT
14474758 GGGCCTACATTTATATCCCTTTTATTTTATTTTCATTATATAGCAAATGG
391 GGGCCTACATTTATATCCCTTTTATTTTATTTTCATTATATAGCAAATGG
14474808 CTTCCAATTG
Statistics
Matches: 439, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
439 429 0.98
440 10 0.02
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (440 bp):
TATATATATTATATTATTAATATTATAATATTAGGTAACATTTTGATTTGCATCATAATTATTAT
AATATTTTAGAATATTTGAGTTCAAATACATTTTCTTTTAAGTATTATCTCCACTTTTAATAATG
AGAAATTACAAACTTATTTAAAAATTACGTGAAGTATATTATATATTAATTATAATTTAATTTCT
CAATTATTAAGCTGATTAATATTTTATATTAAGTGCGTATGAATGATTGGATCCTTGAACGTATT
CATGGATCTTCCGAAATAGCATATAAAAATAAAATTGATGTCGTAAATTAACTGGTCTGTCATCT
ACATTTAATGGGATCGTTCCAAACCCATTAACATGATTTCTCCTACACTTGTCAGCTCTGTTATT
GGGCCTACATTTATATCCCTTTTATTTTATTTTCATTATATAGCAAATGG
Found at i:14480376 original size:26 final size:26
Alignment explanation
Indices: 14480340--14480433 Score: 179
Period size: 26 Copynumber: 3.6 Consensus size: 26
14480330 TTACAGCATG
14480340 GCTCACACGAGCTGTGAAATGGGCTT
1 GCTCACACGAGCTGTGAAATGGGCTT
14480366 GCTCACACGAGCTGTGAAATGGGCTT
1 GCTCACACGAGCTGTGAAATGGGCTT
14480392 GCTCACACGAGCTGTGAAATGGGCTT
1 GCTCACACGAGCTGTGAAATGGGCTT
*
14480418 GCTCACATGAGCTGTG
1 GCTCACACGAGCTGTG
14480434 GGTCAGAATG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.23
Consensus pattern (26 bp):
GCTCACACGAGCTGTGAAATGGGCTT
Found at i:14483504 original size:25 final size:25
Alignment explanation
Indices: 14483466--14483524 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
14483456 GTACGCTCAT
* * *
14483466 ACGAGTTGTGAATCGGCCTGCCCTC
1 ACGAGCTGTAAATCGGCATGCCCTC
* *
14483491 ACGAGCTGTAAATCGGTATGCTCTC
1 ACGAGCTGTAAATCGGCATGCCCTC
14483516 ACGAGCTGT
1 ACGAGCTGT
14483525 GGGTCAGAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.25
Consensus pattern (25 bp):
ACGAGCTGTAAATCGGCATGCCCTC
Found at i:14486134 original size:23 final size:22
Alignment explanation
Indices: 14486108--14486151 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14486098 TCAACATTTC
*
14486108 AAAACATATCAATATTCATATAA
1 AAAACATATCAA-AATCATATAA
*
14486131 AAAACCTATCAAAATCATATA
1 AAAACATATCAAAATCATATA
14486152 TATTGTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAACATATCAAAATCATATAA
Found at i:14487561 original size:25 final size:25
Alignment explanation
Indices: 14487533--14487611 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
14487523 TGCTCTGTTA
14487533 AGCTAGAAATCGGTAAGCTCATACG
1 AGCTAGAAATCGGTAAGCTCATACG
* *
14487558 AGCT-GAGAATCGATAAGCTC-TCACA
1 AGCTAGA-AATCGGTAAGCTCAT-ACG
*
14487583 AGTTAGAAATCGGTAAGCTCATACG
1 AGCTAGAAATCGGTAAGCTCATACG
14487608 AGCT
1 AGCT
14487612 GTGGTGTGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
24 3 0.07
25 38 0.86
26 3 0.07
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (25 bp):
AGCTAGAAATCGGTAAGCTCATACG
Found at i:14490915 original size:43 final size:43
Alignment explanation
Indices: 14490862--14491194 Score: 388
Period size: 43 Copynumber: 7.8 Consensus size: 43
14490852 TGTGAAAAAC
14490862 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAA
* * *
14490905 TGCCACTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAA
* * *
14490948 CGCCGCTAAAGAACATGAGCTTTAGCGGCGCTTTTA-TCAAAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGC-TTTACCCACAAA
* * *
14490991 CGCCGCTAAAAAACATGATCTTTAGTGGCGCTTTACCCATAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAA
** * * ** *
14491034 CGCCATTAAAGAACATGATATTTAGAGGCATTTTGCCCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAA
* *
14491077 TGCCGCTAAAGAACATGATCTTTAGCGGTGCTTTACCCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAA
* * * *
14491120 CGCCACTAAAG-ACATGATTTTTATCGGCGCTTTTA-TCACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGC-TTTACCCACAAA
** *
14491162 CGCCGCTAAA-AGTATGTTCTTTAGCGGCG-TTTA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTA
14491195 TGGAAAAACG
Statistics
Matches: 243, Mismatches: 43, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
40 4 0.02
42 48 0.20
43 187 0.77
44 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAA
Found at i:14492532 original size:2 final size:2
Alignment explanation
Indices: 14492525--14492550 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14492515 ATAGGTGAAA
14492525 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
14492551 GAAACAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14496991 original size:40 final size:40
Alignment explanation
Indices: 14496925--14497000 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
14496915 TTAAATCCTT
* *
14496925 GAGCATTAGCGGCGCTTTTTAGAAAACGCCGCTAAAAATA
1 GAGCATTAGCGGCGCTTCTCAGAAAACGCCGCTAAAAATA
*
14496965 GAGCATTAGCGGCGCTTACTCA-AAAACGCTGCTAAA
1 GAGCATTAGCGGCGCTT-CTCAGAAAACGCCGCTAAA
14497001 GCCCTGAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTCTCAGAAAACGCCGCTAAAAATA
Found at i:14497082 original size:83 final size:83
Alignment explanation
Indices: 14496965--14497224 Score: 242
Period size: 83 Copynumber: 3.1 Consensus size: 83
14496955 GCTAAAAATA
* * * * * *
14496965 GAGCATTAGCGGCGCT-TACTC-AAAAACGCTGCTAAAGCCCTGAGCATTCGAGGCATTTTTTTA
1 GAGCATTAGCGGGGCTCT-C-CAAAAAACGCAGCTAAAGCCCTGAGCATTAGAGGCACTTTCTCA
** ** *
14497028 GGAAATGCCGCTAAAGCCTT
64 AAAAAACCCGCTAAAGCCCT
* * * * * *
14497048 GAGCATTAGCGGTGC-CTCATAAAAAACGCAGCTAAATCCCTGAACATTAGCGGCGCTTTCTCAA
1 GAGCATTAGCGGGGCTCTC-CAAAAAACGCAGCTAAAGCCCTGAGCATTAGAGGCACTTTCTCAA
14497112 AAAAACCCGCTAAAGCCCT
65 AAAAACCCGCTAAAGCCCT
* * * * * *
14497131 GAGCATTAGCGGGGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCGCTTTC-C-CA
1 GAGCATTAGCGGGGCTCTCCAAAAAACGCAGCTAAAGCCCTGAGCATTAGAGGCACTTTCTCAAA
14497194 AAAACGCCGCTAAAGCCCT
66 AAAAC-CCGCTAAAGCCCT
14497213 GAGCATTAGCGG
1 GAGCATTAGCGG
14497225 CGCTTTATCA
Statistics
Matches: 147, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
81 6 0.04
82 27 0.18
83 112 0.76
84 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (83 bp):
GAGCATTAGCGGGGCTCTCCAAAAAACGCAGCTAAAGCCCTGAGCATTAGAGGCACTTTCTCAAA
AAAACCCGCTAAAGCCCT
Found at i:14497229 original size:41 final size:41
Alignment explanation
Indices: 14496924--14497248 Score: 327
Period size: 41 Copynumber: 7.9 Consensus size: 41
14496914 TTTAAATCCT
* **
14496924 TGAGCATTAGCGGCGCTTT-TTAGAAAACGCCGCTAAA--AA
1 TGAGCATTAGCGGCGCTTTCTCA-AAAACGCCGCTAAAGCCC
* *
14496963 TAGAGCATTAGCGGCGCTTACTCAAAAACGCTGCTAAAGCCC
1 T-GAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCC
* * ** * * * * *
14497005 TGAGCATTCGAGGCATTTTTTTAGGAAATGCCGCTAAAGCCT
1 TGAGCATTAGCGGCGCTTTCTCA-AAAACGCCGCTAAAGCCC
* * * * *
14497047 TGAGCATTAGCGGTGC-CTCATAAAAAACGCAGCTAAATCCC
1 TGAGCATTAGCGGCGCTTTC-TCAAAAACGCCGCTAAAGCCC
*
14497088 TGAACATTAGCGGCGCTTTCTCAAAAAAAC-CCGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTTCTC--AAAAACGCCGCTAAAGCCC
* *
14497130 TGAGCATTAGCGGGGCTTTCCCAAAAACGCCGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCC
* *
14497171 TGAGCATTAGTGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCC
* *
14497212 TGAGCATTAGCGGCGCTTTATCAAAAACACCGCTAAA
1 TGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
14497249 ACTCCGAAAG
Statistics
Matches: 232, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
39 1 0.00
40 36 0.16
41 130 0.56
42 59 0.25
43 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
TGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCC
Found at i:14503075 original size:41 final size:41
Alignment explanation
Indices: 14503013--14503177 Score: 285
Period size: 41 Copynumber: 4.0 Consensus size: 41
14503003 NNNNNNNNNN
*
14503013 TTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
* *
14503054 TTATAACCTAATTCAGTTCACCGGCACTTAGCCTGCTAGGC
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
*
14503095 TTATAAGCCTGATTCAGATCACCGGTACTTAGCCTGCTAGGC
1 TTATAA-CCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
14503137 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
1 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
14503178 GCTAAGCCTA
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
41 78 0.67
42 38 0.33
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
Found at i:14503158 original size:83 final size:82
Alignment explanation
Indices: 14503013--14503177 Score: 294
Period size: 83 Copynumber: 2.0 Consensus size: 82
14503003 NNNNNNNNNN
*
14503013 TTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGTTCACCGG
1 TTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGATCACCGG
14503078 CACTTAGCCTGCTAGGC
66 CACTTAGCCTGCTAGGC
* *
14503095 TTATAAGCCTGATTCAGATCACCGGTACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCG
1 TTAT-AGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGATCACCG
14503160 GCACTTAGCCTGCTAGGC
65 GCACTTAGCCTGCTAGGC
14503178 GCTAAGCCTA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
82 4 0.05
83 75 0.95
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (82 bp):
TTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGATCACCGG
CACTTAGCCTGCTAGGC
Found at i:14504015 original size:21 final size:22
Alignment explanation
Indices: 14503968--14504018 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
14503958 GTTCAAGAAT
14503968 TTATATATATATATTACACACA
1 TTATATATATATATTACACACA
* **
14503990 -CATATATATATATT-CGTACA
1 TTATATATATATATTACACACA
14504010 TTATATATA
1 TTATATATA
14504019 CACAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (22 bp):
TTATATATATATATTACACACA
Found at i:14506394 original size:45 final size:44
Alignment explanation
Indices: 14506306--14506494 Score: 186
Period size: 45 Copynumber: 4.2 Consensus size: 44
14506296 AATAATAACA
* * *
14506306 GATACACGGTGG-ATCAGCACACAG-CACCACCCTTATAGTCAAT
1 GATACCCGGTGGAATCAGCACACAGTAACCA-CCTTATAATCAAT
** * *
14506349 GATACTAGGTGGAACCAGCACATAG-AAGCCACCTTCATAATCAAT
1 GATACCCGGTGGAATCAGCACACAGTAA-CCACCTT-ATAATCAAT
* *
14506394 GGTACCCGATGGAATCAGCACACAGTAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACACAGTAACCACC-TTATAATCAAT
* ** *
14506439 GATACCCGGTGGAATCAGCATACAACAACCACCTTTATAATGAAT
1 GATACCCGGTGGAATCAGCACACAGTAACCACC-TTATAATCAAT
*
14506484 GCTACCCGGTG
1 GATACCCGGTG
14506495 CACGTAGTAG
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
43 10 0.08
44 15 0.12
45 93 0.76
46 4 0.03
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (44 bp):
GATACCCGGTGGAATCAGCACACAGTAACCACCTTATAATCAAT
Found at i:14506471 original size:90 final size:89
Alignment explanation
Indices: 14506318--14506491 Score: 217
Period size: 90 Copynumber: 1.9 Consensus size: 89
14506308 TACACGGTGG
* * * *
14506318 ATCAGCACACAGCACCACCCTTATAGTCAATGATACTAGGTGGAACCAGCACATAGAAGCCACCT
1 ATCAGCACACAGAACCACCCTTATAATCAATGATACCAGGTGGAACCAGCACATACAAGCCACCT
*
14506383 TCATAATCAATGGTACCCGATGGA
66 TCATAATCAATGCTACCCGATGGA
* * *
14506407 ATCAGCACACAGTAACCACCTTTATAATCAATGATACCCGGTGGAATCAGCATACA-ACAA-CCA
1 ATCAGCACACAG-AACCACCCTTATAATCAATGATACCAGGTGGAACCAGC--ACATACAAGCCA
* *
14506470 CCTTTATAATGAATGCTACCCG
63 CCTTCATAATCAATGCTACCCG
14506492 GTGCACGTAG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
89 12 0.17
90 54 0.75
91 3 0.04
92 3 0.04
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.21
Consensus pattern (89 bp):
ATCAGCACACAGAACCACCCTTATAATCAATGATACCAGGTGGAACCAGCACATACAAGCCACCT
TCATAATCAATGCTACCCGATGGA
Found at i:14513635 original size:21 final size:21
Alignment explanation
Indices: 14513595--14513635 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14513585 GTTGTGGAGA
* *
14513595 AGGAAGTTGCTGTTGCAGAAG
1 AGGAAGTTGCTGCTGAAGAAG
*
14513616 AGGAAGTTGTTGCTGAAGAA
1 AGGAAGTTGCTGCTGAAGAA
14513636 TAATGATAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.07, G:0.37, T:0.24
Consensus pattern (21 bp):
AGGAAGTTGCTGCTGAAGAAG
Found at i:14525565 original size:25 final size:25
Alignment explanation
Indices: 14525526--14525587 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
14525516 TCATGTACAT
* * *
14525526 GTATGCTCACGCGAGCTGTGAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
*
14525551 GTATGCTCTCACGAGCTGTAAATTG
1 GTATGCTCTCACGAGCTGTAAATCG
*
14525576 GTATACTCTCAC
1 GTATGCTCTCAC
14525588 AAGTTGTGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCG
Found at i:14529123 original size:18 final size:18
Alignment explanation
Indices: 14529102--14529157 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
14529092 ATTTAATTTA
14529102 AATATATGTGATAATGTG
1 AATATATGTGATAATGTG
14529120 -A-ATAT-TG--AAT-TG
1 AATATATGTGATAATGTG
14529132 AATATATGTGATAATGT-
1 AATATATGTGATAATGTG
14529149 ATATATATG
1 A-ATATATG
14529158 AGATTGAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 14
0.69 0.00 0.31
Matches are distributed among these distances:
12 2 0.06
13 4 0.13
14 4 0.13
15 4 0.13
16 4 0.13
17 5 0.16
18 8 0.26
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (18 bp):
AATATATGTGATAATGTG
Found at i:14529154 original size:16 final size:16
Alignment explanation
Indices: 14529103--14529154 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
14529093 TTTAATTTAA
14529103 ATATATGTGATAATGT
1 ATATATGTGATAATGT
* *
14529119 GA-ATAT-TGA-ATTGA
1 -ATATATGTGATAATGT
14529133 ATATATGTGATAATGT
1 ATATATGTGATAATGT
14529149 ATATAT
1 ATATAT
14529155 ATGAGATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
13 1 0.04
14 7 0.25
15 6 0.21
16 13 0.46
17 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (16 bp):
ATATATGTGATAATGT
Found at i:14529493 original size:20 final size:20
Alignment explanation
Indices: 14529454--14529518 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
14529444 GTGTTACTAA
14529454 GGAAATA-AATATG-AATAAT
1 GGAAATATAATATGTAA-AAT
* *
14529473 -GAAATTTAAATATGTGAAAT
1 GGAAATAT-AATATGTAAAAT
14529493 GGAAATATAATATGTAAAAT
1 GGAAATATAATATGTAAAAT
14529513 GGAAAT
1 GGAAAT
14529519 GCAATATGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.13
20 26 0.68
21 7 0.18
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (20 bp):
GGAAATATAATATGTAAAAT
Found at i:14529524 original size:20 final size:20
Alignment explanation
Indices: 14529481--14529527 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
14529471 ATGAAATTTA
* *
14529481 AATATGTGAAATGGAAATAT
1 AATATGTAAAATGGAAATAC
*
14529501 AATATGTAAAATGGAAATGC
1 AATATGTAAAATGGAAATAC
14529521 AATATGT
1 AATATGT
14529528 GACATAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.19, T:0.30
Consensus pattern (20 bp):
AATATGTAAAATGGAAATAC
Found at i:14533000 original size:50 final size:49
Alignment explanation
Indices: 14532889--14533061 Score: 168
Period size: 50 Copynumber: 3.5 Consensus size: 49
14532879 AGCCATGTCT
* * * * * *
14532889 TCCCAGACATGGTTTTACATGGGATGTT-TCCTGTTGTGCTAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATATGGTGCCAATGCCATG
* * * *
14532938 TCCCAAATATGGTCTTACATGGGAGTTCTCATATGGGTGCCCATCCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATAT-GGTGCCAATGCCATG
* ** ** *
14532988 TCCCAGACATGGTCTCACGGGGGACCTCTCATCTCGGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATAT-GGTGCCAATGCCATG
14533038 TCCCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
14533062 TCTCATTCCC
Statistics
Matches: 98, Mismatches: 24, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
48 3 0.03
49 25 0.26
50 70 0.71
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.29
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATATGGTGCCAATGCCATG
Found at i:14537306 original size:21 final size:21
Alignment explanation
Indices: 14537268--14537307 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14537258 TGCCTAAGAA
**
14537268 ATGAATTGGATTGTATTGAAT
1 ATGAATTGGATTAAATTGAAT
*
14537289 ATGAATTGTATTAAATTGA
1 ATGAATTGGATTAAATTGA
14537308 TGTTAAGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (21 bp):
ATGAATTGGATTAAATTGAAT
Found at i:14537809 original size:26 final size:26
Alignment explanation
Indices: 14537771--14537821 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
14537761 CCCGATATAT
*
14537771 GGCTCTTAGTGAGCTTCCTGATTAAA
1 GGCTCTTACTGAGCTTCCTGATTAAA
*
14537797 GGCTCTTTCTGAGCTTCCTGATTAA
1 GGCTCTTACTGAGCTTCCTGATTAA
14537822 TGGTTCTCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GGCTCTTACTGAGCTTCCTGATTAAA
Found at i:14537957 original size:73 final size:73
Alignment explanation
Indices: 14537761--14537962 Score: 185
Period size: 73 Copynumber: 2.7 Consensus size: 73
14537751 TTATGAACGT
* * * *
14537761 CCCGATATATGGCTCTTAGTGAGCTTCCTGATTAAAGGCTCTTTCTGAGCTTCCTGATTAATGGT
1 CCCGATAT-TGGCTCCTA-TGAGCTTCCTGATT-ATGGCTC-TTATGAGCTTCCTGATTAATGGC
* *
14537826 TCTCCGGAGCTT
62 TCTCCAGAGCTA
* * * * *
14537838 CCCGATA-TGGCTCACT-TGAACTTCCCGATATATAGCTATTCA-GAGCTTCTTGATTAATGGCT
1 CCCGATATTGGCTC-CTATGAGCTTCCTGAT-TATGGCTCTT-ATGAGCTTCCTGATTAATGGCT
*
14537900 CTTCAGAGCTA
63 CTCCAGAGCTA
* * *
14537911 CCCGTTATTGGCTCGTATGAGCTTCCTAATTATGGCTCTTATGAGCTTCCTG
1 CCCGATATTGGCTCCTATGAGCTTCCTGATTATGGCTCTTATGAGCTTCCTG
14537963 TTATATAGCC
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
72 1 0.01
73 52 0.53
74 31 0.31
75 7 0.07
76 1 0.01
77 7 0.07
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (73 bp):
CCCGATATTGGCTCCTATGAGCTTCCTGATTATGGCTCTTATGAGCTTCCTGATTAATGGCTCTC
CAGAGCTA
Found at i:14538846 original size:15 final size:15
Alignment explanation
Indices: 14538826--14538864 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
14538816 TGATGTGTTT
14538826 AGGATGAAGCTAAAA
1 AGGATGAAGCTAAAA
*
14538841 AGGATGAGAAGTTAAAA
1 AGGAT--GAAGCTAAAA
14538858 AGGATGA
1 AGGATGA
14538865 GAAGTTTGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.33
17 14 0.67
ACGTcount: A:0.51, C:0.03, G:0.31, T:0.15
Consensus pattern (15 bp):
AGGATGAAGCTAAAA
Found at i:14538856 original size:17 final size:17
Alignment explanation
Indices: 14538831--14538870 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
14538821 TGTTTAGGAT
*
14538831 GAAGCTAAAAAGGATGA
1 GAAGTTAAAAAGGATGA
14538848 GAAGTTAAAAAGGATGA
1 GAAGTTAAAAAGGATGA
14538865 GAAGTT
1 GAAGTT
14538871 TGGCTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.30, T:0.17
Consensus pattern (17 bp):
GAAGTTAAAAAGGATGA
Found at i:14541346 original size:14 final size:14
Alignment explanation
Indices: 14541327--14541356 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14541317 GCAAAAATTA
14541327 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
*
14541341 AAAGAAAGAACAAG
1 AAAGAAAGAAAAAG
14541355 AA
1 AA
14541357 GAGACCGACG
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:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:14541754 original size:78 final size:78
Alignment explanation
Indices: 14541669--14541835 Score: 280
Period size: 78 Copynumber: 2.1 Consensus size: 78
14541659 AAAATAGAGA
*
14541669 ACTAAATTTAGCTTAGAGTAAAATTAGTATAAAAATTTGTGGTTAAATATGGGTATTAAAATCAG
1 ACTAAATTTAGCTTAGAGTAAAATTAGTATAAAAATTTGAGGTTAAATATGGGTATTAAAATCAG
*
14541734 TATTGGTTTAGGG
66 TATTGATTTAGGG
* *
14541747 ACTAAATTTATCTTAGAGTAAAATTAGTATAAAAATTTGAGGTTAAATATGGGTATTAAAATTAG
1 ACTAAATTTAGCTTAGAGTAAAATTAGTATAAAAATTTGAGGTTAAATATGGGTATTAAAATCAG
*
14541812 TCTTGATTTAGGG
66 TATTGATTTAGGG
*
14541825 ACTAGATTTAG
1 ACTAAATTTAG
14541836 GATTAAGCAA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.38
Consensus pattern (78 bp):
ACTAAATTTAGCTTAGAGTAAAATTAGTATAAAAATTTGAGGTTAAATATGGGTATTAAAATCAG
TATTGATTTAGGG
Found at i:14547201 original size:96 final size:97
Alignment explanation
Indices: 14547079--14547276 Score: 389
Period size: 96 Copynumber: 2.1 Consensus size: 97
14547069 ACACGGTCTT
14547079 TCACATGGCCGTGTGTGTTAGCCCTGTGACCCAAGTTAGTGAGTTACATGGGAAGAGACATGGGC
1 TCACATGGCCGTGTGTGTTAGCCCTGTGACCCAAGTTAGTGAGTTACATGGGAAGAGACATGGGC
14547144 TGGGACATGGCCGTGTGTCCCAACTTCGAAAG
66 TGGGACATGGCCGTGTGTCCCAACTTCGAAAG
14547176 TCACATGGCCGT-TGTGTTAGCCCTGTGACCCAAGTTAGTGAGTTACATGGGAAGAGACATGGGC
1 TCACATGGCCGTGTGTGTTAGCCCTGTGACCCAAGTTAGTGAGTTACATGGGAAGAGACATGGGC
14547240 TGGGACATGGCCGTGTGTCCCAACTTCGAAAG
66 TGGGACATGGCCGTGTGTCCCAACTTCGAAAG
14547272 TCACA
1 TCACA
14547277 CAGTCTGGGG
Statistics
Matches: 101, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 89 0.88
97 12 0.12
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (97 bp):
TCACATGGCCGTGTGTGTTAGCCCTGTGACCCAAGTTAGTGAGTTACATGGGAAGAGACATGGGC
TGGGACATGGCCGTGTGTCCCAACTTCGAAAG
Found at i:14558760 original size:6 final size:6
Alignment explanation
Indices: 14558749--14558774 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14558739 ATCAAAACTA
14558749 TTCCTT TTCCTT TTCCTT TTCCTT TT
1 TTCCTT TTCCTT TTCCTT TTCCTT TT
14558775 ATTTTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCCTT
Found at i:14574283 original size:40 final size:40
Alignment explanation
Indices: 14574236--14574464 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
14574226 CAAAGAACGA
* *
14574236 ATGTGCATTCAGGGGTACCAAAGTACAAATAGGAGCATGC
1 ATGTGCATTCAGGGGTACCGAAGTACAAATAGGAGCATGT
* * * *
14574276 ATATGCATTCAAGGGTACCGAAGTATAAACAGGAGCATGT
1 ATGTGCATTCAGGGGTACCGAAGTACAAATAGGAGCATGT
* * ** *
14574316 ATGTGCATTCAGGGGTACCAAAGTACAAACAAAAGCACGT
1 ATGTGCATTCAGGGGTACCGAAGTACAAATAGGAGCATGT
* * *
14574356 ATGTACATTCAAGGGTACCGAAGTACAAATAGGAGCACGT
1 ATGTGCATTCAGGGGTACCGAAGTACAAATAGGAGCATGT
* * *
14574396 ATGTTCATTTAGGGGTACCGAAGTACAAATAGGAGCATGC
1 ATGTGCATTCAGGGGTACCGAAGTACAAATAGGAGCATGT
* *
14574436 ATGTGCATTTAGGGGTAGCGAAGTACAAA
1 ATGTGCATTCAGGGGTACCGAAGTACAAA
14574465 CAGGGGCAAT
Statistics
Matches: 163, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 163 1.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.21
Consensus pattern (40 bp):
ATGTGCATTCAGGGGTACCGAAGTACAAATAGGAGCATGT
Found at i:14574333 original size:80 final size:80
Alignment explanation
Indices: 14574236--14574468 Score: 322
Period size: 80 Copynumber: 2.9 Consensus size: 80
14574226 CAAAGAACGA
*
14574236 ATGTGCATTCAGGGGTACCAAAGTACAAATAGGAGCATGCATATGCATTCAAGGGTACCGAAGTA
1 ATGTGCATTCAGGGGTACCAAAGTACAAATAGGAGCATGCATGTGCATTCAAGGGTACCGAAGTA
* *
14574301 TAAACAGGAGCATGT
66 CAAACAGGAGCACGT
* ** * * *
14574316 ATGTGCATTCAGGGGTACCAAAGTACAAACAAAAGCACGTATGTACATTCAAGGGTACCGAAGTA
1 ATGTGCATTCAGGGGTACCAAAGTACAAATAGGAGCATGCATGTGCATTCAAGGGTACCGAAGTA
*
14574381 CAAATAGGAGCACGT
66 CAAACAGGAGCACGT
* * * * * *
14574396 ATGTTCATTTAGGGGTACCGAAGTACAAATAGGAGCATGCATGTGCATTTAGGGGTAGCGAAGTA
1 ATGTGCATTCAGGGGTACCAAAGTACAAATAGGAGCATGCATGTGCATTCAAGGGTACCGAAGTA
14574461 CAAACAGG
66 CAAACAGG
14574469 GGCAATAATG
Statistics
Matches: 130, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 130 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (80 bp):
ATGTGCATTCAGGGGTACCAAAGTACAAATAGGAGCATGCATGTGCATTCAAGGGTACCGAAGTA
CAAACAGGAGCACGT
Found at i:14574460 original size:120 final size:120
Alignment explanation
Indices: 14574227--14574466 Score: 327
Period size: 120 Copynumber: 2.0 Consensus size: 120
14574217 AAGTGCATTC
* * *
14574227 AAAGAACGAATGTGCATTCAGGGGTACCAAAGTACAAATAGGAGCATGCATATGCATTCAAGGGT
1 AAAGAACGAATGTACATTCAAGGGTACCAAAGTACAAATAGGAGCACGCATATGCATTCAAGGGT
* *
14574292 ACCGAAGTATAAACAGGAGCATGTATGTGCATTCAGGGGTACCAAAGTACAAACA
66 ACCGAAGTACAAACAGGAGCATGCATGTGCATTCAGGGGTACCAAAGTACAAACA
* * * * * * * *
14574347 AAAGCACGTATGTACATTCAAGGGTACCGAAGTACAAATAGGAGCACGTATGTTCATTTAGGGGT
1 AAAGAACGAATGTACATTCAAGGGTACCAAAGTACAAATAGGAGCACGCATATGCATTCAAGGGT
* * * *
14574412 ACCGAAGTACAAATAGGAGCATGCATGTGCATTTAGGGGTAGCGAAGTACAAACA
66 ACCGAAGTACAAACAGGAGCATGCATGTGCATTCAGGGGTACCAAAGTACAAACA
14574467 GGGGCAATAA
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
120 103 1.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (120 bp):
AAAGAACGAATGTACATTCAAGGGTACCAAAGTACAAATAGGAGCACGCATATGCATTCAAGGGT
ACCGAAGTACAAACAGGAGCATGCATGTGCATTCAGGGGTACCAAAGTACAAACA
Found at i:14581562 original size:20 final size:20
Alignment explanation
Indices: 14581534--14581581 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
14581524 TTTAGCTCTG
* *
14581534 TTCAACTCACATGAGTTTAA
1 TTCAGCTCACATGAGCTTAA
14581554 TTCAGCTCACATGAGCTTAA
1 TTCAGCTCACATGAGCTTAA
14581574 TTCAGCTC
1 TTCAGCTC
14581582 GTTTAAGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (20 bp):
TTCAGCTCACATGAGCTTAA
Found at i:14584159 original size:129 final size:129
Alignment explanation
Indices: 14583929--14584191 Score: 517
Period size: 129 Copynumber: 2.0 Consensus size: 129
14583919 GGTTATTCAC
*
14583929 AAAGAGTTGATTGTGACTTGCATTAAGATTCTATCACTTCTTTCTAATGAGAAGCCTGTCGTTAT
1 AAAGAGTTGATCGTGACTTGCATTAAGATTCTATCACTTCTTTCTAATGAGAAGCCTGTCGTTAT
14583994 GATTCTTATAAGTTATCATCTTCTTGTAATGAAAGAACGAGACAAAAAGAAAATAAAAGAAAAG
66 GATTCTTATAAGTTATCATCTTCTTGTAATGAAAGAACGAGACAAAAAGAAAATAAAAGAAAAG
14584058 AAAGAGTTGATCGTGACTTGCATTAAGATTCTATCACTTCTTTCTAATGAGAAGCCTGTCGTTAT
1 AAAGAGTTGATCGTGACTTGCATTAAGATTCTATCACTTCTTTCTAATGAGAAGCCTGTCGTTAT
14584123 GATTCTTATAAGTTATCATCTTCTTGTAATGAAAGAACGAGACAAAAAGAAAATAAAAGAAAAG
66 GATTCTTATAAGTTATCATCTTCTTGTAATGAAAGAACGAGACAAAAAGAAAATAAAAGAAAAG
14584187 AAAGA
1 AAAGA
14584192 CAAGAAATGT
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 133 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (129 bp):
AAAGAGTTGATCGTGACTTGCATTAAGATTCTATCACTTCTTTCTAATGAGAAGCCTGTCGTTAT
GATTCTTATAAGTTATCATCTTCTTGTAATGAAAGAACGAGACAAAAAGAAAATAAAAGAAAAG
Found at i:14584260 original size:13 final size:14
Alignment explanation
Indices: 14584244--14584272 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14584234 ATCGAGAGAC
14584244 GAAAAAAAGAA-AT
1 GAAAAAAAGAAGAT
14584257 GAAAAAAAGAAGAT
1 GAAAAAAAGAAGAT
14584271 GA
1 GA
14584273 GTGTGAGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (14 bp):
GAAAAAAAGAAGAT
Found at i:14584300 original size:36 final size:36
Alignment explanation
Indices: 14584260--14584371 Score: 206
Period size: 36 Copynumber: 3.1 Consensus size: 36
14584250 AAGAAATGAA
*
14584260 AAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATTT
1 AAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATTG
*
14584296 AAAAAGAAAATGAGTGTGAGAACGAAAAGAAAATTG
1 AAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATTG
14584332 AAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATTG
1 AAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATTG
14584368 AAAA
1 AAAA
14584372 GGAAACGAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 73 1.00
ACGTcount: A:0.58, C:0.03, G:0.25, T:0.14
Consensus pattern (36 bp):
AAAAAGAAGATGAGTGTGAGAACGAAAAGAAAATTG
Found at i:14584322 original size:18 final size:18
Alignment explanation
Indices: 14584301--14584359 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
14584291 AATTTAAAAA
14584301 GAAAATGAGTGTGAGAAC
1 GAAAATGAGTGTGAGAAC
* * *
14584319 GAAAA-GAAAAT-TGAAAAA
1 GAAAATG--AGTGTGAGAAC
*
14584337 GAAGATGAGTGTGAGAAC
1 GAAAATGAGTGTGAGAAC
14584355 GAAAA
1 GAAAA
14584360 GAAAATTGAA
Statistics
Matches: 29, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
17 3 0.10
18 23 0.79
19 3 0.10
ACGTcount: A:0.54, C:0.03, G:0.29, T:0.14
Consensus pattern (18 bp):
GAAAATGAGTGTGAGAAC
Found at i:14588767 original size:13 final size:14
Alignment explanation
Indices: 14588743--14588774 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14588733 TAAACACATA
14588743 ATTTTTAGGGTTTT
1 ATTTTTAGGGTTTT
14588757 ATTTTTA-GGTTTT
1 ATTTTTAGGGTTTT
14588770 -TTTTT
1 ATTTTT
14588775 CATTCTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 6 0.33
14 7 0.39
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (14 bp):
ATTTTTAGGGTTTT
Found at i:14589048 original size:20 final size:20
Alignment explanation
Indices: 14589023--14589063 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14589013 TTAACTTAAT
14589023 TAATTGATTGGATGATAGAG
1 TAATTGATTGGATGATAGAG
14589043 TAATTGATTGGATGATAGAG
1 TAATTGATTGGATGATAGAG
14589063 T
1 T
14589064 TTCTTAGCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (20 bp):
TAATTGATTGGATGATAGAG
Found at i:14590571 original size:23 final size:23
Alignment explanation
Indices: 14590545--14590590 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
14590535 CTTCGTGGTG
* *
14590545 TATTTTGTGATGCCTTTGTGGCA
1 TATTTTGTGATGCCATTGAGGCA
14590568 TATTTTGTGATGCCATTGAGGCA
1 TATTTTGTGATGCCATTGAGGCA
14590591 AAGTTGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (23 bp):
TATTTTGTGATGCCATTGAGGCA
Found at i:14593989 original size:27 final size:27
Alignment explanation
Indices: 14593834--14593991 Score: 135
Period size: 27 Copynumber: 5.9 Consensus size: 27
14593824 ATACTTTGGT
* *
14593834 TTTA-AAAATTATTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGA
*
14593860 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGA
* *
14593887 TTTACAAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACTGAAATACCCTTGA
* ** * * *
14593914 CTTGTAAAATTACCGAAGTACCCCTGA
1 TTTACAAAATTACTGAAATACCCTTGA
*
14593941 TTTGA-AAAATTAAC--AAAGTACCCTTAA
1 TTT-ACAAAATT-ACTGAAA-TACCCTTGA
* *
14593968 ATTACAAAATTATTGAAATACCCT
1 TTTACAAAATTACTGAAATACCCT
14593992 CAGTTTGGAG
Statistics
Matches: 106, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
26 8 0.08
27 93 0.88
28 5 0.05
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGA
Found at i:14594522 original size:27 final size:27
Alignment explanation
Indices: 14594484--14594539 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
14594474 TACTGATGTG
* *
14594484 GTATTGGGCTAAGGCCCACCTTGCTCT
1 GTATTGGGCTAAAGCCCACATTGCTCT
*
14594511 GTATTGGGCTAAAGCCCACATTGTTCT
1 GTATTGGGCTAAAGCCCACATTGCTCT
14594538 GT
1 GT
14594540 TCTGTTACTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (27 bp):
GTATTGGGCTAAAGCCCACATTGCTCT
Found at i:14595116 original size:19 final size:18
Alignment explanation
Indices: 14595089--14595127 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14595079 AACAACAAGG
*
14595089 TTTTGAAGGTAATAACTTT
1 TTTTAAAGG-AATAACTTT
*
14595108 TTTTAAAGGACTAACTTT
1 TTTTAAAGGAATAACTTT
14595126 TT
1 TT
14595128 AATTCACGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.49
Consensus pattern (18 bp):
TTTTAAAGGAATAACTTT
Found at i:14597190 original size:27 final size:27
Alignment explanation
Indices: 14597152--14597272 Score: 118
Period size: 27 Copynumber: 4.5 Consensus size: 27
14597142 AATACTTTGG
* * *
14597152 TTTACAAAATTACTGAATTACCCTTGA
1 TTTACAAAATTACTAAAATACCCTCGA
14597179 TTTACAAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* ** * ** *
14597206 CTTGTAAAATTACCAAAGCACCCTCGG
1 TTTACAAAATTACTAAAATACCCTCGA
*
14597233 TTTACAAAATTA-TCGAAATACCCTCGA
1 TTTACAAAATTACT-AAAATACCCTCGA
*
14597260 TTTACAACATTAC
1 TTTACAAAATTAC
14597273 CAAAGTACTC
Statistics
Matches: 73, Mismatches: 19, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTCGA
Found at i:14597229 original size:54 final size:53
Alignment explanation
Indices: 14597171--14597311 Score: 151
Period size: 54 Copynumber: 2.6 Consensus size: 53
14597161 TTACTGAATT
*
14597171 ACCCTTGATTTACAAAATTACTAAAATACCCTCGACTTGTA-AA-ATTACCAAAGC
1 ACCCTTGATTTACAAAATTA-TGAAATACCCTCGA-TT-TACAACATTACCAAAGC
* * *
14597225 ACCCTCGGTTTACAAAATTATCGAAATACCCTCGATTTACAACATTACCAAAGT
1 ACCCTTGATTTACAAAATTAT-GAAATACCCTCGATTTACAACATTACCAAAGC
* * * *
14597279 ACTCTTAAATTGCAAAATTATTGAAATACCCTC
1 ACCCTTGATTTACAAAATTA-TGAAATACCCTC
14597312 AGTTTGGAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.03
53 5 0.07
54 65 0.89
55 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (53 bp):
ACCCTTGATTTACAAAATTATGAAATACCCTCGATTTACAACATTACCAAAGC
Found at i:14597311 original size:81 final size:81
Alignment explanation
Indices: 14597150--14597298 Score: 192
Period size: 81 Copynumber: 1.8 Consensus size: 81
14597140 ACAATACTTT
* * * * * *
14597150 GGTTTACAAAATTACTGAATTACCCTTGATTTACAAAATTACTAAAATACCCTCGACTTGTAAAA
1 GGTTTACAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAAATACCCTCAAATTGCAAAA
14597215 TTACCAAAGCACCCTC
66 TTACCAAAGCACCCTC
* * * *
14597231 GGTTTACAAAATTA-TCGAAATACCCTCGATTTACAACATTACCAAAGTACTCTTAAATTGCAAA
1 GGTTTACAAAATTACT-GAAATACCCTCGATTTACAAAATTACCAAAATACCCTCAAATTGCAAA
14597295 ATTA
65 ATTA
14597299 TTGAAATACC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.02
81 56 0.98
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
GGTTTACAAAATTACTGAAATACCCTCGATTTACAAAATTACCAAAATACCCTCAAATTGCAAAA
TTACCAAAGCACCCTC
Found at i:14597841 original size:27 final size:27
Alignment explanation
Indices: 14597803--14597858 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
14597793 TACTGATGTG
* *
14597803 GTATTAGGCTAAGGCCCACCTTGTTCT
1 GTATTAGGCTAAAGCCCACATTGTTCT
*
14597830 GTATTGGGCTAAAGCCCACATTGTTCT
1 GTATTAGGCTAAAGCCCACATTGTTCT
14597857 GT
1 GT
14597859 TCTGTTACTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
GTATTAGGCTAAAGCCCACATTGTTCT
Found at i:14608352 original size:40 final size:40
Alignment explanation
Indices: 14608308--14608470 Score: 193
Period size: 40 Copynumber: 4.1 Consensus size: 40
14608298 TGAATTATTA
* *
14608308 CACTTATGTGCCCCTGTTTGTACATCGGTACCCCTAATTG
1 CACTTATGTGCCCCTGTTTGTACTTTGGTACCCCTAATTG
14608348 CACTTATGTGCCCCTGTTTGTACTTTGGTACCCCTAATTG
1 CACTTATGTGCCCCTGTTTGTACTTTGGTACCCCTAATTG
* * *
14608388 CACTTACGTGCCCATGTTTGTACTTTGGTACCCTTGAA-TG
1 CACTTATGTGCCCCTGTTTGTACTTTGGTACCCCT-AATTG
* * * * * * * *
14608428 CACATCTGTTCCCTTGTTTGCACTTTAGTGCCCCTAACTG
1 CACTTATGTGCCCCTGTTTGTACTTTGGTACCCCTAATTG
14608468 CAC
1 CAC
14608471 ATTCGTACTC
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 103 0.96
41 2 0.02
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (40 bp):
CACTTATGTGCCCCTGTTTGTACTTTGGTACCCCTAATTG
Found at i:14608361 original size:20 final size:20
Alignment explanation
Indices: 14608338--14608400 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
14608328 TACATCGGTA
14608338 CCCCTAATTGCACTTATGTG
1 CCCCTAATTGCACTTATGTG
** * *
14608358 CCCCTGTTTGTACTT-TGGTA
1 CCCCTAATTGCACTTAT-GTG
*
14608378 CCCCTAATTGCACTTACGTG
1 CCCCTAATTGCACTTATGTG
14608398 CCC
1 CCC
14608401 ATGTTTGTAC
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.16, C:0.33, G:0.16, T:0.35
Consensus pattern (20 bp):
CCCCTAATTGCACTTATGTG
Found at i:14622415 original size:51 final size:50
Alignment explanation
Indices: 14622313--14622500 Score: 189
Period size: 51 Copynumber: 3.7 Consensus size: 50
14622303 GTACCTTGAA
* * * * * * *
14622313 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGCATC-GATAGATAATGGT
1 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAAAGCT--TGGT
* * * * * **
14622364 CACATGTGTAGTATTATGTGCAGGTTACTATGTGTACCAGATGGCCTTGGT
1 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAAAG-CTTGGT
* * *
14622415 CACGTGTGTAGTACTATGTGTAGGCTACTACATGAACCAGAAAGCTTGAT
1 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAAAGCTTGGT
14622465 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA
14622501 TCGGATGATA
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 39 0.34
51 71 0.62
52 4 0.03
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAAAGCTTGGT
Found at i:14622480 original size:50 final size:51
Alignment explanation
Indices: 14622363--14622495 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 51
14622353 TAGATAATGG
* * * * ** * ** *
14622363 TCACATGTGTAGTATTATGTGCAGGTTACTATGTGTACCAGATGGCCTTGG
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGAACCAGAAAGCCTTGA
14622414 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGAACCAGAAAG-CTTGA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGAACCAGAAAGCCTTGA
14622464 TCACGTGTGTAGTACTATGTGTAGGCTACTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTAC
14622496 GTGTATCGGA
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 36 0.50
51 36 0.50
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACATGAACCAGAAAGCCTTGA
Found at i:14630028 original size:51 final size:50
Alignment explanation
Indices: 14629952--14630173 Score: 178
Period size: 51 Copynumber: 4.4 Consensus size: 50
14629942 TATGAACACG
* *
14629952 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATAGAT--TGGTCACA
* * * * *
14630003 TGTGTAGAACTATGTGCAAGCTACTATGTGTACCAGATGGCCTTGGTCACG
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATAG-ATTGGTCACA
* * * * * * * * *
14630054 TGTGTAGTACTATGTACAGGCTACTACATGAACCAAAAAGCTTGATCACG
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATAGATTGGTCACA
* * * * * *
14630104 TGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGACAATGGTCACA
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAT-AGATTGGTCACA
*
14630155 TG-GCTGGTACTATGTGCAA
1 TGTG-TAGTACTATGTGCAA
14630174 ACCACCGAAT
Statistics
Matches: 134, Mismatches: 33, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
50 40 0.30
51 89 0.66
52 4 0.03
53 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATAGATTGGTCACA
Found at i:14633424 original size:20 final size:20
Alignment explanation
Indices: 14633390--14633436 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
14633380 AGCATCATAA
* *
14633390 TGCAATACAATGGCACCGTAG
1 TGCAA-ACAAAGGCACCGAAG
14633411 TGCAAACAAAGGCACCGAAG
1 TGCAAACAAAGGCACCGAAG
14633431 TGCAAA
1 TGCAAA
14633437 AAGACTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.13
Consensus pattern (20 bp):
TGCAAACAAAGGCACCGAAG
Found at i:14637352 original size:32 final size:32
Alignment explanation
Indices: 14637311--14637518 Score: 126
Period size: 32 Copynumber: 6.4 Consensus size: 32
14637301 ATTGGAACAA
* *
14637311 AGCCATCAGTTGCAGTGATATGATCGGTACAC
1 AGCCATCAGTAGCAGTGATATGATCGGCACAC
* * * *
14637343 AGCCATCAGTAACGGTG-TAATGATTGGCACAA
1 AGCCATCAGTAGCAGTGAT-ATGATCGGCACAC
*
14637375 AGCAATCAGTAGCAGTGATATGATCGGCACAC
1 AGCCATCAGTAGCAGTGATATGATCGGCACAC
* * * *
14637407 AACCATCAGTAACAATGAAATATGATTC-GCACAA
1 AGCCATCAGTAGCAGTG--ATATGA-TCGGCACAC
* * * *
14637441 AGCCATTAGTA--A-TGATATTATGATTGGTACAA
1 AGCCATCAGTAGCAGTG--A-TATGATCGGCACAC
*
14637473 AGCCATCAGTA--A-TGATACTATGATCGGCACAA
1 AGCCATCAGTAGCAGTG--A-TATGATCGGCACAC
14637505 AGCCATCAGTAGCA
1 AGCCATCAGTAGCA
14637519 TCGCAGCAAA
Statistics
Matches: 142, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
31 6 0.04
32 112 0.79
33 1 0.01
34 21 0.15
35 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (32 bp):
AGCCATCAGTAGCAGTGATATGATCGGCACAC
Found at i:14637375 original size:64 final size:64
Alignment explanation
Indices: 14637299--14637514 Score: 215
Period size: 64 Copynumber: 3.3 Consensus size: 64
14637289 TACAATAATG
* *
14637299 TGATTGGAACAAAGCCATCAGTTGCAGTGATATGATCGGTACACAGCCATCAGTAACGGTGTAA
1 TGATTGGCACAAAGCCATCAGTTGCAGTGATATGATCGGTACACAGCCATCAGTAACGATGTAA
* * * * * *
14637363 TGATTGGCACAAAGCAATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACAATGAAAT
1 TGATTGGCACAAAGCCATCAGTTGCAGTGATATGATCGGTACACAGCCATCAGTAACGATG-TA-
14637428 A
64 A
* * * * * *
14637429 TGATTCGCACAAAGCCATTAGTAATG-A-T-ATTATGATTGGTACAAAGCCATCAGTAATGATAC
1 TGATTGGCACAAAGCCATCAGT--TGCAGTGA-TATGATCGGTACACAGCCATCAGTAACGAT-G
14637491 T-A
62 TAA
*
14637493 TGATCGGCACAAAGCCATCAGT
1 TGATTGGCACAAAGCCATCAGT
14637515 AGCATCGCAG
Statistics
Matches: 123, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
64 74 0.60
65 2 0.02
66 45 0.37
67 1 0.01
68 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (64 bp):
TGATTGGCACAAAGCCATCAGTTGCAGTGATATGATCGGTACACAGCCATCAGTAACGATGTAA
Found at i:14637846 original size:27 final size:27
Alignment explanation
Indices: 14637809--14638067 Score: 236
Period size: 27 Copynumber: 9.7 Consensus size: 27
14637799 CCACCAGTAC
*
14637809 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
*
14637836 ATTACGATCATTTTATCCTACAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
* * * *
14637863 ATTATGGTCATTTTACCTTATAGGGG-
1 ATTACGATCATTTTACCCTACAGGGGT
* ** *
14637889 ATTACGATTATTTTACCCTACAGAAGC
1 ATTACGATCATTTTACCCTACAGGGGT
* * * *
14637916 ATTACGATTATTTTAACCTACAAGGTT
1 ATTACGATCATTTTACCCTACAGGGGT
* *
14637943 ATTACGATCATTTTACCCTATAGAGGT
1 ATTACGATCATTTTACCCTACAGGGGT
*
14637970 ATTACGATCATTTTACCCTA-TGGAGGT
1 ATTACGATCATTTTACCCTACAGG-GGT
* * * *
14637997 ATTTCGGT-ATTCTACCCTACGGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
* * ** *
14638023 ATTTCGGTCATTTTACCCTATGGGGGC
1 ATTACGATCATTTTACCCTACAGGGGT
* *
14638050 ATTTCAATCATTTTACCC
1 ATTACGATCATTTTACCC
14638068 ATCGAGGGTA
Statistics
Matches: 191, Mismatches: 37, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
26 41 0.21
27 150 0.79
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
ATTACGATCATTTTACCCTACAGGGGT
Found at i:14637902 original size:80 final size:79
Alignment explanation
Indices: 14637809--14638067 Score: 261
Period size: 80 Copynumber: 3.2 Consensus size: 79
14637799 CCACCAGTAC
* *
14637809 ATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTATCCTACAGGGGTATTATGGTCAT
1 ATTACGATCATTTTACCCTACAGGGGTATTACGAT-ATTTTAACCTACAGGGGTATTATGGTCAT
*
14637874 TTTACCTTATAGGGG
65 TTTACCCTATAGGGG
* ** * * * * *
14637889 ATTACGATTATTTTACCCTACAGAAGCATTACGATTATTTTAACCTACAAGGTTATTACGATCAT
1 ATTACGATCATTTTACCCTACAGGGGTATTACGA-TATTTTAACCTACAGGGGTATTATGGTCAT
*
14637954 TTTACCCTATAGAGGT
65 TTTACCCTATAG-GGG
* * * * * *
14637970 ATTACGATCATTTTACCCTA-TGGAGGTATTTCGGTATTCTACCCTACGGGGGTATT-TCGGTCA
1 ATTACGATCATTTTACCCTACAGG-GGTATTACGATATTTTAACCTACAGGGGTATTAT-GGTCA
*
14638033 TTTTACCCTATGGGGG
64 TTTTACCCTATAGGGG
* *
14638049 CATTTCAATCATTTTACCC
1 -ATTACGATCATTTTACCC
14638068 ATCGAGGGTA
Statistics
Matches: 144, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
79 2 0.01
80 114 0.79
81 28 0.19
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (79 bp):
ATTACGATCATTTTACCCTACAGGGGTATTACGATATTTTAACCTACAGGGGTATTATGGTCATT
TTACCCTATAGGGG
Found at i:14638023 original size:26 final size:27
Alignment explanation
Indices: 14637950--14638088 Score: 129
Period size: 27 Copynumber: 5.2 Consensus size: 27
14637940 GTTATTACGA
* * * * *
14637950 TCATTTTACCCTATAGAGGTATTACGA
1 TCATTCTACCCTATGGGGGTATTTCGG
* *
14637977 TCATTTTACCCTATGGAGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGG
*
14638004 T-ATTCTACCCTACGGGGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGG
* * **
14638030 TCATTTTACCCTATGGGGGCATTTCAA
1 TCATTCTACCCTATGGGGGTATTTCGG
* *
14638057 TCATTTTACCC-ATCGAGGGTATTTCGG
1 TCATTCTACCCTAT-GGGGGTATTTCGG
14638084 TCATT
1 TCATT
14638089 ATCGGTCCAG
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 25 0.26
27 70 0.74
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (27 bp):
TCATTCTACCCTATGGGGGTATTTCGG
Found at i:14638036 original size:107 final size:107
Alignment explanation
Indices: 14637808--14638042 Score: 267
Period size: 107 Copynumber: 2.2 Consensus size: 107
14637798 CCCACCAGTA
* * * * *
14637808 CATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTATCCTACAGGGGTATTATGGTCA
1 CATTACGGTCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTACAGAGGTATTACGATCA
* * *
14637873 TTTTACCTTATAGGGGATTACGATTATTTTACCCTACAGAAG
66 TTTTACCCTATAGGGGATTACGAGTATTCTACCCTACAGAAG
* * * * *
14637915 CATTACGATTATTTTAACCTACAAGGTTATTACGATCATTTTACCCTATAGAGGTATTACGATCA
1 CATTACGGTCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTACAGAGGTATTACGATCA
* * **
14637980 TTTTACCCTAT-GGAGGTATTTCG-GTATTCTACCCTACGGGGG
66 TTTTACCCTATAGG-GG-ATTACGAGTATTCTACCCTACAGAAG
* *
14638022 TATTTCGGTCATTTTACCCTA
1 CATTACGGTCATTTTACCCTA
14638043 TGGGGGCATT
Statistics
Matches: 104, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
106 2 0.02
107 97 0.93
108 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (107 bp):
CATTACGGTCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTACAGAGGTATTACGATCA
TTTTACCCTATAGGGGATTACGAGTATTCTACCCTACAGAAG
Found at i:14643118 original size:27 final size:27
Alignment explanation
Indices: 14643085--14643139 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
14643075 ATAACAAAAT
* *
14643085 AGAACAATGTGGACTTTAGCCCAATAC
1 AGAACAAGGTGGACCTTAGCCCAATAC
*
14643112 AGAACAAGGTGGGCCTTAGCCCAATAC
1 AGAACAAGGTGGACCTTAGCCCAATAC
14643139 A
1 A
14643140 ATATCAGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (27 bp):
AGAACAAGGTGGACCTTAGCCCAATAC
Done.