Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 12 of 144
Found at i:2894833 original size:30 final size:29
Alignment explanation
Indices: 2894797--2894881 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 29
2894787 TTAATATTAT
2894797 TTTAAATTTAA-TTAAATTTAAATAAGTAAA
1 TTTAAATTTAAGTTAAATTTAAA-AA-TAAA
*
2894827 TTTAAATTTAAGATAAATTTAAAAATAAA
1 TTTAAATTTAAGTTAAATTTAAAAATAAA
* *
2894856 TTTAAAATTAATTTAAACTTTAAAAA
1 TTTAAATTTAAGTTAAA-TTTAAAAA
2894882 ATCAAAAGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.37
30 21 0.43
31 10 0.20
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (29 bp):
TTTAAATTTAAGTTAAATTTAAAAATAAA
Found at i:2894855 original size:23 final size:23
Alignment explanation
Indices: 2894829--2894872 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2894819 TAAGTAAATT
*
2894829 TAAATTTAAGATAAATTTAAAAA
1 TAAATTTAAAATAAATTTAAAAA
*
2894852 TAAATTTAAAATTAATTTAAA
1 TAAATTTAAAATAAATTTAAA
2894873 CTTTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAATTTAAAATAAATTTAAAAA
Found at i:2894856 original size:12 final size:11
Alignment explanation
Indices: 2894829--2894872 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
2894819 TAAGTAAATT
*
2894829 TAAATTTAAGA
1 TAAATTTAAAA
2894840 TAAATTTAAAAA
1 TAAATTT-AAAA
2894852 TAAATTTAAAA
1 TAAATTTAAAA
*
2894863 TTAATTTAAA
1 TAAATTTAAA
2894873 CTTTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:2894866 original size:29 final size:30
Alignment explanation
Indices: 2894809--2894881 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
2894799 TAAATTTAAT
*
2894809 TAAATTTAAATAAGTAAATTTAAATTTAAGA
1 TAAATTTAAA-AAGTAAATTTAAAATTAAGA
**
2894840 TAAATTTAAAAA-TAAATTTAAAATTAATT
1 TAAATTTAAAAAGTAAATTTAAAATTAAGA
2894869 TAAACTTTAAAAA
1 TAAA-TTTAAAAA
2894882 ATCAAAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.47
30 10 0.26
31 10 0.26
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (30 bp):
TAAATTTAAAAAGTAAATTTAAAATTAAGA
Found at i:2895337 original size:76 final size:76
Alignment explanation
Indices: 2895209--2895395 Score: 322
Period size: 76 Copynumber: 2.5 Consensus size: 76
2895199 TTGAAAATTC
* * * *
2895209 ATCTTGCTCTTACCAT-AACTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 ATCTTGCTCTTA-CTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA
2895273 GGATAGGAAATG
65 GGATAGGAAATG
2895285 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
2895350 GATAGGAAATG
66 GATAGGAAATG
2895361 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACT
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACT
2895396 ATAGGAAATA
Statistics
Matches: 106, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
75 2 0.02
76 104 0.98
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:2895417 original size:45 final size:45
Alignment explanation
Indices: 2895351--2895440 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
2895341 TTTCAAGAGG
*
2895351 ATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACT
1 ATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACT
*
2895396 ATAGGAAATAATCTTGGTCTTACTTCAATTTCAGAGATAAAGACT
1 ATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACT
2895441 TGTTATCCAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (45 bp):
ATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACT
Found at i:2895493 original size:121 final size:121
Alignment explanation
Indices: 2895275--2895516 Score: 430
Period size: 121 Copynumber: 2.0 Consensus size: 121
2895265 TTTCAAGAGG
*
2895275 ATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCA
1 ATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCA
*
2895340 ATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACT
66 ATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAAAGATAAAGACT
* * *
2895396 ATAGGAAATAATCTTGGTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCA
1 ATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCA
*
2895461 ATTTCAAGAGGATAGGAAATGATCTTGGTCTTACTTCAATTTCAAAGATAAAGACT
66 ATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAAAGATAAAGACT
2895517 TGTTATCCAA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 115 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (121 bp):
ATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCA
ATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAAAGATAAAGACT
Found at i:2895522 original size:76 final size:76
Alignment explanation
Indices: 2895396--2895714 Score: 566
Period size: 76 Copynumber: 4.2 Consensus size: 76
2895386 GATAAAGACT
*
2895396 ATAGGAAATAATCTTGGTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCA
1 ATAGGAAATGATCTTGGTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCA
2895461 ATTTCAAGAGG
66 ATTTCAAGAGG
* * *
2895472 ATAGGAAATGATCTTGGTCTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCA
1 ATAGGAAATGATCTTGGTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCA
2895537 ATTTCAAGAGG
66 ATTTCAAGAGG
2895548 ATAGGAAATGATCTTGGTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCA
1 ATAGGAAATGATCTTGGTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCA
2895613 ATTTCAAGAGG
66 ATTTCAAGAGG
* *
2895624 ATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCA
1 ATAGGAAATGATCTTGGTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCA
*
2895689 ATTTCATGAGG
66 ATTTCAAGAGG
*
2895700 ATAGGATATGATCTT
1 ATAGGAAATGATCTT
2895715 TGATTGATCT
Statistics
Matches: 232, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 232 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (76 bp):
ATAGGAAATGATCTTGGTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCA
ATTTCAAGAGG
Found at i:2895563 original size:197 final size:197
Alignment explanation
Indices: 2895228--2895592 Score: 703
Period size: 197 Copynumber: 1.9 Consensus size: 197
2895218 TTACCATAAC
2895228 TTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
1 TTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
*
2895293 CTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAA
66 CTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAA
2895358 ATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTATAGGAAATAATCTTGGTCTTACTTCA
131 ATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTATAGGAAATAATCTTGGTCTTACTTCA
2895423 AT
196 AT
*
2895425 TTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGGT
1 TTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
2895490 CTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAA
66 CTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAA
*
2895555 ATGATCTTGGTCTTACTTCAATTTCAGAGATAAAGACT
131 ATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACT
2895593 TGTTATCCAG
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 165 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (197 bp):
TTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
CTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAA
ATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTATAGGAAATAATCTTGGTCTTACTTCA
AT
Found at i:2907965 original size:58 final size:58
Alignment explanation
Indices: 2907898--2908152 Score: 329
Period size: 58 Copynumber: 4.4 Consensus size: 58
2907888 TAACTTTTGG
* *** * *
2907898 GGGTAAAAAT-GTAATTTTTGGTGAAATCGAAGCCGAAAATAGGATTTTAGG-AAGTTCGG
1 GGGT-AAAATGGTAATTTTTGGTGAAATCG-GGTTAAAAATGGGATTTT-GGAAAGTTCGA
* *
2907957 GGGTAAAATGGTAA-TTTTGGTGAAATTTGGGTTAAAAAGGGGATTTTGGAAAGTTCGA
1 GGGTAAAATGGTAATTTTTGGTGAAA-TCGGGTTAAAAATGGGATTTTGGAAAGTTCGA
* *
2908015 GGGTAAAATGGTAATTTTTGGTAAAATCGGGATT-AAAATGGGATTTTGAAAAGTTCGA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGG-TTAAAAATGGGATTTTGGAAAGTTCGA
*
2908073 GGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGGATTTTGGAAAGTTTGA
1 GGGTAAAATGGTAATTTTTGGTGAAATC-GGGTTAAAAATGGGATTTTGGAAAGTTCGA
2908132 GGGTAAAATGGTAATTTTTGG
1 GGGTAAAATGGTAATTTTTGG
2908153 ACAGTCTAGG
Statistics
Matches: 174, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
57 2 0.01
58 104 0.60
59 68 0.39
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGGGTTAAAAATGGGATTTTGGAAAGTTCGA
Found at i:2907973 original size:29 final size:28
Alignment explanation
Indices: 2907941--2908149 Score: 102
Period size: 29 Copynumber: 7.2 Consensus size: 28
2907931 CGAAAATAGG
2907941 ATTTTAGGAAGTTCGGGGGTAAAATGGTA
1 ATTTT-GGAAGTTCGGGGGTAAAATGGTA
* * * * **
2907970 ATTTTGGTGAAATT-TGGGTTAAAAAGGGG
1 ATTTT-G-GAAGTTCGGGGGTAAAATGGTA
*
2907999 ATTTTGGAAAGTTCGAGGGTAAAATGGTA
1 ATTTTGG-AAGTTCGGGGGTAAAATGGTA
** ** *
2908028 ATTTTTGGTAAAATCGGGATTAAAATGG-G
1 A-TTTTGG-AAGTTCGGGGGTAAAATGGTA
* *
2908057 ATTTTGAAAAGTTCGAGGGTAAAATGGTA
1 ATTTTG-GAAGTTCGGGGGTAAAATGGTA
* * * *
2908086 ATTTTTGGTGAA-ATCAGGGTTAAAAATGG-G
1 A-TTTT-G-GAAGTTCGGGGGT-AAAATGGTA
* *
2908116 ATTTTGGAAAGTTTGAGGGTAAAATGGTA
1 ATTTTGG-AAGTTCGGGGGTAAAATGGTA
2908145 ATTTT
1 ATTTT
2908150 TGGACAGTCT
Statistics
Matches: 127, Mismatches: 41, Indels: 24
0.66 0.21 0.12
Matches are distributed among these distances:
27 2 0.02
28 34 0.27
29 46 0.36
30 35 0.28
31 10 0.08
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.34
Consensus pattern (28 bp):
ATTTTGGAAGTTCGGGGGTAAAATGGTA
Found at i:2908726 original size:18 final size:18
Alignment explanation
Indices: 2908695--2908729 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2908685 CTGTGTTTCA
*
2908695 TTTTTAAACTAGATCTAG
1 TTTTTAAACCAGATCTAG
*
2908713 TTTTTGAACCAGATCTA
1 TTTTTAAACCAGATCTA
2908730 AGCATTTCAA
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:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
TTTTTAAACCAGATCTAG
Found at i:2909759 original size:11 final size:11
Alignment explanation
Indices: 2909726--2909769 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
2909716 TTTATTAATT
*
2909726 TAAATTTAAGA
1 TAAATTTAAAA
*
2909737 TAATTTTAAAAA
1 TAAATTT-AAAA
2909749 TAAATTTAAAA
1 TAAATTTAAAA
*
2909760 TTAATTTAAA
1 TAAATTTAAA
2909770 CTTTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:2932045 original size:55 final size:61
Alignment explanation
Indices: 2931925--2932037 Score: 148
Period size: 61 Copynumber: 2.0 Consensus size: 61
2931915 ATTATCGGGT
* * *
2931925 TTGAATTTGATAATTTTTTTTTATATTTGGGTTTCAATTTTTATTTGATTCAAGTTAGATA
1 TTGAATTTGATAATTTATTTCTATATCTGGGTTTCAATTTTTATTTGATTCAAGTTAGATA
*
2931986 TTGAATTTGATAA-TTATTTCTATA-CTGGGTTT-GA-TTTT-TTTG-TTCAAGTTAG
1 TTGAATTTGATAATTTATTTCTATATCTGGGTTTCAATTTTTATTTGATTCAAGTTAG
2932038 CTCTTGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
55 10 0.21
56 4 0.08
57 4 0.08
58 1 0.02
59 7 0.15
60 9 0.19
61 13 0.27
ACGTcount: A:0.25, C:0.04, G:0.15, T:0.56
Consensus pattern (61 bp):
TTGAATTTGATAATTTATTTCTATATCTGGGTTTCAATTTTTATTTGATTCAAGTTAGATA
Found at i:2934478 original size:21 final size:21
Alignment explanation
Indices: 2934411--2934493 Score: 78
Period size: 21 Copynumber: 3.8 Consensus size: 21
2934401 AACAACATCC
* *
2934411 AAACAACAAAAACAACAACCAA
1 AAACAACAAAAATAAC-AGCAA
* *
2934433 AATAGTAACAAAAATAACAG-TA
1 AA-A-CAACAAAAATAACAGCAA
*
2934455 AAACAACAATAAATAGCAGCAA
1 AAACAACAA-AAATAACAGCAA
2934477 AAACAACAAAAATAACA
1 AAACAACAAAAATAACA
2934494 ATAAAAGCAG
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.10
21 16 0.33
22 15 0.31
23 2 0.04
24 11 0.22
ACGTcount: A:0.69, C:0.18, G:0.05, T:0.08
Consensus pattern (21 bp):
AAACAACAAAAATAACAGCAA
Found at i:2938907 original size:43 final size:43
Alignment explanation
Indices: 2938859--2938946 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
2938849 AATTTGATAT
2938859 AAATTTAAAATTTTTAATTATTTATTTTATGTAAAAAAAATTC
1 AAATTTAAAATTTTTAATTATTTATTTTATGTAAAAAAAATTC
2938902 AAATTTAAAATTTTTAATTATTTATTTTATGTAAAAAAAATTC
1 AAATTTAAAATTTTTAATTATTTATTTTATGTAAAAAAAATTC
2938945 AA
1 AA
2938947 TTGTTGAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (43 bp):
AAATTTAAAATTTTTAATTATTTATTTTATGTAAAAAAAATTC
Found at i:2944202 original size:24 final size:24
Alignment explanation
Indices: 2944157--2944203 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2944147 TAAAAAACTA
* *
2944157 AACCCTGAAAACTCGAAAACAAAT
1 AACCCTCAAAACGCGAAAACAAAT
2944181 AACCCTCAAAACGC-AAACACAAA
1 AACCCTCAAAACGCGAAA-ACAAA
2944204 ATTCTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.55, C:0.30, G:0.06, T:0.09
Consensus pattern (24 bp):
AACCCTCAAAACGCGAAAACAAAT
Found at i:2945920 original size:49 final size:49
Alignment explanation
Indices: 2945864--2945980 Score: 146
Period size: 49 Copynumber: 2.4 Consensus size: 49
2945854 TGGTAAAATG
* * *
2945864 TGAAAATAGTGAAAACCATCTTTGTCGAGCCAACTAGGATGATAGAAAA
1 TGAAAATAGTGAAAACCATCATTGTCGAGCCAACCAAGATGATAGAAAA
* * * *
2945913 TCG-AAATAGTGAGAACCATCATTGTTGGGCCACCCAAGATGATAGAAAA
1 T-GAAAATAGTGAAAACCATCATTGTCGAGCCAACCAAGATGATAGAAAA
*
2945962 TGAAAATAGTGACAACCAT
1 TGAAAATAGTGAAAACCAT
2945981 TAGTATCAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 1 0.02
49 56 0.97
50 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (49 bp):
TGAAAATAGTGAAAACCATCATTGTCGAGCCAACCAAGATGATAGAAAA
Found at i:2945994 original size:49 final size:49
Alignment explanation
Indices: 2945901--2946008 Score: 119
Period size: 49 Copynumber: 2.2 Consensus size: 49
2945891 AGCCAACTAG
* * * ***
2945901 GATGATAGAAAATCGAAATAGTGAGAACCATCATTGTTGGGCCACCCAA
1 GATGATAGAAAATCGAAATAGTGACAACCATCAGTATCAAGCCACCCAA
* *
2945950 GATGATAGAAAAT-GAAAATAGTGACAACCATTAGTATCAAGCCACTCAA
1 GATGATAGAAAATCG-AAATAGTGACAACCATCAGTATCAAGCCACCCAA
*
2945999 GATGGTAGAA
1 GATGATAGAA
2946009 CATTCAAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 48 0.98
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (49 bp):
GATGATAGAAAATCGAAATAGTGACAACCATCAGTATCAAGCCACCCAA
Found at i:2947833 original size:28 final size:30
Alignment explanation
Indices: 2947768--2947843 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 30
2947758 ATAATTGCAT
* * * *
2947768 TATCAAACCTTGTAATAATTCATATTCACA
1 TATCATACCCTGTAATTATCCATATTCACA
2947798 TATCCATACCCTGTAATTATCCAT-TT-ACA
1 TAT-CATACCCTGTAATTATCCATATTCACA
*
2947827 TATCATACCCCGTAATT
1 TATCATACCCTGTAATT
2947844 GGTCTCTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 13 0.32
29 6 0.15
30 5 0.12
31 16 0.40
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (30 bp):
TATCATACCCTGTAATTATCCATATTCACA
Found at i:2952067 original size:59 final size:59
Alignment explanation
Indices: 2951972--2952083 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 59
2951962 ATAGCCTTAT
*
2951972 GGTACCTAAACTTATTTTAAATCTAATTTGGTACCTGAACTTGACATTGTTTTCTAATTA
1 GGTACCTAAACTTATTTTAAATCCAATTTGGTACCTGAACTTGACATT-TTTTCTAATTA
** *
2952032 GGTACCTAAACTT-TTTTGGATCCAATTTGGTACCTGAACTTGGCATTTTTTC
1 GGTACCTAAACTTATTTTAAATCCAATTTGGTACCTGAACTTGACATTTTTTC
2952084 CTAGTTTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 5 0.10
59 30 0.62
60 13 0.27
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (59 bp):
GGTACCTAAACTTATTTTAAATCCAATTTGGTACCTGAACTTGACATTTTTTCTAATTA
Found at i:2952105 original size:59 final size:60
Alignment explanation
Indices: 2951975--2952126 Score: 155
Period size: 59 Copynumber: 2.5 Consensus size: 60
2951965 GCCTTATGGT
* * * **
2951975 ACCTAAACTTATTTTAAATCTAATTTGGTACCTGAACTTGACATTGTTTTCTAATTAGGT
1 ACCTAAACTTTTTTTAGATCCAATTTGGTACCTGAACTTGACATTGTTTTCTAATTAGAA
* * * **
2952035 ACCTAAAC-TTTTTTGGATCCAATTTGGTACCTGAACTTGGCATT-TTTTCCTAGTTTTAA
1 ACCTAAACTTTTTTTAGATCCAATTTGGTACCTGAACTTGACATTGTTTT-CTAATTAGAA
* * * *
2952094 ACTTAAGCTTTTTTTAGATTCAGTTTGGTACCT
1 ACCTAAACTTTTTTTAGATCCAATTTGGTACCT
2952127 AAATTTATTA
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
58 4 0.05
59 42 0.56
60 29 0.39
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (60 bp):
ACCTAAACTTTTTTTAGATCCAATTTGGTACCTGAACTTGACATTGTTTTCTAATTAGAA
Found at i:2952316 original size:31 final size:31
Alignment explanation
Indices: 2952276--2952469 Score: 140
Period size: 31 Copynumber: 6.4 Consensus size: 31
2952266 TAAAAAAAGA
2952276 TTAGGTACCAAATTAGGAAAAAAAGTCAAGT
1 TTAGGTACCAAATTAGGAAAAAAAGTCAAGT
* **
2952307 TCAGGTACCAAATT--GAATCCCAAA---AAGT
1 TTAGGTACCAAATTAGGAA--AAAAAGTCAAGT
* * *
2952335 TTAAGTACCAACTTA-AAAAAAAAGTGTCAAGT
1 TTAGGTACCAAATTAGGAAAAAAA--GTCAAGT
* * **
2952367 TTAGGTACCAAATCAAGAAAAAGTGTCAAGT
1 TTAGGTACCAAATTAGGAAAAAAAGTCAAGT
2952398 TT-GAGTACCAAATT-GGACAAAAAA---AAGT
1 TTAG-GTACCAAATTAGGA-AAAAAAGTCAAGT
*
2952426 TTAGGTACCAAATTAGGAAAAAATGTCAAGT
1 TTAGGTACCAAATTAGGAAAAAAAGTCAAGT
* *
2952457 TCAGATACCAAAT
1 TTAGGTACCAAAT
2952470 ATTATATTAC
Statistics
Matches: 125, Mismatches: 22, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
27 3 0.02
28 36 0.29
29 9 0.07
30 3 0.02
31 53 0.42
32 16 0.13
33 5 0.04
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.23
Consensus pattern (31 bp):
TTAGGTACCAAATTAGGAAAAAAAGTCAAGT
Found at i:2952434 original size:28 final size:28
Alignment explanation
Indices: 2952394--2952448 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
2952384 AAAAAGTGTC
2952394 AAGTTTGAGTACCAAATT-GGACAAAAAA
1 AAGTTTGAGTACCAAATTAGGA-AAAAAA
2952422 AAGTTT-AGGTACCAAATTAGGAAAAAA
1 AAGTTTGA-GTACCAAATTAGGAAAAAA
2952449 TGTCAAGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 1 0.04
28 21 0.84
29 3 0.12
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (28 bp):
AAGTTTGAGTACCAAATTAGGAAAAAAA
Found at i:2952434 original size:91 final size:90
Alignment explanation
Indices: 2952276--2952469 Score: 221
Period size: 91 Copynumber: 2.1 Consensus size: 90
2952266 TAAAAAAAGA
* * **
2952276 TTAGGTACCAAATTAGGAAAAAAAGTCAAGTTCAGGTACCAAATTGAATCCCAAAAAGTTTAAGT
1 TTAGGTACCAAATCAAGAAAAAAAGTCAAGTTCAGGTACCAAATTGAATCAAAAAAAGTTTAAGT
*
2952341 ACCAACTTAAAAAAAAAGTGTCAAGT
66 ACCAAATTAAAAAAAAA-TGTCAAGT
** * * *
2952367 TTAGGTACCAAATCAAGAAAAAGTGTCAAGTT-TGAGTACCAAATTGGA-CAAAAAAAAGTTTAG
1 TTAGGTACCAAATCAAGAAAAAAAGTCAAGTTCAG-GTACCAAATTGAATC-AAAAAAAGTTTAA
**
2952430 GTACCAAATTAGGAAAAAATGTCAAGT
64 GTACCAAATTAAAAAAAAATGTCAAGT
* *
2952457 TCAGATACCAAAT
1 TTAGGTACCAAAT
2952470 ATTATATTAC
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
90 21 0.24
91 66 0.76
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.23
Consensus pattern (90 bp):
TTAGGTACCAAATCAAGAAAAAAAGTCAAGTTCAGGTACCAAATTGAATCAAAAAAAGTTTAAGT
ACCAAATTAAAAAAAAATGTCAAGT
Found at i:2954149 original size:44 final size:44
Alignment explanation
Indices: 2954057--2954155 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 44
2954047 TTTCTTACTC
* * *
2954057 TAAATCCTAAACTCCAAACCCTTGAAACCTTGAATCTCAAATCA
1 TAAATCCTAAACCCCAAACCCTTGAAACCTTGAACCTCAAACCA
*
2954101 TAAATCC-ATAACCCCAAACCCTTGAAACCTTGAACC-CTAAACCT
1 TAAATCCTA-AACCCCAAACCCTTGAAACCTTGAACCTC-AAACCA
2954145 TAAATCCTAAA
1 TAAATCCTAAA
2954156 TCCAAACTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.04
44 45 0.94
45 1 0.02
ACGTcount: A:0.41, C:0.31, G:0.04, T:0.23
Consensus pattern (44 bp):
TAAATCCTAAACCCCAAACCCTTGAAACCTTGAACCTCAAACCA
Found at i:2956798 original size:62 final size:62
Alignment explanation
Indices: 2956725--2956852 Score: 256
Period size: 62 Copynumber: 2.1 Consensus size: 62
2956715 CGTAACATTT
2956725 CAAACATAAATAATTAAAATATAATCGAAAATAAACAAAAGTGAATATTTTAATAATTTATC
1 CAAACATAAATAATTAAAATATAATCGAAAATAAACAAAAGTGAATATTTTAATAATTTATC
2956787 CAAACATAAATAATTAAAATATAATCGAAAATAAACAAAAGTGAATATTTTAATAATTTATC
1 CAAACATAAATAATTAAAATATAATCGAAAATAAACAAAAGTGAATATTTTAATAATTTATC
2956849 CAAA
1 CAAA
2956853 AACGAAATTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.30
Consensus pattern (62 bp):
CAAACATAAATAATTAAAATATAATCGAAAATAAACAAAAGTGAATATTTTAATAATTTATC
Found at i:2971459 original size:195 final size:192
Alignment explanation
Indices: 2971058--2971502 Score: 449
Period size: 195 Copynumber: 2.3 Consensus size: 192
2971048 CAGTACTCGG
* ** *
2971058 TGCTGCTCACACGAGCTATCAAGGACTCGCAACGTATGCGGTACCCCAGCCATCAATACGGTGCT
1 TGCTGCTCACACGAGCTATC-AGGACTCGCAACATATGCGGTACATCAGCCATCGATACGGTGCT
* * *
2971123 TGTTTGTAGTATAAACTGTTTCCTAATGATGCTGCTCACACGAGTTGTCGAGAGTATATGTAAAG
65 TG-TTGCAGTATAAACTGTTTCCTAACGATGCTGCTCACACGAGCTGTCGAGAG-ATATGTAAAG
* * * **
2971188 CATAGTCTCAGCCATCGTAGGGCCTATAATCCATTTAGGATCCATATCTCTTTCGTGGGTCACAA
128 CATAATCTCAGCCATCGTAAGGCCTATAATCCATTTAGGATCCATATCTCTTTCGCGACTCACAA
* *
2971253 TGC-GACTCACACGAGCTATCACGGACTCGCAACATATGCGGTACTTCAGCCATCGATACGGT-A
1 TGCTG-CTCACACGAGCTATCA-GGACTCGCAACATATGCGGTACATCAGCCATCGATACGGTGC
2971316 TCTG-TGCA-TAT-AA-T-TATTCCTTAACGATGCTGCTCACACGAGCTGTCGAGA-ATATGCAC
64 T-TGTTGCAGTATAAACTGT-TTCC-TAACGATGCTGCTCACACGAGCTGTCGAGAGATATG---
* * * * * * * * *
2971375 TTATGCATAAATTTCAGCCATCGTAAGGCCTGTAATCTATTCTTGGATTCTTTTCTCATTT-GCC
123 TAAAGCAT-AATCTCAGCCATCGTAAGGCCTATAATCCATT-TAGGATCCATATCTC-TTTCG-C
*
2971439 GACTCACGA
184 GACTCACAA
* *
2971448 TGCTGCTCACACGAGCTGTCGAGGACTCACAACATATGCGGTACATCAGCCATCG
1 TGCTGCTCACACGAGCTATC-AGGACTCGCAACATATGCGGTACATCAGCCATCG
2971503 CGTCGGTTTC
Statistics
Matches: 210, Mismatches: 26, Indels: 28
0.80 0.10 0.11
Matches are distributed among these distances:
189 6 0.03
190 5 0.02
191 30 0.14
192 9 0.04
193 30 0.14
194 15 0.07
195 113 0.54
196 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (192 bp):
TGCTGCTCACACGAGCTATCAGGACTCGCAACATATGCGGTACATCAGCCATCGATACGGTGCTT
GTTGCAGTATAAACTGTTTCCTAACGATGCTGCTCACACGAGCTGTCGAGAGATATGTAAAGCAT
AATCTCAGCCATCGTAAGGCCTATAATCCATTTAGGATCCATATCTCTTTCGCGACTCACAA
Found at i:2974881 original size:16 final size:16
Alignment explanation
Indices: 2974860--2974891 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2974850 TTGGTTATGG
2974860 GTATGTAAATATATAT
1 GTATGTAAATATATAT
*
2974876 GTATGTATATATATAT
1 GTATGTAAATATATAT
2974892 ATAAAGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
GTATGTAAATATATAT
Found at i:2980715 original size:23 final size:27
Alignment explanation
Indices: 2980667--2980724 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 27
2980657 TCATGCCTAA
2980667 TGGT-GCCAGCTCATTGATAGTATCGG-
1 TGGTGGCCAGCTCATTGATAG-ATCGGC
2980693 TGGTGGCCAGCTCA-TG-TAG-TCGGC
1 TGGTGGCCAGCTCATTGATAGATCGGC
2980717 TAGGTGGC
1 T-GGTGGC
2980725 AGGTCGATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.14
24 1 0.03
25 9 0.31
26 6 0.21
27 9 0.31
ACGTcount: A:0.16, C:0.21, G:0.36, T:0.28
Consensus pattern (27 bp):
TGGTGGCCAGCTCATTGATAGATCGGC
Found at i:2981812 original size:3 final size:3
Alignment explanation
Indices: 2981804--2981856 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
2981794 CTTTCTTTCT
* * *
2981804 TTC TTC TTC TTC TCC TTC TCC TTC TTC TTC TTC TTC TTC TTC TCC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
2981852 TTC TT
1 TTC TT
2981857 GCCTTTTCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:2986767 original size:18 final size:20
Alignment explanation
Indices: 2986738--2986781 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2986728 CTAAATAATT
2986738 TATTTT-AATA-TTATTT-A
1 TATTTTAAATATTTATTTCA
2986755 TATTTTAAATATTTATTTCA
1 TATTTTAAATATTTATTTCA
2986775 -ATTTTAA
1 TATTTTAA
2986782 TAGTGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 13 0.54
20 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTTAAATATTTATTTCA
Found at i:2998064 original size:2 final size:2
Alignment explanation
Indices: 2998057--2998112 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
2998047 ACAAATAAAC
2998057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2998099 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
2998113 GTAGGGAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3001685 original size:31 final size:32
Alignment explanation
Indices: 3001610--3001685 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 32
3001600 CCAGATACTA
* * * *
3001610 AAATAAAAAC-TTTTGAATAGTTCACTGACTT
1 AAATAAAAACTTTTTGAACAATTCAATGACTC
*
3001641 AAATGAAAA-TTTTTGAACAATTCAATGAC-C
1 AAATAAAAACTTTTTGAACAATTCAATGACTC
3001671 AAATAAAAACTTTTT
1 AAATAAAAACTTTTT
3001686 TTAATTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
30 8 0.22
31 29 0.78
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (32 bp):
AAATAAAAACTTTTTGAACAATTCAATGACTC
Found at i:3005119 original size:29 final size:30
Alignment explanation
Indices: 3005086--3005153 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
3005076 TTAGAGTTTC
*
3005086 ATGTATATAATTG-TATCAAATTAAAGTTA
1 ATGTATATAATTGATATCAAATCAAAGTTA
* * *
3005115 ATGTATACAATTGCATATCAAATCAACGTTC
1 ATGTATATAATTG-ATATCAAATCAAAGTTA
3005146 ATGTATAT
1 ATGTATAT
3005154 TTTTAGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 12 0.38
31 20 0.62
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (30 bp):
ATGTATATAATTGATATCAAATCAAAGTTA
Found at i:3009043 original size:3 final size:3
Alignment explanation
Indices: 3009035--3009066 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3009025 ACCTAACTCG
3009035 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3009067 AGGGTAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3011760 original size:18 final size:17
Alignment explanation
Indices: 3011709--3011760 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 17
3011699 ACCCGACCCG
* *
3011709 TTTTAAATT-TATAATA
1 TTTTATATTATATAATT
* *
3011725 TTTTATATTATGTTATT
1 TTTTATATTATATAATT
3011742 TTTATATATTATATAATT
1 TTT-TATATTATATAATT
3011760 T
1 T
3011761 AAAACACATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 13 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTATATTATATAATT
Found at i:3015937 original size:30 final size:30
Alignment explanation
Indices: 3015903--3016128 Score: 115
Period size: 29 Copynumber: 7.6 Consensus size: 30
3015893 GCCCGAGGGA
3015903 CAAAAATGGTAA-TTTTGGACACTTTGGGGG
1 CAAAAAT-GTAATTTTTGGACACTTTGGGGG
* * *
3015933 C-AAAATAGTAATTTTTGAACAC-TCGTGGG
1 CAAAAAT-GTAATTTTTGGACACTTTGGGGG
* * *
3015962 CAAAAAATGAAATTTTTGGACA-TCTAGGGG
1 C-AAAAATGTAATTTTTGGACACTTTGGGGG
* * ** *
3015992 TAAAAATGTAATTTTTGGA-AGTTTAAGGT
1 CAAAAATGTAATTTTTGGACACTTTGGGGG
* * * **
3016021 CAAAAATGGAATTTTAGGA-AATTTAAGGG
1 CAAAAATGTAATTTTTGGACACTTTGGGGG
* * * ** *
3016050 -TAAAATGGTAATTTTTGGAAAGTTTATGGA
1 CAAAAAT-GTAATTTTTGGACACTTTGGGGG
* * * ** *
3016080 CAAAAATGTAATTTTTGTAAAGTTTAAGGT
1 CAAAAATGTAATTTTTGGACACTTTGGGGG
3016110 CAAAAATGTAATTTTTGGA
1 CAAAAATGTAATTTTTGGA
3016129 AGTTCAAGGG
Statistics
Matches: 157, Mismatches: 31, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
28 6 0.04
29 71 0.45
30 70 0.45
31 10 0.06
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (30 bp):
CAAAAATGTAATTTTTGGACACTTTGGGGG
Found at i:3016025 original size:29 final size:29
Alignment explanation
Indices: 3015993--3016321 Score: 267
Period size: 30 Copynumber: 11.1 Consensus size: 29
3015983 ATCTAGGGGT
3015993 AAAAATGTAATTTTTGGAAGTTTAAGGTC
1 AAAAATGTAATTTTTGGAAGTTTAAGGTC
* * *
3016022 AAAAATGGAATTTTAGGAAATTTAAGGGT-
1 AAAAATGTAATTTTTGGAAGTTTAA-GGTC
* *
3016051 -AAAATGGTAATTTTTGGAAAGTTTATGGAC
1 AAAAAT-GTAATTTTTGG-AAGTTTAAGGTC
*
3016081 AAAAATGTAATTTTTGTAAAGTTTAAGGTC
1 AAAAATGTAATTTTTG-GAAGTTTAAGGTC
* *
3016111 AAAAATGTAATTTTTGGAAGTTCAAGGGC
1 AAAAATGTAATTTTTGGAAGTTTAAGGTC
* * *
3016140 -AAAATGCAATTTTTGAGAAATTTAGGGGT-
1 AAAAATGTAATTTTTG-GAAGTTTA-AGGTC
* * * * *
3016169 TAAATTGTAATTTTTGAAGAGTTTAGGGTT
1 AAAAATGTAATTTTTGGA-AGTTTAAGGTC
*
3016199 TAAAATGTAATTTTTGGAAGTTTAAGGGT-
1 AAAAATGTAATTTTTGGAAGTTTAA-GGTC
* *
3016228 TAAAATGTAATTTTTAGAAAGTTTAAGGGT-
1 AAAAATGTAATTTTT-GGAAGTTTAA-GGTC
* * *
3016258 TAAAATGTATTTTTTAGAAAGTTTAAGGGTC
1 AAAAATGTAATTTTT-GGAAGTTTAA-GGTC
* * *
3016289 -AAAATGTAATTTTAGAAAGTTTGAGGGTC
1 AAAAATGTAATTTTTGGAAGTTT-AAGGTC
3016318 AAAA
1 AAAA
3016322 TATGATTTCT
Statistics
Matches: 253, Mismatches: 31, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
28 19 0.08
29 87 0.34
30 142 0.56
31 5 0.02
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.37
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAGTTTAAGGTC
Found at i:3016183 original size:30 final size:30
Alignment explanation
Indices: 3015965--3016322 Score: 264
Period size: 29 Copynumber: 12.2 Consensus size: 30
3015955 TCGTGGGCAA
* * * * *
3015965 AAAATGAAATTTTTG-GACATCTAGGGGTA
1 AAAATGTAATTTTTGAGAAATTTAAGGGTT
* *
3015994 AAAATGTAATTTTTG-GAAGTTTAA-GGTCA
1 AAAATGTAATTTTTGAGAAATTTAAGGGT-T
* *
3016023 AAAATGGAATTTTAG-GAAATTTAAGGG-T
1 AAAATGTAATTTTTGAGAAATTTAAGGGTT
* ***
3016051 AAAATGGTAATTTTTG-GAAAGTTTATGGACA
1 AAAAT-GTAATTTTTGAGAAA-TTTAAGGGTT
* *
3016082 AAAATGTAATTTTTGTA-AAGTTTAA-GGTCA
1 AAAATGTAATTTTTG-AGAAATTTAAGGGT-T
* * *
3016112 AAAATGTAATTTTTG-GAAGTTCAAGGG-C
1 AAAATGTAATTTTTGAGAAATTTAAGGGTT
* *
3016140 AAAATGCAATTTTTGAGAAATTTAGGGGTT
1 AAAATGTAATTTTTGAGAAATTTAAGGGTT
* *
3016170 AAATTGTAATTTTTGA-AGAGTTT-AGGGTTT
1 AAAATGTAATTTTTGAGA-AATTTAAGGG-TT
*
3016200 AAAATGTAATTTTTG-GAAGTTTAAGGGTT
1 AAAATGTAATTTTTGAGAAATTTAAGGGTT
3016229 AAAATGTAATTTTT-AGAAAGTTTAAGGGTT
1 AAAATGTAATTTTTGAGAAA-TTTAAGGGTT
* *
3016259 AAAATGT-ATTTTTTAGAAAGTTTAAGGGTC
1 AAAATGTAATTTTTGAGAAA-TTTAAGGGTT
* *
3016289 AAAATGTAA-TTTT-AGAAAGTTTGAGGGTC
1 AAAATGTAATTTTTGAGAAA-TTTAAGGGTT
3016318 AAAAT
1 AAAAT
3016323 ATGATTTCTG
Statistics
Matches: 276, Mismatches: 33, Indels: 40
0.79 0.09 0.11
Matches are distributed among these distances:
28 22 0.08
29 124 0.45
30 122 0.44
31 8 0.03
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGAGAAATTTAAGGGTT
Found at i:3016261 original size:59 final size:58
Alignment explanation
Indices: 3015964--3016322 Score: 325
Period size: 59 Copynumber: 6.1 Consensus size: 58
3015954 CTCGTGGGCA
* * * * *
3015964 AAAAATGAAATTTTTGGACA-TCTAGGGGTAAAAATGTAATTTTTGGAAGTTTAA-GGT
1 AAAAATGTAATTTTTGGA-AGTTTAAGGGTTAAAATGTAATTTTTGAAAGTTTAAGGGT
* * * * **
3016021 CAAAAATGGAATTTTAGGAAATTTAAGGG-TAAAATGGTAATTTTTGGAAAGTTTATGGAC
1 -AAAAATGTAATTTTTGGAAGTTTAAGGGTTAAAAT-GTAATTTTT-GAAAGTTTAAGGGT
* * * *
3016081 AAAAATGTAATTTTTGTAAAGTTTAA-GGTCAAAAATGTAATTTTTGGAAGTTCAAGGG-
1 AAAAATGTAATTTTTG-GAAGTTTAAGGGT-TAAAATGTAATTTTTGAAAGTTTAAGGGT
* * * * *
3016139 CAAAATGCAATTTTTGAGAAATTTAGGGGTTAAATTGTAATTTTTGAAGAGTTT-AGGGTT
1 AAAAATGTAATTTTTG-GAAGTTTAAGGGTTAAAATGTAATTTTTGAA-AGTTTAAGGG-T
*
3016199 TAAAATGTAATTTTTGGAAGTTTAAGGGTTAAAATGTAATTTTTAGAAAGTTTAAGGGT
1 AAAAATGTAATTTTTGGAAGTTTAAGGGTTAAAATGTAATTTTT-GAAAGTTTAAGGGT
* * * * * *
3016258 TAAAATGTATTTTTTAGAAAGTTTAAGGGTCAAAATGTAATTTTAGAAAGTTTGAGGGT
1 AAAAATGTAATTTTT-GGAAGTTTAAGGGTTAAAATGTAATTTTTGAAAGTTTAAGGGT
*
3016317 CAAAAT
1 AAAAAT
3016323 ATGATTTCTG
Statistics
Matches: 248, Mismatches: 39, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
57 6 0.02
58 70 0.28
59 103 0.42
60 64 0.26
61 5 0.02
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (58 bp):
AAAAATGTAATTTTTGGAAGTTTAAGGGTTAAAATGTAATTTTTGAAAGTTTAAGGGT
Found at i:3017448 original size:13 final size:13
Alignment explanation
Indices: 3017417--3017482 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
3017407 TTTCTTGATT
*
3017417 TTATTT-TTATTA
1 TTATTTATTAATA
* *
3017429 ATATTTATTAATG
1 TTATTTATTAATA
*
3017442 TTATTTATTACTA
1 TTATTTATTAATA
*
3017455 TTATTTATTATTA
1 TTATTTATTAATA
* *
3017468 TT-GTTATTATTA
1 TTATTTATTAATA
3017480 TTA
1 TTA
3017483 ATTGTTTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
12 16 0.36
13 28 0.64
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (13 bp):
TTATTTATTAATA
Found at i:3017465 original size:3 final size:3
Alignment explanation
Indices: 3017417--3017482 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
3017407 TTTCTTGATT
* * * * *
3017417 TTA TTT TTA TTA ATA TTTA TTA ATG TTA TTTA TTA CTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA
*
3017465 TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
3017483 ATTGTTTTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
3 40 0.83
4 8 0.17
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:3018138 original size:17 final size:17
Alignment explanation
Indices: 3018113--3018177 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
3018103 TAAATAAATT
*
3018113 TAAACTTAAATTTTAAA
1 TAAATTTAAATTTTAAA
**
3018130 TAAATTTAAA-CCTAGAA
1 TAAATTTAAATTTTA-AA
*
3018147 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTTAAA
3018164 TAAATTTAAATTTT
1 TAAATTTAAATTTT
3018178 GTTGGGCTCG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 2 0.05
17 36 0.92
18 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTTAAA
Found at i:3018139 original size:6 final size:6
Alignment explanation
Indices: 3018099--3018176 Score: 53
Period size: 6 Copynumber: 13.8 Consensus size: 6
3018089 TAGACTTTTT
* **
3018099 AATTTA AA--TA AATTTA AACTTA AATTTTA AA--TA AATTTA AACCTA
1 AATTTA AATTTA AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTTA
*
3018144 GAA--TA AATTTA AATTTA AA-ATA AATTTA AATTT
1 -AATTTA AATTTA AATTTA AATTTA AATTTA AATTT
3018177 TGTTGGGCTC
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
4 10 0.18
5 6 0.11
6 34 0.60
7 7 0.12
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:3018176 original size:23 final size:22
Alignment explanation
Indices: 3018099--3018174 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 22
3018089 TAGACTTTTT
*
3018099 AATTTAAATAAATTTAAACTTA
1 AATTTAAATAAATTTAAACATA
*
3018121 AATTTTAAATAAATTTAAACCTA
1 AA-TTTAAATAAATTTAAACATA
3018144 GAA--TAAATTTAAATTTAAA-ATA
1 -AATTTAAA--TAAATTTAAACATA
3018166 AATTTAAAT
1 AATTTAAAT
3018175 TTTGTTGGGC
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
21 7 0.15
22 4 0.09
23 33 0.72
24 2 0.04
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (22 bp):
AATTTAAATAAATTTAAACATA
Found at i:3018821 original size:209 final size:209
Alignment explanation
Indices: 3018455--3019333 Score: 1271
Period size: 209 Copynumber: 4.2 Consensus size: 209
3018445 TGGTTTGGTG
* * **
3018455 TCATTGATTTGGT-TTACTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTATTTTGATCC
1 TCATTGATTTGGTCTT-CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCC
** * * * * *
3018519 ATTTCTCTGTGTCTCATCAGGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAAGAAGGTAA
65 GCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAA
* * * *
3018584 CCGCTTTATTGCTTCGACCTGTTTCTCAGTATCTCATCAAGAAGTTGGGGTTCAAAGATTCGCTC
130 CCACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTCGCTC
* *
3018649 ACTTTAAGCCTGGCT
195 ACTTTGAGCCTGACT
3018664 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCG
1 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCG
* * *
3018729 CTTCTCTGTATCTCATTAGGAAGATGAATTTGGTCCACTTTTCAGTATCTCATCAAGAAGCTAAC
66 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAAC
* *
3018794 CACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTTA
131 CACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTCGCTCA
3018859 CTTTGAGCCTGACT
196 CTTTGAGCCTGACT
* *
3018873 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGCAAGATGACCGCATCACTTGTTTCAATCTG
1 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCG
3018938 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAAC
66 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAAC
* * * ** *
3019003 CGCTTTATTGCTTTGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTACTCG
131 CACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTCGCTCA
* * *
3019068 CATTGAGCTTTG-TT
196 CTTTGAGC-CTGACT
*
3019082 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGTATCACTTGTTTCAATCCG
1 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCG
* * * *
3019147 CTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCCACTTTTCAGTATCTCATCAGGAAGCTAAT
66 CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAAC
* * *
3019212 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATGAGGAAGCTGGGGTT-AGAAGATTTGCTC
131 CACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCA-AAGATTCGCTC
*
3019276 ACTTTGAGCCTGATT
195 ACTTTGAGCCTGACT
* * * * *
3019291 TCATCGAGTTGGTATACTTCTCTA-TATCTCATCAAGAAGATGA
1 TCATTGATTTGGTCTTCTTCTC-AGTATCTCATCAGGAAGATGA
3019334 TCAATTCACT
Statistics
Matches: 608, Mismatches: 57, Indels: 10
0.90 0.08 0.01
Matches are distributed among these distances:
208 2 0.00
209 601 0.99
210 5 0.01
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (209 bp):
TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCG
CTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAAC
CACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTCGCTCA
CTTTGAGCCTGACT
Found at i:3027971 original size:30 final size:31
Alignment explanation
Indices: 3027932--3028162 Score: 141
Period size: 30 Copynumber: 7.8 Consensus size: 31
3027922 TAGATGCCCG
*
3027932 AGGGACAAAAATGGTAA-TTTTGGACACTTT
1 AGGGGCAAAAATGGTAATTTTTGGACACTTT
* * *
3027962 GGGGGC-AAAACGGTAATTTTTGAACAC--T
1 AGGGGCAAAAATGGTAATTTTTGGACACTTT
* *
3027990 CGTGGGCAAAAAAT-GAAATTTTTGGACA-TTT
1 AG-GGGC-AAAAATGGTAATTTTTGGACACTTT
* *
3028021 AGGGGTAAAAAT-GTAATTTTTGGA-AGTTT
1 AGGGGCAAAAATGGTAATTTTTGGACACTTT
* * *
3028050 AGGGTCAAAAATGG-AATTTTAGGA-AATTT
1 AGGGGCAAAAATGGTAATTTTTGGACACTTT
* ** * *
3028079 A-AGG-ATAAAATTATAATTTTTGGAAAGTTT
1 AGGGGCA-AAAATGGTAATTTTTGGACACTTT
* * *
3028109 ATGGACAAAAAT-GTAATTTTTGTA-ACGTTT
1 AGGGGCAAAAATGGTAATTTTTGGACAC-TTT
*
3028139 AAGGGCAAAAAT-GTAATTTTTGGA
1 AGGGGCAAAAATGGTAATTTTTGGA
3028163 AGTTCGGGGG
Statistics
Matches: 158, Mismatches: 29, Indels: 28
0.73 0.13 0.13
Matches are distributed among these distances:
27 1 0.01
28 9 0.06
29 67 0.42
30 68 0.43
31 12 0.08
32 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (31 bp):
AGGGGCAAAAATGGTAATTTTTGGACACTTT
Found at i:3028030 original size:29 final size:29
Alignment explanation
Indices: 3027998--3028309 Score: 202
Period size: 30 Copynumber: 10.6 Consensus size: 29
3027988 CTCGTGGGCA
* *
3027998 AAAAATGAAATTTTTGGACATTTAGGGGT
1 AAAAATGTAATTTTTGGAAATTTAGGGGT
*
3028027 AAAAATGTAATTTTTGGAAGTTTA-GGGT
1 AAAAATGTAATTTTTGGAAATTTAGGGGT
* * * *
3028055 CAAAAATGGAATTTTAGGAAATTTAAGGAT
1 -AAAAATGTAATTTTTGGAAATTTAGGGGT
* * * **
3028085 AAAATTATAATTTTTGGAAAGTTTATGGAC
1 AAAAATGTAATTTTTGGAAA-TTTAGGGGT
* * * *
3028115 AAAAATGTAATTTTTGTAACGTTTAAGGGC
1 AAAAATGTAATTTTTGGAA-ATTTAGGGGT
* * *
3028145 AAAAATGTAATTTTTGG-AAGTTCGGGGG
1 AAAAATGTAATTTTTGGAAATTTAGGGGT
* * *
3028173 CAAAATGCAATTTTTTAGAAATTTAGGGGT
1 AAAAATGTAA-TTTTTGGAAATTTAGGGGT
* * * *
3028203 TAAATTGTAATTTTT-AAAGAGTTTGGGGGT
1 AAAAATGTAATTTTTGGAA-A-TTTAGGGGT
* *** *
3028233 TAAAATGTAATTTTTGGTTGTTTGGGGGT
1 AAAAATGTAATTTTTGGAAATTTAGGGGT
* * *
3028262 TAAAATGTAATTTTTAGAAAGTTTGAGGGTT
1 AAAAATGTAATTTTTGGAAA-TTT-AGGGGT
3028293 AAAATATG--ATTTTTGGA
1 AAAA-ATGTAATTTTTGGA
3028310 TAGTTCAGGG
Statistics
Matches: 222, Mismatches: 49, Indels: 23
0.76 0.17 0.08
Matches are distributed among these distances:
28 19 0.09
29 96 0.43
30 97 0.44
31 7 0.03
32 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAATTTAGGGGT
Found at i:3028059 original size:59 final size:58
Alignment explanation
Indices: 3027998--3028309 Score: 227
Period size: 59 Copynumber: 5.3 Consensus size: 58
3027988 CTCGTGGGCA
*
3027998 AAAAATGAAATTTTTGGACATTTAGGGGTAAAAATGTAATTTTTGGAAGTTTAGGGTC
1 AAAAATGAAATTTTTGGAAATTTAGGGGTAAAAATGTAATTTTTGGAAGTTTAGGGTC
* * * * * * * *
3028056 AAAAATGGAATTTTAGGAAATTTAAGGATAAAATTATAATTTTTGGAAAGTTTATGGAC
1 AAAAATGAAATTTTTGGAAATTTAGGGGTAAAAATGTAATTTTTGG-AAGTTTAGGGTC
* * * * * ** *
3028115 AAAAATGTAATTTTTGTAACGTTTAAGGGCAAAAATGTAATTTTTGGAAGTTCGGGGGC
1 AAAAATGAAATTTTTGGAA-ATTTAGGGGTAAAAATGTAATTTTTGGAAGTTTAGGGTC
* * * * ** *
3028174 -AAAATGCAATTTTTTAGAAATTTAGGGGTTAAATTGTAATTTTTAAAGAGTTTGGGGGT-
1 AAAAATG-AAATTTTTGGAAATTTAGGGGTAAAAATGTAATTTTTGGA-AGTTT-AGGGTC
* * *** * * * *
3028233 TAAAATGTAATTTTTGGTTGTTTGGGGGTTAAAATGTAATTTTTAGAAAGTTTGAGGGTT
1 AAAAATGAAATTTTTGGAAATTTAGGGGTAAAAATGTAATTTTT-GGAAGTTT-AGGGTC
3028293 AAAATATG--ATTTTTGGA
1 AAAA-ATGAAATTTTTGGA
3028310 TAGTTCAGGG
Statistics
Matches: 199, Mismatches: 46, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
58 66 0.33
59 93 0.47
60 37 0.19
61 3 0.02
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (58 bp):
AAAAATGAAATTTTTGGAAATTTAGGGGTAAAAATGTAATTTTTGGAAGTTTAGGGTC
Found at i:3028079 original size:58 final size:58
Alignment explanation
Indices: 3027998--3028217 Score: 201
Period size: 58 Copynumber: 3.8 Consensus size: 58
3027988 CTCGTGGGCA
* * * *
3027998 AAAAATGAAATTTTTGGACATTTAGGGGTAAAAATGTAATTTTTGGAAGTTTAGGGTC
1 AAAAATGAAATTTTAGGAAATTTAAGGGTAAAAATGTAATTTTTGGAAGTTTAGGGAC
* * * * *
3028056 AAAAATGGAATTTTAGGAAATTTAAGGATAAAATTATAATTTTTGGAAAGTTTATGGAC
1 AAAAATGAAATTTTAGGAAATTTAAGGGTAAAAATGTAATTTTTGG-AAGTTTAGGGAC
* * * * * ** *
3028115 AAAAATGTAATTTTTGTAACGTTTAAGGGCAAAAATGTAATTTTTGGAAGTTCGGGGGC
1 AAAAATGAAATTTTAGGAA-ATTTAAGGGTAAAAATGTAATTTTTGGAAGTTTAGGGAC
* * * *
3028174 -AAAATGCAATTTTTTA-GAAATTTAGGGGTTAAATTGTAATTTTT
1 AAAAATG-AA-ATTTTAGGAAATTTAAGGGTAAAAATGTAATTTTT
3028218 AAAGAGTTTG
Statistics
Matches: 128, Mismatches: 30, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
58 65 0.51
59 37 0.29
60 26 0.20
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.37
Consensus pattern (58 bp):
AAAAATGAAATTTTAGGAAATTTAAGGGTAAAAATGTAATTTTTGGAAGTTTAGGGAC
Found at i:3028226 original size:118 final size:117
Alignment explanation
Indices: 3027998--3028226 Score: 275
Period size: 118 Copynumber: 1.9 Consensus size: 117
3027988 CTCGTGGGCA
* * * * *
3027998 AAAAATGAAATTTTTGGACATTTAGGGGTAAAAATGTAATTTTTGGAAGTTTAGGGTCAAAAATG
1 AAAAATGAAATTTTTGAACATTTAAGGGCAAAAATGTAATTTTTGGAAGTTCAGGGGCAAAAATG
* *
3028063 GAATTTTAGGAAATTTAAGGATAAAATTATAATTTTTGGAAAGTTTATGGAC
66 CAATTTTAGGAAATTTAAGGATAAAATTATAATTTTTGAAAAGTTTATGGAC
* * *
3028115 AAAAATGTAATTTTTGTAACGTTTAAGGGCAAAAATGTAATTTTTGGAAGTTCGGGGGC-AAAAT
1 AAAAATGAAATTTTTG-AACATTTAAGGGCAAAAATGTAATTTTTGGAAGTTCAGGGGCAAAAAT
* * * *
3028179 GCAATTTTTTA-GAAATTTAGGGGTTAAATTGTAATTTTT-AAAGAGTTT
65 GCAA--TTTTAGGAAATTTAAGGATAAAATTATAATTTTTGAAA-AGTTT
3028227 GGGGGTTAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
117 25 0.27
118 64 0.68
119 5 0.05
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.37
Consensus pattern (117 bp):
AAAAATGAAATTTTTGAACATTTAAGGGCAAAAATGTAATTTTTGGAAGTTCAGGGGCAAAAATG
CAATTTTAGGAAATTTAAGGATAAAATTATAATTTTTGAAAAGTTTATGGAC
Found at i:3029422 original size:13 final size:13
Alignment explanation
Indices: 3029404--3029443 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
3029394 TTTTTATTAA
3029404 TATTTATTAATGT
1 TATTTATTAATGT
* *
3029417 TATTTATTACTAT
1 TATTTATTAATGT
*
3029430 TATTTATTATTGT
1 TATTTATTAATGT
3029443 T
1 T
3029444 GTTATTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (13 bp):
TATTTATTAATGT
Found at i:3030109 original size:11 final size:10
Alignment explanation
Indices: 3030073--3030130 Score: 68
Period size: 10 Copynumber: 5.8 Consensus size: 10
3030063 TGGACTTTTT
3030073 AATTTAAATA
1 AATTTAAATA
3030083 AATTTAAACTTA
1 AATTTAAA--TA
3030095 AATTTATAATA
1 AATTTA-AATA
3030106 AATTTAAAT-
1 AATTTAAATA
3030115 --TTTAAATA
1 AATTTAAATA
3030123 AATTTAAA
1 AATTTAAA
3030131 CCTAGAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 7 0.17
10 17 0.40
11 8 0.19
12 8 0.19
13 2 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (10 bp):
AATTTAAATA
Found at i:3030112 original size:17 final size:17
Alignment explanation
Indices: 3030087--3030150 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 17
3030077 TAAATAAATT
*
3030087 TAAACTTAAATTTATAA
1 TAAATTTAAATTTATAA
3030104 TAAATTTAAATTT-TAAA
1 TAAATTTAAATTTAT-AA
** *
3030121 TAAATTTAAACCTAGAA
1 TAAATTTAAATTTATAA
3030138 TAAATTTAAATTT
1 TAAATTTAAATTT
3030151 TGTTGGGCCC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
16 1 0.03
17 38 0.97
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:3030148 original size:40 final size:40
Alignment explanation
Indices: 3030075--3030150 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
3030065 GACTTTTTAA
* **
3030075 TTTAAATAAATTTAAACTTAAATTTATAATAAATTTAAAT
1 TTTAAATAAATTTAAACCTAAATAAATAATAAATTTAAAT
*
3030115 TTTAAATAAATTTAAACCTAGAATAAAT-TTAAATTT
1 TTTAAATAAATTTAAACCTA-AATAAATAATAAATTT
3030151 TGTTGGGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 26 0.84
41 5 0.16
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (40 bp):
TTTAAATAAATTTAAACCTAAATAAATAATAAATTTAAAT
Found at i:3032180 original size:18 final size:18
Alignment explanation
Indices: 3032157--3032199 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
3032147 CGATTTTTTC
3032157 TTCGAACCACTCGAAACA
1 TTCGAACCACTCGAAACA
** *
3032175 TTCGAACTGCTCGAACCA
1 TTCGAACCACTCGAAACA
3032193 TTCGAAC
1 TTCGAAC
3032200 ACAACCTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.21
Consensus pattern (18 bp):
TTCGAACCACTCGAAACA
Found at i:3032298 original size:15 final size:15
Alignment explanation
Indices: 3032280--3032388 Score: 155
Period size: 15 Copynumber: 7.3 Consensus size: 15
3032270 ATTTTGAAAT
*
3032280 GATTTGGGATTTCAC
1 GATTAGGGATTTCAC
*
3032295 GATTTGGGATTTCAC
1 GATTAGGGATTTCAC
*
3032310 GATTAGGGATTTCAT
1 GATTAGGGATTTCAC
*
3032325 GATTAGGGATTTCAT
1 GATTAGGGATTTCAC
* *
3032340 TATTTGGGATTTCAC
1 GATTAGGGATTTCAC
*
3032355 GATTAGGGATTTCAT
1 GATTAGGGATTTCAC
3032370 GATTAGGGATTTCAC
1 GATTAGGGATTTCAC
3032385 GATT
1 GATT
3032389 TTCGTTCTTA
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 85 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (15 bp):
GATTAGGGATTTCAC
Found at i:3032334 original size:45 final size:45
Alignment explanation
Indices: 3032278--3032389 Score: 197
Period size: 45 Copynumber: 2.5 Consensus size: 45
3032268 AAATTTTGAA
*
3032278 ATGATTTGGGATTTCACGATTTGGGATTTCACGATTAGGGATTTC
1 ATGATTAGGGATTTCACGATTTGGGATTTCACGATTAGGGATTTC
**
3032323 ATGATTAGGGATTTCATTATTTGGGATTTCACGATTAGGGATTTC
1 ATGATTAGGGATTTCACGATTTGGGATTTCACGATTAGGGATTTC
3032368 ATGATTAGGGATTTCACGATTT
1 ATGATTAGGGATTTCACGATTT
3032390 TCGTTCTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.41
Consensus pattern (45 bp):
ATGATTAGGGATTTCACGATTTGGGATTTCACGATTAGGGATTTC
Found at i:3041588 original size:42 final size:42
Alignment explanation
Indices: 3041541--3041621 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
3041531 TTTGAAACAT
*
3041541 GGTCGTGTGGCTCACACGGTCGTGTGTCCAACCCGTGTGACA
1 GGTCGTGTGGCTCACACAGTCGTGTGTCCAACCCGTGTGACA
* *
3041583 GGTCGTGTGGCTCACATAGTCGTGTGTCCGACCCGTGTG
1 GGTCGTGTGGCTCACACAGTCGTGTGTCCAACCCGTGTG
3041622 GCTTCTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.12, C:0.27, G:0.35, T:0.26
Consensus pattern (42 bp):
GGTCGTGTGGCTCACACAGTCGTGTGTCCAACCCGTGTGACA
Found at i:3044712 original size:21 final size:21
Alignment explanation
Indices: 3044683--3044759 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
3044673 GTAGTTTTTA
*
3044683 GTATCGGTAGAAG-CATGACTT
1 GTATCGGTAGAAGTC-TCACTT
* *
3044704 GTATTGGTAGATGTCTCACTT
1 GTATCGGTAGAAGTCTCACTT
* * *
3044725 GTATCGGTAGAACTGTCA-TAA
1 GTATCGGTAGAAGTCTCACT-T
3044746 GTATCGGTAGAAGT
1 GTATCGGTAGAAGT
3044760 TTGCACTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.32
Consensus pattern (21 bp):
GTATCGGTAGAAGTCTCACTT
Found at i:3045860 original size:21 final size:22
Alignment explanation
Indices: 3045831--3045881 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
3045821 TTCGATTTAA
3045831 ATAATAAAAGCATTTTATTAAT-T
1 ATAA-AAAA-CATTTTATTAATAT
*
3045854 ATAAAAAATATTTTATTAATAT
1 ATAAAAAACATTTTATTAATAT
3045876 ATAAAA
1 ATAAAA
3045882 TAAAATGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
22 11 0.42
23 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAAAAACATTTTATTAATAT
Found at i:3046992 original size:2 final size:2
Alignment explanation
Indices: 3046947--3046975 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3046937 ATATTGTTTT
3046947 TA 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 TA T
3046976 TATGTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3058901 original size:144 final size:144
Alignment explanation
Indices: 3058645--3058952 Score: 365
Period size: 144 Copynumber: 2.1 Consensus size: 144
3058635 CAAAGAGGAA
* * * *
3058645 GGGATGGGACCCAA-AAGCATATTGGAGGATAGATCCAGTGTAACACAATTTATTAGTCTCCCAA
1 GGGATTGGA-CCAACAAGCATATTAGAAGATAGATCCAGTGTAACACAATTTATCAGTCTCCCAA
*
3058709 TTTCCTGTGGAATGCATCCATGAAGTTGGTTGTCACCAAGAACCAACGA-TGCAAGATTGGTCAA
65 TTTCCTGTGGAATGCATCCATGAAGTTGGTTGCCACCAAGAACCAACGACTG-AAGATTGGT-AA
*
3058773 G-TTGTTGACAGAAGAT
128 GATTGCTGACAGAAGAT
*
3058789 GGGATTGGACCAACAAGCATATTAGAAGATAGATCCAGTGTAATCA-AATTTGTCAGTCTCCCAA
1 GGGATTGGACCAACAAGCATATTAGAAGATAGATCCAGTGTAA-CACAATTTATCAGTCTCCCAA
* * *** * ** * *
3058853 TTTCTTGTGGAATGGATCCACT-AAGTTGGTTGCCTTGAAGGAGTAACGACTGTAGATTGGTTAG
65 TTTCCTGTGGAATGCATCCA-TGAAGTTGGTTGCCACCAAGAACCAACGACTGAAGATTGGTAAG
*
3058917 ATTGCTGATAGAAGAT
129 ATTGCTGACAGAAGAT
*
3058933 GGGATTGGACCAACGAGCAT
1 GGGATTGGACCAACAAGCAT
3058953 GTTGTTCGAG
Statistics
Matches: 140, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
143 6 0.04
144 129 0.92
145 5 0.04
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (144 bp):
GGGATTGGACCAACAAGCATATTAGAAGATAGATCCAGTGTAACACAATTTATCAGTCTCCCAAT
TTCCTGTGGAATGCATCCATGAAGTTGGTTGCCACCAAGAACCAACGACTGAAGATTGGTAAGAT
TGCTGACAGAAGAT
Found at i:3065800 original size:52 final size:52
Alignment explanation
Indices: 3065723--3065823 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
3065713 AAGGTAGCAA
* * ** * *
3065723 TTTTACATTGATTGAGAAACTTTTTAGGTTGACCATCTTATTTTACATGCAG
1 TTTTACATTGACTGAGAAAATTTTTACATTAACCATCCTATTTTACATGCAG
*
3065775 TTTTACATTGACTGA-AAAATATTTTACATTAATCATCCTATTTTACATG
1 TTTTACATTGACTGAGAAAAT-TTTTACATTAACCATCCTATTTTACATG
3065824 AAACAAACAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 4 0.10
52 37 0.90
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.45
Consensus pattern (52 bp):
TTTTACATTGACTGAGAAAATTTTTACATTAACCATCCTATTTTACATGCAG
Found at i:3066017 original size:21 final size:22
Alignment explanation
Indices: 3065981--3066024 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
3065971 AAATCCCAAT
*
3065981 TTCATTTTTCTTATTATTTTTA
1 TTCATTTATCTTATTATTTTTA
3066003 TTCATTTAT-TTATTATTTTTA
1 TTCATTTATCTTATTATTTTTA
3066024 T
1 T
3066025 GAACATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (22 bp):
TTCATTTATCTTATTATTTTTA
Found at i:3066152 original size:17 final size:17
Alignment explanation
Indices: 3066126--3066208 Score: 103
Period size: 17 Copynumber: 4.9 Consensus size: 17
3066116 AATCATTTTG
* *
3066126 AATTTGTTTTAAAATTA
1 AATTTATTTTAAATTTA
*
3066143 AATTTATTTTAAATTTG
1 AATTTATTTTAAATTTA
*
3066160 AATTTAATTTAAATTTA
1 AATTTATTTTAAATTTA
*
3066177 AATTTAATTTAAATTTA
1 AATTTATTTTAAATTTA
* *
3066194 AAATTATTATAAATT
1 AATTTATTTTAAATT
3066209 CAATGTCCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 58 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:3066152 original size:28 final size:28
Alignment explanation
Indices: 3066120--3066195 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
3066110 CAATCAAATC
* *
3066120 ATTTTGAATTTG-TTTTAAAATTAAATTT
1 ATTTTAAATTTGAATTT-AAATTAAATTT
*
3066148 ATTTTAAATTTGAATTTAATTTAAATTT
1 ATTTTAAATTTGAATTTAAATTAAATTT
* *
3066176 AAATTT-AATTTAAATTTAAA
1 -ATTTTAAATTTGAATTTAAA
3066196 ATTATTATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 33 0.82
29 7 0.17
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
ATTTTAAATTTGAATTTAAATTAAATTT
Found at i:3066154 original size:11 final size:11
Alignment explanation
Indices: 3066140--3066194 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
3066130 TGTTTTAAAA
*
3066140 TTAAATTTATT
1 TTAAATTTAAT
3066151 TTAAATTTGAAT
1 TTAAATTT-AAT
3066163 TT-AATTTAAAT
1 TTAAATTT-AAT
3066174 TTAAATTTAAT
1 TTAAATTTAAT
3066185 TTAAATTTAA
1 TTAAATTTAA
3066195 AATTATTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
11 31 0.77
12 9 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:3066163 original size:6 final size:6
Alignment explanation
Indices: 3066133--3066195 Score: 78
Period size: 6 Copynumber: 11.0 Consensus size: 6
3066123 TTGAATTTGT
* * *
3066133 TTTAAA ATTAAA TTT-AT TTTAAA TTTGAA TTT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
3066179 TTT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
3066196 ATTATTATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
5 14 0.29
6 35 0.71
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:3076740 original size:27 final size:27
Alignment explanation
Indices: 3076700--3076754 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
3076690 TGATAATATA
*
3076700 ATTGATTCGACTAATAATCTTATTATG
1 ATTGATTCGACTAATAATCTGATTATG
3076727 ATTGATTC-AGCTAATAATCTGATTATG
1 ATTGATTCGA-CTAATAATCTGATTATG
3076754 A
1 A
3076755 CAATATTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (27 bp):
ATTGATTCGACTAATAATCTGATTATG
Found at i:3085061 original size:72 final size:72
Alignment explanation
Indices: 3084936--3085085 Score: 219
Period size: 72 Copynumber: 2.1 Consensus size: 72
3084926 ATTGGCCTAA
* * * * *
3084936 GGTAGAAGGGGTAGGACCAGTAATTTGGTTTCCGGATAATTTCAAAAAGTTCAAGTTGGTTAAGT
1 GGTAGAAGGGATAGGACCAATAATTTGGTTTCCAGATAAGTCCAAAAAGTTCAAGTTGGTTAAGT
3085001 TGCCCAG
66 TGCCCAG
* * * *
3085008 GGTAGAAGGGATAGGACCAATAATTTGGTTTTCAGATAGGTCCAACAATTTCAAGTTGGTTAAGT
1 GGTAGAAGGGATAGGACCAATAATTTGGTTTCCAGATAAGTCCAAAAAGTTCAAGTTGGTTAAGT
3085073 TGCCCAG
66 TGCCCAG
3085080 GGTAGA
1 GGTAGA
3085086 GCTCTTTTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.29
Consensus pattern (72 bp):
GGTAGAAGGGATAGGACCAATAATTTGGTTTCCAGATAAGTCCAAAAAGTTCAAGTTGGTTAAGT
TGCCCAG
Found at i:3087725 original size:30 final size:29
Alignment explanation
Indices: 3087648--3087725 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
3087638 TCACTCACGA
*
3087648 ATATCAATAAAAACAAAAAATAAAAATTAG
1 ATAT-AATAAAAATAAAAAATAAAAATTAG
* * * *
3087678 ATATAATATGAATTAAAAAATAAAAGTTAT
1 ATATAATA-AAAATAAAAAATAAAAATTAG
3087708 ATATAATACAAAATAAAA
1 ATATAATA-AAAATAAAA
3087726 TAATCAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 4 0.10
30 35 0.90
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (29 bp):
ATATAATAAAAATAAAAAATAAAAATTAG
Found at i:3088154 original size:26 final size:28
Alignment explanation
Indices: 3088116--3088173 Score: 93
Period size: 27 Copynumber: 2.1 Consensus size: 28
3088106 TTTTTTAAAA
*
3088116 TTTAAAAATTTAAAATTATAAAAT-TAT
1 TTTAAAAATTTAAAAATATAAAATATAT
3088143 TTTAAAAA-TTAAAAATATAAAATATAT
1 TTTAAAAATTTAAAAATATAAAATATAT
3088170 TTTA
1 TTTA
3088174 TAATGAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTAAAAATTTAAAAATATAAAATATAT
Found at i:3088484 original size:21 final size:22
Alignment explanation
Indices: 3088459--3088499 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3088449 ATAAAAATAC
3088459 TTTA-TTTAACAA-TACTTTTAT
1 TTTATTTTAA-AAGTACTTTTAT
3088480 TTTATTTTAAAAGTACTTTT
1 TTTATTTTAAAAGTACTTTT
3088500 TATCCCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTATTTTAAAAGTACTTTTAT
Found at i:3099481 original size:12 final size:12
Alignment explanation
Indices: 3099464--3099493 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
3099454 GTGGTTATGC
3099464 CTTGTCTGATTT
1 CTTGTCTGATTT
3099476 CTTGTCTGATTT
1 CTTGTCTGATTT
3099488 CTTGTC
1 CTTGTC
3099494 GGATGATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.20, G:0.17, T:0.57
Consensus pattern (12 bp):
CTTGTCTGATTT
Found at i:3101139 original size:15 final size:15
Alignment explanation
Indices: 3101115--3101182 Score: 100
Period size: 15 Copynumber: 4.5 Consensus size: 15
3101105 GACTTCCTGC
*
3101115 TTTGACTTGTCATCT
1 TTTGATTTGTCATCT
*
3101130 TTTGATTTGTCGTCT
1 TTTGATTTGTCATCT
* *
3101145 TTGGATTTGTCGTCT
1 TTTGATTTGTCATCT
3101160 TTTGATTTGTCATCT
1 TTTGATTTGTCATCT
3101175 TTTGATTT
1 TTTGATTT
3101183 TTCGCCATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.10, C:0.13, G:0.18, T:0.59
Consensus pattern (15 bp):
TTTGATTTGTCATCT
Found at i:3101712 original size:15 final size:13
Alignment explanation
Indices: 3101682--3101724 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 13
3101672 AAATATCCCC
3101682 AAAAATCTAAAAAA
1 AAAAAT-TAAAAAA
3101696 AAAAATTAAAATTAA
1 AAAAATTAAAA--AA
3101711 AAAAATTAAAAAA
1 AAAAATTAAAAAA
3101724 A
1 A
3101725 TCAATTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.30
14 6 0.22
15 13 0.48
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAATTAAAAAA
Found at i:3106495 original size:9 final size:9
Alignment explanation
Indices: 3106477--3106507 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
3106467 GGAGTTGATC
3106477 CGAATAACT
1 CGAATAACT
*
3106486 CGATTAACT
1 CGAATAACT
3106495 CGAATAACT
1 CGAATAACT
3106504 CGAA
1 CGAA
3106508 CTATTTAATT
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:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (9 bp):
CGAATAACT
Found at i:3112401 original size:59 final size:61
Alignment explanation
Indices: 3112324--3112440 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
3112314 ATCACTTTAA
* * *
3112324 TATTAAATTAACATAATATTTA-T-CAAGATAAATATTAGATTAAAGTTAATATTAAATCT
1 TATTAAAATAACAAAATATTTACTACAAGATAAATATTAAATTAAAGTTAATATTAAATCT
* * * *
3112383 TATTAAAATAATAAAATATTTATCTACAATATAAATATTAAATTTAATTTAATATTAA
1 TATTAAAATAACAAAATATTTA-CTACAAGATAAATATTAAATTAAAGTTAATATTAA
3112441 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 19 0.40
61 1 0.02
62 28 0.58
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (61 bp):
TATTAAAATAACAAAATATTTACTACAAGATAAATATTAAATTAAAGTTAATATTAAATCT
Found at i:3112479 original size:25 final size:25
Alignment explanation
Indices: 3112425--3112489 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
3112415 AAATATTAAA
*
3112425 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
3112450 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
**
3112474 TATTAAAATAATATTA
1 T-TTAATTTAATATTA
3112490 TTGTTGGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 6 0.18
25 23 0.70
26 4 0.12
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:3117495 original size:25 final size:25
Alignment explanation
Indices: 3117451--3117498 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
3117441 CGACGACTGG
* * *
3117451 TGGTGGTCTGGTCGATGGTGGCCGA
1 TGGTGGTCTGATCAACGGTGGCCGA
3117476 TGGTGGTCTGATCAACGGTGGCC
1 TGGTGGTCTGATCAACGGTGGCC
3117499 AAACGGTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.10, C:0.19, G:0.44, T:0.27
Consensus pattern (25 bp):
TGGTGGTCTGATCAACGGTGGCCGA
Found at i:3118696 original size:15 final size:15
Alignment explanation
Indices: 3118676--3118743 Score: 100
Period size: 15 Copynumber: 4.5 Consensus size: 15
3118666 CAATGGCGAA
*
3118676 AAATCAAAAGATGAC
1 AAATCAAAAGACGAC
3118691 AAATCAAAAGACGAC
1 AAATCAAAAGACGAC
*
3118706 AAATCCAAAGACGAC
1 AAATCAAAAGACGAC
*
3118721 AAATCAAAAGATGAC
1 AAATCAAAAGACGAC
*
3118736 AAGTCAAA
1 AAATCAAA
3118744 GCAGGAAGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.59, C:0.18, G:0.13, T:0.10
Consensus pattern (15 bp):
AAATCAAAAGACGAC
Found at i:3134497 original size:20 final size:20
Alignment explanation
Indices: 3134442--3134485 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
3134432 TAGTTTCTGA
*
3134442 AAAATAAATTACTTTTTTGG
1 AAAATGAATTACTTTTTTGG
3134462 AAAATGAATTACTTTTTTGG
1 AAAATGAATTACTTTTTTGG
3134482 AAAA
1 AAAA
3134486 GTTAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (20 bp):
AAAATGAATTACTTTTTTGG
Found at i:3139160 original size:13 final size:13
Alignment explanation
Indices: 3139142--3139166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3139132 AAACCTAAGA
3139142 ATTACTTCCAACG
1 ATTACTTCCAACG
3139155 ATTACTTCCAAC
1 ATTACTTCCAAC
3139167 AATGTTGCCG
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:0.32, C:0.32, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTACTTCCAACG
Found at i:3143458 original size:49 final size:49
Alignment explanation
Indices: 3143399--3143517 Score: 161
Period size: 49 Copynumber: 2.4 Consensus size: 49
3143389 GCCACGTCAG
* * *
3143399 CAAATGATTTTAAAATT-A-TTAAAATTATTTTTTAAAATATAAATTTATT
1 CAAATTATTTTAAAATTAATTTAAAA-T-TTTTTTAAAATAAAAAATTATT
3143448 CAAATTATTTTAAAATTAATTTAAAATTTTTTTAAAATAAAAAATTATT
1 CAAATTATTTTAAAATTAATTTAAAATTTTTTTAAAATAAAAAATTATT
*
3143497 AAAATTATTTTAAAATATAAT
1 CAAATTATTTTAAAAT-TAAT
3143518 CATCATCTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
49 51 0.81
50 6 0.10
51 6 0.10
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (49 bp):
CAAATTATTTTAAAATTAATTTAAAATTTTTTTAAAATAAAAAATTATT
Found at i:3143465 original size:11 final size:11
Alignment explanation
Indices: 3143400--3143512 Score: 62
Period size: 11 Copynumber: 10.4 Consensus size: 11
3143390 CCACGTCAGC
*
3143400 AAATGATTTTA
1 AAATTATTTTA
3143411 AAATTA--TTA
1 AAATTATTTTA
3143420 AAATTATTTTTTA
1 AAATTA--TTTTA
*
3143433 AAATATAAATTTATTC
1 AAAT-T--A-TT-TTA
3143449 AAATTATTTTA
1 AAATTATTTTA
*
3143460 AAATTAATTTA
1 AAATTATTTTA
*
3143471 AAATTTTTTTA
1 AAATTATTTTA
*
3143482 AAA-TA---AA
1 AAATTATTTTA
3143489 AAATTA--TTA
1 AAATTATTTTA
3143498 AAATTATTTTA
1 AAATTATTTTA
3143509 AAAT
1 AAAT
3143513 ATAATCATCA
Statistics
Matches: 81, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
7 4 0.05
8 2 0.02
9 16 0.20
10 1 0.01
11 36 0.44
12 2 0.02
13 8 0.10
14 1 0.01
15 4 0.05
16 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:3143480 original size:22 final size:22
Alignment explanation
Indices: 3143406--3143485 Score: 74
Period size: 22 Copynumber: 3.4 Consensus size: 22
3143396 CAGCAAATGA
3143406 TTTTAAAATT-A-TTAAAATTATT
1 TTTTAAAATTAATTTAAAA-T-TT
*
3143428 TTTTAAAATATAAATTTATTCAAATTA
1 TTTTAAAAT-T-AATTTA---AAATTT
3143455 TTTTAAAATTAATTTAAAATTT
1 TTTTAAAATTAATTTAAAATTT
3143477 TTTTAAAAT
1 TTTTAAAAT
3143486 AAAAAATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
22 23 0.47
23 1 0.02
25 7 0.14
26 4 0.08
27 10 0.20
28 1 0.02
29 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTAAAATTAATTTAAAATTT
Found at i:3143583 original size:16 final size:16
Alignment explanation
Indices: 3143564--3143594 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3143554 GTTGTTCCTT
3143564 TTCCCCTTATTTTCTG
1 TTCCCCTTATTTTCTG
3143580 TTCCCCTTATTTTCT
1 TTCCCCTTATTTTCT
3143595 TCCCCATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.32, G:0.03, T:0.58
Consensus pattern (16 bp):
TTCCCCTTATTTTCTG
Found at i:3144930 original size:22 final size:21
Alignment explanation
Indices: 3144905--3144947 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3144895 TTTATTAAAC
3144905 TGTATAATTAAACAATTA-ATTT
1 TGTA-AATTAAA-AATTATATTT
*
3144927 TGTAAATTTAAAATTATATTT
1 TGTAAATTAAAAATTATATTT
3144948 ATAATAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (21 bp):
TGTAAATTAAAAATTATATTT
Found at i:3147469 original size:18 final size:18
Alignment explanation
Indices: 3147446--3147480 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3147436 AATTAAATTA
*
3147446 ATTATATATATTCATAAT
1 ATTATATATATTAATAAT
3147464 ATTATATATATTAATAA
1 ATTATATATATTAATAA
3147481 AAATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATATATATTAATAAT
Found at i:3148332 original size:2 final size:2
Alignment explanation
Indices: 3148267--3148313 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3148257 AATTAATCCA
3148267 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3148309 AT AT A
1 AT AT A
3148314 AAAGTATGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3148855 original size:13 final size:13
Alignment explanation
Indices: 3148837--3148862 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3148827 TGTTTCGAGC
3148837 TTTTTTAATTAAT
1 TTTTTTAATTAAT
3148850 TTTTTTAATTAAT
1 TTTTTTAATTAAT
3148863 AAATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTTAATTAAT
Found at i:3149970 original size:30 final size:30
Alignment explanation
Indices: 3149936--3150176 Score: 267
Period size: 30 Copynumber: 8.2 Consensus size: 30
3149926 CGAAGAATTT
* * *
3149936 GGGGTCAAAATGTGATTTTGGGAAAGTTTA
1 GGGGTTAAAATGTGATTTTTGAAAAGTTTA
* *
3149966 GGGGTTAAAATGTGATTTTTGAAAAGCTTG
1 GGGGTTAAAATGTGATTTTTGAAAAGTTTA
*
3149996 GGGGTTAAAATGTGATTTTTGAAAAGTTCA
1 GGGGTTAAAATGTGATTTTTGAAAAGTTTA
* *
3150026 AGGGTTAAAATGTGATTTTTGGAAAGTTTA
1 GGGGTTAAAATGTGATTTTTGAAAAGTTTA
** * * *
3150056 GATGTTAAAATATAATTTTGGAAAAGTTTA
1 GGGGTTAAAATGTGATTTTTGAAAAGTTTA
*
3150086 AGGGTTAAAATGT-ATTTTTGGAAAAGTTT-
1 GGGGTTAAAATGTGATTTTT-GAAAAGTTTA
*
3150115 GGGGTTAAAATGTGATTTTTG-GAAGTTTA
1 GGGGTTAAAATGTGATTTTTGAAAAGTTTA
* * *
3150144 AGGGTT-AAATATGA-TTTTGCAAAGTTTA
1 GGGGTTAAAATGTGATTTTTGAAAAGTTTA
*
3150172 AGGGT
1 GGGGT
3150177 CTTTTAAGCA
Statistics
Matches: 179, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
27 5 0.03
28 25 0.14
29 23 0.13
30 126 0.70
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.38
Consensus pattern (30 bp):
GGGGTTAAAATGTGATTTTTGAAAAGTTTA
Found at i:3150050 original size:90 final size:89
Alignment explanation
Indices: 3149937--3150176 Score: 299
Period size: 90 Copynumber: 2.7 Consensus size: 89
3149927 GAAGAATTTG
* * * * **
3149937 GGGTCAAAATGTGATTTTGGGAAAGTTTAGGGGTTAAAATGTGATTTTTGAAAAGCTTGGGGGTT
1 GGGTTAAAATGTGATTTTTGGAAAGTTTAGGGGTTAAAATATGATTTTGGAAAAGCTTAAGGGTT
3150002 AAAATGTGATTTTT-GAAAAGTTCAA
66 AAAATGT-ATTTTTGGAAAAGTT-AA
** * *
3150027 GGGTTAAAATGTGATTTTTGGAAAGTTTAGATGTTAAAATATAATTTTGGAAAAGTTTAAGGGTT
1 GGGTTAAAATGTGATTTTTGGAAAGTTTAGGGGTTAAAATATGATTTTGGAAAAGCTTAAGGGTT
**
3150092 AAAATGTATTTTTGGAAAAGTTTG
66 AAAATGTATTTTTGGAAAAGTTAA
* * *
3150116 GGGTTAAAATGTGATTTTTGG-AAGTTTAAGGGTT-AAATATGATTTT-GCAAAGTTTAAGGGT
1 GGGTTAAAATGTGATTTTTGGAAAGTTTAGGGGTTAAAATATGATTTTGGAAAAGCTTAAGGGT
3150177 CTTTTAAGCA
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
86 14 0.11
87 11 0.08
88 10 0.08
89 27 0.20
90 70 0.53
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.38
Consensus pattern (89 bp):
GGGTTAAAATGTGATTTTTGGAAAGTTTAGGGGTTAAAATATGATTTTGGAAAAGCTTAAGGGTT
AAAATGTATTTTTGGAAAAGTTAA
Found at i:3152050 original size:39 final size:39
Alignment explanation
Indices: 3151964--3152268 Score: 182
Period size: 39 Copynumber: 7.8 Consensus size: 39
3151954 ATTGGAGGGT
* *
3151964 TGCAATCTGCCCCTA-GCTCGGGGTAAGAGATTGGCTAATGG-
1 TGCAATCTG-CCCTAGGCTCGGGGTAAAAGA-T--CGAATGGC
3152005 TG--ATCTGCCCTAGGCTCGGGGTAAAAGATCGAATGGC
1 TGCAATCTGCCCTAGGCTCGGGGTAAAAGATCGAATGGC
* *
3152042 TGCAATCTGCCCTCGGCTCGGCGTAAAAGATCGAATGGC
1 TGCAATCTGCCCTAGGCTCGGGGTAAAAGATCGAATGGC
* * * * *
3152081 TGTAATCTGCTC-AAGCTCGGGGTAAAAGATTGGATGGC
1 TGCAATCTGCCCTAGGCTCGGGGTAAAAGATCGAATGGC
** * ** * *
3152119 TGTTATCTGTCCC-AAGCTTAGGGTAAGAGATTGACTGATGG-
1 TGCAATCTG-CCCTAGGCTCGGGGTAAAAGATCGA---ATGGC
* *
3152160 TG--ATCTGTCAC-AGGCTCGGGGTAAAAGATCGGATGGC
1 TGCAATCTG-CCCTAGGCTCGGGGTAAAAGATCGAATGGC
* * * * ** *
3152197 TACAATCTGTCCTAAGC-CTGGGGTAAAAGATTGGCTGAC
1 TGCAATCTGCCCTAGGCTC-GGGGTAAAAGATCGAATGGC
** * *
3152236 TGTGATCTGCCCCAGGCTCAGGGTAAAAGATCG
1 TGCAATCTGCCCTAGGCTCGGGGTAAAAGATCG
3152269 GAATCTTTAT
Statistics
Matches: 211, Mismatches: 39, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
36 10 0.05
37 3 0.01
38 37 0.18
39 152 0.72
40 1 0.00
41 4 0.02
42 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (39 bp):
TGCAATCTGCCCTAGGCTCGGGGTAAAAGATCGAATGGC
Found at i:3152194 original size:78 final size:76
Alignment explanation
Indices: 3151964--3152270 Score: 253
Period size: 78 Copynumber: 3.9 Consensus size: 76
3151954 ATTGGAGGGT
* * * * * * *
3151964 TGCAATCTGCCCCTAGCTCGGGGTAAGAGATTGGCTAATGGTGATCTG-CCCTAGGCTCGGGGTA
1 TGCAATCTGTCCCAAGCT-AGGGTAAAAGATTGACTGAT-GTGATCTGTCAC-AGGCTCGGGGTA
*
3152028 AAAGATCGAATGGC
63 AAAGATCGGATGGC
** * * * * *
3152042 TGCAATCTG-CCCTCGGCTCGGCGTAAAAGATCGAATGGCTGTAATCTGCTCA-A-GCTCGGGGT
1 TGCAATCTGTCCC-AAGCTAGG-GTAAAAGATTGACT-GATGTGATCTG-TCACAGGCTCGGGGT
*
3152104 AAAAGATTGGATGGC
62 AAAAGATCGGATGGC
** *
3152119 TGTTATCTGTCCCAAGCTTAGGGTAAGAGATTGACTGATGGTGATCTGTCACAGGCTCGGGGTAA
1 TGCAATCTGTCCCAAGC-TAGGGTAAAAGATTGACTGAT-GTGATCTGTCACAGGCTCGGGGTAA
3152184 AAGATCGGATGGC
64 AAGATCGGATGGC
* * * * * * *
3152197 TACAATCTGTCCTAAGCCTGGGGTAAAAGATTGGCTGACTGTGATCTGCCCCAGGCTCAGGGTAA
1 TGCAATCTGTCCCAAG-CTAGGGTAAAAGATTGACTGA-TGTGATCTGTCACAGGCTCGGGGTAA
3152262 AAGATCGGA
64 AAGATCGGA
3152271 ATCTTTATTC
Statistics
Matches: 183, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
76 5 0.03
77 55 0.30
78 119 0.65
79 3 0.02
80 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (76 bp):
TGCAATCTGTCCCAAGCTAGGGTAAAAGATTGACTGATGTGATCTGTCACAGGCTCGGGGTAAAA
GATCGGATGGC
Found at i:3152244 original size:155 final size:156
Alignment explanation
Indices: 3151984--3152266 Score: 374
Period size: 155 Copynumber: 1.8 Consensus size: 156
3151974 CCCTAGCTCG
* * *
3151984 GGGTAAGAGATTGGCTAATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATCGAATGGCTGCAATC
1 GGGTAAGAGATTGACTAATGGTGATCTGCACTAGGCTCGGGGTAAAAGATCGAATGGCTACAATC
* * * * *
3152049 TGCCCTCGGCTCGGCGTAAAAGATCGAATGGCTGTAATCTG-CTCAAGCTCGGGGTAAAAGATTG
66 TGCCCTAGCCTCGGCGTAAAAGATCGAATGACTGTAATCTGCCCCAAGCTCAGGGTAAAAGATTG
3152113 GATGGCTGTTATCTGTCCCAAGCTTA
131 GATGGCTGTTATCTGTCCCAAGCTTA
* *
3152139 GGGTAAGAGATTGACTGATGGTGATCTGTCAC-AGGCTCGGGGTAAAAGATCGGATGGCTACAAT
1 GGGTAAGAGATTGACTAATGGTGATCTG-CACTAGGCTCGGGGTAAAAGATCGAATGGCTACAAT
* * * ** * *
3152203 CTGTCCTAAGCCT-GGGGTAAAAGATTGGCTGACTGTGATCTGCCCCAGGCTCAGGGTAAAAGAT
65 CTGCCCT-AGCCTCGGCGTAAAAGATCGAATGACTGTAATCTGCCCCAAGCTCAGGGTAAAAGAT
3152267 CGGAATCTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
155 85 0.79
156 23 0.21
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (156 bp):
GGGTAAGAGATTGACTAATGGTGATCTGCACTAGGCTCGGGGTAAAAGATCGAATGGCTACAATC
TGCCCTAGCCTCGGCGTAAAAGATCGAATGACTGTAATCTGCCCCAAGCTCAGGGTAAAAGATTG
GATGGCTGTTATCTGTCCCAAGCTTA
Found at i:3152313 original size:41 final size:42
Alignment explanation
Indices: 3152255--3152345 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 42
3152245 CCCCAGGCTC
* * *
3152255 AGGGT-AAAAGATCGGAATCTTTATTCCGCCCTTCTTGATTA
1 AGGGTAAAAAAATCGGAATCTTCAATCCGCCCTTCTTGATTA
*
3152296 AGGGTAAAAAAAT-GGAATCTTCAATCTGCCCTTCTTGATTA
1 AGGGTAAAAAAATCGGAATCTTCAATCCGCCCTTCTTGATTA
3152337 AGGGTAAAA
1 AGGGTAAAA
3152346 GACTGAATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 39 0.87
42 6 0.13
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (42 bp):
AGGGTAAAAAAATCGGAATCTTCAATCCGCCCTTCTTGATTA
Found at i:3153282 original size:26 final size:26
Alignment explanation
Indices: 3153253--3153302 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
3153243 TGAAGGAGAA
3153253 TAATAAATTTTCAAGATACCCTTTGC
1 TAATAAATTTTCAAGATACCCTTTGC
*
3153279 TAATAAATTTTCAAGATGCCCTTT
1 TAATAAATTTTCAAGATACCCTTT
3153303 ACAGGTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (26 bp):
TAATAAATTTTCAAGATACCCTTTGC
Found at i:3157313 original size:30 final size:30
Alignment explanation
Indices: 3157279--3157591 Score: 257
Period size: 30 Copynumber: 10.7 Consensus size: 30
3157269 GAAGAATTTA
*
3157279 GGGTTAAAATGTGATTTTGGGAAAGTTTGG
1 GGGTTAAAATGTGATTTTTGGAAAGTTTGG
* * *
3157309 GGGTTGAAATGTGATTTTTGAAAAGCTTGG
1 GGGTTAAAATGTGATTTTTGGAAAGTTTGG
* *
3157339 TGGTCAAAATGTGA-TTTTGGAAAGCTTT--
1 GGGTTAAAATGTGATTTTTGGAAAG-TTTGG
* *
3157367 GGGTTAAATTGTGTTTTTTGGAAAGTTT-G
1 GGGTTAAAATGTGATTTTTGGAAAGTTTGG
* * *
3157396 GGGTCAAAATGT-ATTTTTGGAAGGTTTAG
1 GGGTTAAAATGTGATTTTTGGAAAGTTTGG
* * * *
3157425 GGGTCAAAATAT-ATTTTTGGAAACTTTAG
1 GGGTTAAAATGTGATTTTTGGAAAGTTTGG
* * * * *
3157454 GGG-TCAAATGTAAATTTTGAAAAGTTTGA
1 GGGTTAAAATGTGATTTTTGGAAAGTTTGG
* *
3157483 GGGTTAAAATGTAATTTTTGGAAAGTTTAG
1 GGGTTAAAATGTGATTTTTGGAAAGTTTGG
* * * * *
3157513 GGGTCAAATTAT-AATTTTGGAAAAGTTT-A
1 GGGTTAAAATGTGATTTTTGG-AAAGTTTGG
* * * *
3157542 GGGATAAAATTTGATTTTTGGAAAGTTCGA
1 GGGTTAAAATGTGATTTTTGGAAAGTTTGG
*
3157572 AGGTTAAAATGTGATTTTTG
1 GGGTTAAAATGTGATTTTTG
3157592 TGATGTTCAG
Statistics
Matches: 227, Mismatches: 47, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
28 31 0.14
29 95 0.42
30 101 0.44
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.39
Consensus pattern (30 bp):
GGGTTAAAATGTGATTTTTGGAAAGTTTGG
Found at i:3157357 original size:29 final size:28
Alignment explanation
Indices: 3157279--3157589 Score: 166
Period size: 29 Copynumber: 10.6 Consensus size: 28
3157269 GAAGAATTTA
* *
3157279 GGGTTAAAATGTGATTTTGGGAAAGTTTGG
1 GGGTCAAAATGTGATTTT-GGAAAGCTT-G
** *
3157309 GGGTTGAAATGTGATTTTTGAAAAGCTTG
1 GGGTCAAAATGTGA-TTTTGGAAAGCTTG
*
3157338 GTGGTCAAAATGTGATTTTGGAAAGCTTT
1 G-GGTCAAAATGTGATTTTGGAAAGCTTG
* * * *
3157367 GGGTTAAATTGTGTTTTTTGGAAAGTTTG
1 GGGTCAAAATGTG-ATTTTGGAAAGCTTG
* *
3157396 GGGTCAAAATGT-ATTTTTGGAAGGTTTAG
1 GGGTCAAAATGTGA-TTTTGGAAAGCTT-G
*
3157425 GGGTCAAAATAT-ATTTTTGGAAA-CTTTAG
1 GGGTCAAAATGTGA-TTTTGGAAAGC-TT-G
* * *
3157454 GGGTC-AAATGTAAATTTTGAAAAGTTTG
1 GGGTCAAAATGT-GATTTTGGAAAGCTTG
* * *
3157482 AGGGTTAAAATGTAATTTTTGGAAAGTTTAG
1 -GGGTCAAAATGTGA-TTTTGGAAAGCTT-G
* * * *
3157513 GGGTCAAATTATAATTTTGGAAAAGTTTAG
1 GGGTCAAAATGTGATTTTGG-AAAGCTT-G
* *
3157543 GGAT-AAAATTTGATTTTTGGAAAG-TTCG
1 GGGTCAAAATGTGA-TTTTGGAAAGCTT-G
* *
3157571 AAGGTTAAAATGTGATTTT
1 -GGGTCAAAATGTGATTTT
3157590 TGTGATGTTC
Statistics
Matches: 229, Mismatches: 35, Indels: 35
0.77 0.12 0.12
Matches are distributed among these distances:
28 31 0.14
29 106 0.46
30 87 0.38
31 5 0.02
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.39
Consensus pattern (28 bp):
GGGTCAAAATGTGATTTTGGAAAGCTTG
Found at i:3157512 original size:59 final size:57
Alignment explanation
Indices: 3157279--3157568 Score: 271
Period size: 58 Copynumber: 5.0 Consensus size: 57
3157269 GAAGAATTTA
* * * * * * *
3157279 GGGTTAAAATGTGATTTTGGGAAAGTTTGGGGGTTGAAATGTGATTTTTGAAAAGCTTG
1 GGGTCAAAATGTAATTTT-GAAAAGTTT-AGGGTTAAAATGTGATTTTTGGAAAGTTTG
* * * *
3157338 GTGGTCAAAATGTGATTTTGGAAAGCTTT-GGGTTAAATTGTGTTTTTTGGAAAGTTTG
1 G-GGTCAAAATGTAATTTTGAAAAG-TTTAGGGTTAAAATGTGATTTTTGGAAAGTTTG
* * * * * *
3157396 GGGTCAAAATGTATTTTTGGAAGGTTTAGGGGTCAAAATAT-ATTTTTGGAAACTTTAG
1 GGGTCAAAATGTAATTTTGAAAAGTTTA-GGGTTAAAATGTGATTTTTGGAAAGTTT-G
*
3157454 GGGTC-AAATGTAAATTTTGAAAAGTTTGAGGGTTAAAATGTAATTTTTGGAAAGTTTAG
1 GGGTCAAAATGT-AATTTTGAAAAGTTT-AGGGTTAAAATGTGATTTTTGGAAAGTTT-G
* * * *
3157513 GGGTCAAATTATAATTTTGGAAAAGTTTAGGGATAAAATTTGATTTTTGGAAAGTT
1 GGGTCAAAATGTAATTTT-GAAAAGTTTAGGGTTAAAATGTGATTTTTGGAAAGTT
3157569 CGAAGGTTAA
Statistics
Matches: 196, Mismatches: 25, Indels: 20
0.81 0.10 0.08
Matches are distributed among these distances:
56 3 0.02
57 39 0.20
58 62 0.32
59 60 0.31
60 32 0.16
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.39
Consensus pattern (57 bp):
GGGTCAAAATGTAATTTTGAAAAGTTTAGGGTTAAAATGTGATTTTTGGAAAGTTTG
Found at i:3157589 original size:59 final size:57
Alignment explanation
Indices: 3157278--3157589 Score: 258
Period size: 59 Copynumber: 5.3 Consensus size: 57
3157268 CGAAGAATTT
* * * *
3157278 AGGGTTAAAATGTGATTTTGGGAAAGTTTGGGGGTTGAAATGTGATTTTTGAAAAGCTTG
1 AGGGTCAAAATGTGATTTT-GGAAAGTTT-AGGGTTAAAATGTGATTTTTGGAAAG-TTG
* *
3157338 -GTGGTCAAAATGTGATTTTGGAAAGCTTT-GGGTTAAATTGTGTTTTTTGGAAAGTTTG
1 AG-GGTCAAAATGTGATTTTGGAAAG-TTTAGGGTTAAAATGTGATTTTTGGAAAG-TTG
* * * * *
3157396 -GGGTCAAAATGT-ATTTTTGGAAGGTTTAGGGGTCAAAATAT-ATTTTTGGAAACTTT
1 AGGGTCAAAATGTGA-TTTTGGAAAGTTTA-GGGTTAAAATGTGATTTTTGGAAAGTTG
* * * *
3157452 AGGGGTC-AAATGTAAATTTTGAAAAGTTTGAGGGTTAAAATGTAATTTTTGGAAAGTTT
1 A-GGGTCAAAATGT-GATTTTGGAAAGTTT-AGGGTTAAAATGTGATTTTTGGAAAGTTG
* * * * *
3157511 AGGGGTCAAATTATAATTTTGGAAAAGTTTAGGGATAAAATTTGATTTTTGGAAAGTTCG
1 A-GGGTCAAAATGTGATTTTGG-AAAGTTTAGGGTTAAAATGTGATTTTTGGAAAGTT-G
* *
3157571 AAGGTTAAAATGTGATTTT
1 AGGGTCAAAATGTGATTTT
3157590 TGTGATGTTC
Statistics
Matches: 208, Mismatches: 30, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
56 6 0.03
57 36 0.17
58 60 0.29
59 75 0.36
60 31 0.15
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.39
Consensus pattern (57 bp):
AGGGTCAAAATGTGATTTTGGAAAGTTTAGGGTTAAAATGTGATTTTTGGAAAGTTG
Found at i:3161478 original size:22 final size:23
Alignment explanation
Indices: 3161453--3161495 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3161443 TTTAAAAAAG
* *
3161453 TAATTAATTTTATATA-AAATTT
1 TAATAAATTTAATATATAAATTT
3161475 TAATAAATTTAATATATAAAT
1 TAATAAATTTAATATATAAAT
3161496 ATAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATAAATTTAATATATAAATTT
Found at i:3163549 original size:11 final size:12
Alignment explanation
Indices: 3163483--3163550 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 12
3163473 TTTTTTTAAT
3163483 TTATTATTAATTA
1 TTATTA-TAATTA
* *
3163496 ATATAATAATATA
1 TTATTATAAT-TA
* *
3163509 ATAATATAAATTA
1 TTATTAT-AATTA
3163522 TTATT-TAATTA
1 TTATTATAATTA
*
3163533 GTATTAT-ATTA
1 TTATTATAATTA
3163544 TTATTAT
1 TTATTAT
3163551 TAACTAATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
11 19 0.43
12 6 0.14
13 16 0.36
14 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:3166149 original size:16 final size:16
Alignment explanation
Indices: 3166102--3166151 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
3166092 GACATATTTA
3166102 TTTTAATGTTTTTAGTAT
1 TTTTAAT-TTTTTA-TAT
* * *
3166120 TTTTGATGTATTATAT
1 TTTTAATTTTTTATAT
3166136 TTTTAATTTTTTATAT
1 TTTTAATTTTTTATAT
3166152 AAAAAATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 16 0.62
17 4 0.15
18 6 0.23
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (16 bp):
TTTTAATTTTTTATAT
Found at i:3166968 original size:18 final size:18
Alignment explanation
Indices: 3166945--3166979 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3166935 GTTCAAGGTG
*
3166945 TAATTAATTTAAAATTTT
1 TAATTAATTAAAAATTTT
3166963 TAATTAATTAAAAATTT
1 TAATTAATTAAAAATTT
3166980 AATCTCGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAAAATTTT
Found at i:3181862 original size:33 final size:30
Alignment explanation
Indices: 3181796--3181862 Score: 71
Period size: 30 Copynumber: 2.1 Consensus size: 30
3181786 TGTTAAATCT
* * *
3181796 GTTAGTAGCAGTTAGTCTTCTGATATTATG
1 GTTAGTAGCAGTTAGTCTACTGATATAAAG
*
3181826 GTTAGTAGTAGTTAGTCTACTTGCATATAAAAG
1 GTTAGTAGCAGTTAGTCTAC-TG-ATAT-AAAG
3181859 GTTA
1 GTTA
3181863 ACAAGCTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 18 0.60
31 2 0.07
32 4 0.13
33 6 0.20
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.40
Consensus pattern (30 bp):
GTTAGTAGCAGTTAGTCTACTGATATAAAG
Found at i:3187866 original size:86 final size:86
Alignment explanation
Indices: 3187721--3187905 Score: 361
Period size: 86 Copynumber: 2.2 Consensus size: 86
3187711 ACCGTCACCT
3187721 ATACCCAGAACCATTATAGTCGATTATTTCCTTCCATGATAGTCTGCTTCTTTTTCTCCTCCGCT
1 ATACCCAGAACCATTATAGTCGATTATTTCCTTCCATGATAGTCTGCTTCTTTTTCTCCTCCGCT
3187786 CAAACTCCAAATCGGCAACCC
66 CAAACTCCAAATCGGCAACCC
*
3187807 ATACCCAGAACCATTGTAGTCGATTATTTCCTTCCATGATAGTCTGCTTCTTTTTCTCCTCCGCT
1 ATACCCAGAACCATTATAGTCGATTATTTCCTTCCATGATAGTCTGCTTCTTTTTCTCCTCCGCT
3187872 CAAACTCCAAATCGGCAACCC
66 CAAACTCCAAATCGGCAACCC
3187893 ATACCCAGAACCA
1 ATACCCAGAACCA
3187906 ACGTCGAGCC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 98 1.00
ACGTcount: A:0.25, C:0.33, G:0.11, T:0.31
Consensus pattern (86 bp):
ATACCCAGAACCATTATAGTCGATTATTTCCTTCCATGATAGTCTGCTTCTTTTTCTCCTCCGCT
CAAACTCCAAATCGGCAACCC
Found at i:3188575 original size:44 final size:44
Alignment explanation
Indices: 3188506--3188593 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
3188496 TTAGGTCAAA
* *
3188506 TAATATTAAAATAACCTACAATAATCAGAGTTTAAGTGGGAAAC
1 TAATAGTAAAATAACCTACAATAATCAGAGTTTAAGTGGAAAAC
* *
3188550 TAATAGTAAAATAACTTACACTAATCAGAGTTTAAGTGGAAAAC
1 TAATAGTAAAATAACCTACAATAATCAGAGTTTAAGTGGAAAAC
3188594 AAAAAATAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (44 bp):
TAATAGTAAAATAACCTACAATAATCAGAGTTTAAGTGGAAAAC
Found at i:3189554 original size:13 final size:13
Alignment explanation
Indices: 3189536--3189567 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
3189526 AAAATCAAGG
3189536 CTTGCTTATTTGA
1 CTTGCTTATTTGA
3189549 CTTGCTTATTTGA
1 CTTGCTTATTTGA
3189562 CTTGCT
1 CTTGCT
3189568 ATTCAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (13 bp):
CTTGCTTATTTGA
Found at i:3201009 original size:25 final size:25
Alignment explanation
Indices: 3200981--3201037 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
3200971 TTAATTAATT
*
3200981 TAATTTTAATTAATGATA-ATATAAA
1 TAATTTTAAATAATGATATA-ATAAA
* * *
3201006 TAATTTAAAATAATTATGTAATAAA
1 TAATTTTAAATAATGATATAATAAA
3201031 TAATTTT
1 TAATTTT
3201038 TCTTTGACAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TAATTTTAAATAATGATATAATAAA
Found at i:3204567 original size:24 final size:24
Alignment explanation
Indices: 3204536--3204586 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
3204526 AGAAATAATC
* *
3204536 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATATG
3204560 TTTCAATTAAACTCTGTTTATATG
1 TTTCAATTAAACTCTGTTTATATG
3204584 TTT
1 TTT
3204587 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATATG
Found at i:3204595 original size:24 final size:24
Alignment explanation
Indices: 3204536--3204598 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
3204526 AGAAATAATC
* * *
3204536 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAATCAAACTCTGTTTATATG
*
3204560 TTTCAATTAAACTCTGTTTATATG
1 TTTCAATCAAACTCTGTTTATATG
* *
3204584 TTTGAGTCAAACTCT
1 TTTCAATCAAACTCT
3204599 TATTAGTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTCAATCAAACTCTGTTTATATG
Found at i:3206837 original size:52 final size:52
Alignment explanation
Indices: 3206759--3206992 Score: 346
Period size: 52 Copynumber: 4.5 Consensus size: 52
3206749 AATGTAAAAG
* *
3206759 GGTCCGATTACTATGTGTCATCGTGAGTATATGAATCCTTTAC-AAGTTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGA-TTATGA
*
3206811 GGTCCGATGACTATGTGTCATCGTGAGTATAT-AATCCTTTATGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
*
3206862 GGTTCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
** * * *
3206914 GGTTTGATGACTACGTGTCATCGTGAGTATGTGAATCCTTTACGGATTGTGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* *
3206966 GGTCTGATGACTATGTTTCATCGTGAG
1 GGTCCGATGACTATGTGTCATCGTGAG
3206993 AATCAAATGC
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
51 46 0.27
52 122 0.73
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (52 bp):
GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
Found at i:3208753 original size:24 final size:24
Alignment explanation
Indices: 3208724--3208774 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
3208714 AGAAATAATC
*
3208724 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
*
3208748 TTTCAATTAAACTTTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
3208772 TTT
1 TTT
3208775 GAGTCGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:3210192 original size:5 final size:5
Alignment explanation
Indices: 3210182--3210215 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
3210172 TTGCAATAAA
*
3210182 ATTTT ATTTT A-TTT ATTTC ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
3210216 TTTAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:3210204 original size:14 final size:15
Alignment explanation
Indices: 3210182--3210214 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3210172 TTGCAATAAA
*
3210182 ATTTTATTTTA-TTT
1 ATTTCATTTTATTTT
3210196 ATTTCATTTTATTTT
1 ATTTCATTTTATTTT
3210211 ATTT
1 ATTT
3210215 TTTTAATATT
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:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTCATTTTATTTT
Found at i:3210714 original size:17 final size:17
Alignment explanation
Indices: 3210694--3210746 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
3210684 TATACAATAG
*
3210694 TTATAATTGTAAATATA
1 TTATACTTGTAAATATA
*
3210711 TTATACTTGTAACTATA
1 TTATACTTGTAAATATA
* * *
3210728 CTATACTTTTAATTATA
1 TTATACTTGTAAATATA
3210745 TT
1 TT
3210747 GTATTTGTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (17 bp):
TTATACTTGTAAATATA
Done.