Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 34 of 66
Found at i:11700573 original size:18 final size:18
Alignment explanation
Indices: 11700543--11700578 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
11700533 GACGTATCTT
11700543 AAAATAAAGCTAACTAAAA
1 AAAATAAAGCTAAC-AAAA
11700562 AAAATAAA-CTAACAAAA
1 AAAATAAAGCTAACAAAA
11700579 TTCTAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.72, C:0.11, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAATAAAGCTAACAAAA
Found at i:11705343 original size:25 final size:28
Alignment explanation
Indices: 11705299--11705349 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
11705289 TAGTTTCTAC
*
11705299 AAAAAATATAAAAACTAATAA-ATAATA
1 AAAAAATATAAAAACGAATAACATAATA
11705326 AAAAAAT-TAAAAA-GAATAACATAA
1 AAAAAATATAAAAACGAATAACATAA
11705350 AATTAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 10 0.45
27 7 0.32
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (28 bp):
AAAAAATATAAAAACGAATAACATAATA
Found at i:11705374 original size:15 final size:16
Alignment explanation
Indices: 11705354--11705396 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
11705344 ACATAAAATT
*
11705354 AAAATAACTCACT-TA
1 AAAATAACTAACTATA
*
11705369 AAAATAAACTAATTATA
1 AAAAT-AACTAACTATA
11705386 AAAATAACTAA
1 AAAATAACTAA
11705397 AAATAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 12 0.50
17 7 0.29
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAACTAACTATA
Found at i:11705815 original size:28 final size:29
Alignment explanation
Indices: 11705772--11705841 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
11705762 TGAAATTAGC
* *
11705772 TTTTTTAAAAAATAACCGGTTAAGATTTG
1 TTTTTTAAAAAATAACCAGCTAAGATTTG
* * *
11705801 TTTTTT-AAAAGTAACTAGCTAAGATTTT
1 TTTTTTAAAAAATAACCAGCTAAGATTTG
11705829 TTTTTTCAAAAAA
1 TTTTTT-AAAAAA
11705842 GTAAATAGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 23 0.70
29 6 0.18
30 4 0.12
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (29 bp):
TTTTTTAAAAAATAACCAGCTAAGATTTG
Found at i:11706298 original size:98 final size:97
Alignment explanation
Indices: 11706171--11706353 Score: 357
Period size: 98 Copynumber: 1.9 Consensus size: 97
11706161 GATTTTACCC
11706171 GTGTGCCTTGGGCTCTCGGGCAAGATAAGTTTAAGTCTTAATTTTCTTCCTTTTATTGTACCTAA
1 GTGTGCCTTGGGCTCTCGGGCAAGATAAGTTTAAGTCTTAATTTTCTTCCTTTTATTGTACCTAA
11706236 AAGAACAGTAGTTTTGGATANCCCTTATCCCCT
66 AAGAACAGTAGTTTTGGATA-CCCTTATCCCCT
11706269 GTGTGCCTTGGGCTCTCGGGCAAGATAAGTTTAAGTCTTAATTTTCTTCCTTTTATTGTACCTAA
1 GTGTGCCTTGGGCTCTCGGGCAAGATAAGTTTAAGTCTTAATTTTCTTCCTTTTATTGTACCTAA
11706334 AAGAACAGTAGTTTTGGATA
66 AAGAACAGTAGTTTTGGATA
11706354 TATGAGTTTG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (97 bp):
GTGTGCCTTGGGCTCTCGGGCAAGATAAGTTTAAGTCTTAATTTTCTTCCTTTTATTGTACCTAA
AAGAACAGTAGTTTTGGATACCCTTATCCCCT
Found at i:11707441 original size:18 final size:20
Alignment explanation
Indices: 11707415--11707463 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
11707405 ATAACGGGTG
11707415 AAAAA-AATATTTT-AGAAT
1 AAAAATAATATTTTAAGAAT
*
11707433 -AAAATAATATTTTAATAAT
1 AAAAATAATATTTTAAGAAT
11707452 AAAAATAATATT
1 AAAAATAATATT
11707464 AAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 4 0.15
18 8 0.30
19 4 0.15
20 11 0.41
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAAATAATATTTTAAGAAT
Found at i:11707449 original size:16 final size:17
Alignment explanation
Indices: 11707415--11707458 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
11707405 ATAACGGGTG
11707415 AAAAAAATATTTTAGAAT
1 AAAAAAATATTTTA-AAT
*
11707433 AAAATAATATTTT-AAT
1 AAAAAAATATTTTAAAT
11707449 AATAAAAATA
1 AA-AAAAATA
11707459 ATATTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 6 0.26
18 12 0.52
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAAAAATATTTTAAAT
Found at i:11712931 original size:15 final size:15
Alignment explanation
Indices: 11712911--11712985 Score: 73
Period size: 15 Copynumber: 5.0 Consensus size: 15
11712901 TAACAAAGTA
*
11712911 AAAAGAGAACGGAAG
1 AAAAGAGAAAGGAAG
*
11712926 AAAAGA-AAAAGAAG
1 AAAAGAGAAAGGAAG
*
11712940 AAGAAGAGAAAGGAAT
1 AA-AAGAGAAAGGAAG
* *
11712956 AAAGGAGAAA-AAAG
1 AAAAGAGAAAGGAAG
11712970 AAAAAGAGAAAGGAAG
1 -AAAAGAGAAAGGAAG
11712986 GTTCGGCTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
14 10 0.21
15 26 0.55
16 11 0.23
ACGTcount: A:0.68, C:0.01, G:0.29, T:0.01
Consensus pattern (15 bp):
AAAAGAGAAAGGAAG
Found at i:11712947 original size:30 final size:30
Alignment explanation
Indices: 11712905--11712985 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
11712895 CCGCTATAAC
*
11712905 AAAGTAAAAAGAGAACGGAAGAAAAGA-AAA
1 AAAG-AAAAAGAGAAAGGAAGAAAAGAGAAA
* * *
11712935 AGAAGAAGAAGAGAAAGGAATAAAGGAGAAA
1 A-AAGAAAAAGAGAAAGGAAGAAAAGAGAAA
11712966 AAAGAAAAAGAGAAAGGAAG
1 AAAGAAAAAGAGAAAGGAAG
11712986 GTTCGGCTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
30 36 0.84
31 7 0.16
ACGTcount: A:0.68, C:0.01, G:0.28, T:0.02
Consensus pattern (30 bp):
AAAGAAAAAGAGAAAGGAAGAAAAGAGAAA
Found at i:11714034 original size:15 final size:16
Alignment explanation
Indices: 11714007--11714036 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11713997 CTAAACCTCA
11714007 TGTAAAGGTTTTACAT
1 TGTAAAGGTTTTACAT
11714023 TGTAAA-GTTTTACA
1 TGTAAAGGTTTTACA
11714037 AAAAGGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (16 bp):
TGTAAAGGTTTTACAT
Found at i:11714825 original size:42 final size:42
Alignment explanation
Indices: 11714774--11714858 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
11714764 AAGGCACAAA
*
11714774 TACCCCATTGATTTTAAGGCATTTACATATATTCTCATGTTT
1 TACCCCATTGATTTTAAAGCATTTACATATATTCTCATGTTT
*
11714816 TACCCCATTGATTTTAAAGCGTTTACATATATTCTCATGTTT
1 TACCCCATTGATTTTAAAGCATTTACATATATTCTCATGTTT
11714858 T
1 T
11714859 TAATATTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (42 bp):
TACCCCATTGATTTTAAAGCATTTACATATATTCTCATGTTT
Found at i:11717364 original size:38 final size:37
Alignment explanation
Indices: 11717322--11717462 Score: 167
Period size: 38 Copynumber: 3.6 Consensus size: 37
11717312 ATAGTGCCCA
*
11717322 TGTGCACGATGTGGTGGGATGTACACGATGGCACTGAT
1 TGTGCACGATGTGG-GGGATGCACACGATGGCACTGAT
* *
11717360 TGTGCACGTTGTGGGGGGATGCACACGATGTCACTGAT
1 TGTGCACGATGT-GGGGGATGCACACGATGGCACTGAT
* *
11717398 TGTGCACGATATGGGGGAATGCACACGATGG-AGCTGGCT
1 TGTGCACGATGTGGGGG-ATGCACACGATGGCA-CT-GAT
11717437 ATGTGCACGATGTGGGGAGATGCACA
1 -TGTGCACGATGTGGGG-GATGCACA
11717463 TGAGCCAGGT
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
37 6 0.07
38 56 0.63
39 4 0.04
40 22 0.25
41 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.38, T:0.23
Consensus pattern (37 bp):
TGTGCACGATGTGGGGGATGCACACGATGGCACTGAT
Found at i:11723383 original size:21 final size:22
Alignment explanation
Indices: 11723343--11723384 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11723333 TGCCTATAGG
11723343 CTTGGCATGAAATTGAGAATGC
1 CTTGGCATGAAATTGAGAATGC
11723365 CTTGGCAT-AAATGTG-GAATG
1 CTTGGCATGAAAT-TGAGAATG
11723385 TATTGTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (22 bp):
CTTGGCATGAAATTGAGAATGC
Found at i:11727676 original size:38 final size:38
Alignment explanation
Indices: 11727633--11727773 Score: 167
Period size: 38 Copynumber: 3.7 Consensus size: 38
11727623 ATAGTGCCCA
* * *
11727633 TGTGCACGATGTGGTGGGATGTACATGATGGCACTGAT
1 TGTGCACGATGTGGGGGGATGCACACGATGGCACTGAT
* *
11727671 TGTGCACGTTGTGGGGGGATGCACACGATGTCACTGAT
1 TGTGCACGATGTGGGGGGATGCACACGATGGCACTGAT
* *
11727709 TGTGCATGATGTGGGGGGATGCACACGATGG-AGCTGGCT
1 TGTGCACGATGTGGGGGGATGCACACGATGGCA-CT-GAT
* *
11727748 ATGTGCACGATGTGGGGAGATACACA
1 -TGTGCACGATGTGGGGGGATGCACA
11727774 TGAGCCGGGT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 63 0.72
39 2 0.02
40 22 0.25
ACGTcount: A:0.21, C:0.16, G:0.38, T:0.25
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACGATGGCACTGAT
Found at i:11728119 original size:121 final size:120
Alignment explanation
Indices: 11727893--11728133 Score: 439
Period size: 121 Copynumber: 2.0 Consensus size: 120
11727883 AATTTGGCAT
*
11727893 GATGAATCTTGAGAAATTCCCATTTTCTTACAAATTGAGTTCATTGCACCACCAAATGGATTTTT
1 GATGAAGCTTGAGAAATTCCCATTTTCTTACAAATTGAGTTCATTGCACCACCAAATGGATTTTT
*
11727958 AGTGCAAATGAGGCCCTTTTTCACTTAGGTGCCCTACTTCTCGCTGCAGCGAGAA
66 AGTGCAAATGAGGCCCTTTTTCACTTAGATGCCCTACTTCTCGCTGCAGCGAGAA
11728013 NGATGAAGCTTGAGAAATTCCCATTTTCTTACAAATTGAGTTCATTGCACCACCAAATGGATTTT
1 -GATGAAGCTTGAGAAATTCCCATTTTCTTACAAATTGAGTTCATTGCACCACCAAATGGATTTT
11728078 TAGTGCAAATGAGGCCCCTTTTTCACTTAGATGCCCT-CTTCTCGCTGCAGCGAGAA
65 TAGTGCAAATGAGG-CCCTTTTTCACTTAGATGCCCTACTTCTCGCTGCAGCGAGAA
11728134 ACATTATGTT
Statistics
Matches: 117, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
121 96 0.82
122 21 0.18
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (120 bp):
GATGAAGCTTGAGAAATTCCCATTTTCTTACAAATTGAGTTCATTGCACCACCAAATGGATTTTT
AGTGCAAATGAGGCCCTTTTTCACTTAGATGCCCTACTTCTCGCTGCAGCGAGAA
Found at i:11733886 original size:18 final size:19
Alignment explanation
Indices: 11733863--11733902 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
11733853 CAAGTGAAAA
*
11733863 ATTTTA-GAATAAAATAAT
1 ATTTTACGAACAAAATAAT
11733881 ATTTTACGAACAAAATAAT
1 ATTTTACGAACAAAATAAT
11733900 ATT
1 ATT
11733903 AAAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
ATTTTACGAACAAAATAAT
Found at i:11734507 original size:11 final size:11
Alignment explanation
Indices: 11734491--11734540 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
11734481 TGTGAGAGAG
11734491 AGCAAAAGGAA
1 AGCAAAAGGAA
11734502 AGCAAAAGGAA
1 AGCAAAAGGAA
11734513 AGCAAAA-G-A
1 AGCAAAAGGAA
11734522 A-C-AAAGGAA
1 AGCAAAAGGAA
*
11734531 AGAAAAAGGA
1 AGCAAAAGGA
11734541 GAGAAACAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 3 0.09
8 2 0.06
9 4 0.12
10 1 0.03
11 24 0.71
ACGTcount: A:0.66, C:0.08, G:0.26, T:0.00
Consensus pattern (11 bp):
AGCAAAAGGAA
Found at i:11734854 original size:92 final size:92
Alignment explanation
Indices: 11734731--11734922 Score: 282
Period size: 92 Copynumber: 2.1 Consensus size: 92
11734721 GAAAGGGTCG
* *
11734731 ATTTTTGAAGGCTGAAAGGAGCAGCTTTGGCTGTTGATTTTTGAGGTTTTGGC--CGTCGATTTT
1 ATTTTTGAAGGCTGAAAGGAGCAGCTTTGGCTGCTGATTTTTAAGGTTTTGGCTAC-T-GATTTT
* *
11734794 GAGGGTGAGATGAGCAGCTTTA-GCTACTA
64 AAGGGTGAAATGAGCAGC-TTAGGCTACTA
*
11734823 ATTTTTGAAGGCTGAAAGGAGCAGCTTTGGCTGCTGATTTTTAAGGTTTTGGCTACTGGTTTTAA
1 ATTTTTGAAGGCTGAAAGGAGCAGCTTTGGCTGCTGATTTTTAAGGTTTTGGCTACTGATTTTAA
*
11734888 GGGTGAAATGAGCAGCTTAGGCTGCTA
66 GGGTGAAATGAGCAGCTTAGGCTACTA
11734915 ATTTTTGA
1 ATTTTTGA
11734923 TGTTGAAAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
91 3 0.03
92 86 0.95
93 1 0.01
94 1 0.01
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.36
Consensus pattern (92 bp):
ATTTTTGAAGGCTGAAAGGAGCAGCTTTGGCTGCTGATTTTTAAGGTTTTGGCTACTGATTTTAA
GGGTGAAATGAGCAGCTTAGGCTACTA
Found at i:11735377 original size:16 final size:18
Alignment explanation
Indices: 11735356--11735388 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
11735346 TTTAAATGAT
11735356 TTGTTGT-G-AAGAATTA
1 TTGTTGTCGAAAGAATTA
11735372 TTGTTGTCGAAAGAATT
1 TTGTTGTCGAAAGAATT
11735389 TGTTTGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.42
Consensus pattern (18 bp):
TTGTTGTCGAAAGAATTA
Found at i:11745701 original size:17 final size:19
Alignment explanation
Indices: 11745660--11745701 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
11745650 ATGTATATAC
11745660 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
11745681 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
11745698 ATGA
1 ATGA
11745702 TGATGACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:11745747 original size:43 final size:42
Alignment explanation
Indices: 11745700--11745953 Score: 229
Period size: 43 Copynumber: 5.8 Consensus size: 42
11745690 GTTGTGTGAT
* *
11745700 GATGATGACTCAGCTATGTGCGAGTAGGGAGTGCGTAAAAGCC
1 GATGATGAC-CAGCTATGTGCGAGTAGGGAGTGCGCATAAGCC
*
11745743 GATGATGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCC
1 GATGATGACCAG-CTATGTGCGAGTAGGGAGTGCGCATAAGCC
* * * **
11745786 GATGATGACCCAGCTATGTGCGAGTAGAGAGTGCACATGAGTTGAT
1 GATGATGA-CCAGCTATGTGCGAGTAGGGAGTGCGCAT-A--AGCC
* * *
11745832 GATGATGACCCGGCTATGTGTGAGTAGGGAGTGCGCATAAGTC
1 GATGATGA-CCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCC
* ** * * * *
11745875 GATGATGACCTACCTATGTGCGAGTATAGAGTGCACGTGAGCT
1 GATGATGACC-AGCTATGTGCGAGTAGGGAGTGCGCATAAGCC
*
11745918 GATGAAGATGACCAGGTTATGTGCGAGTAGGGAGTG
1 GAT---GATGACCA-GCTATGTGCGAGTAGGGAGTG
11745954 TACATGACGA
Statistics
Matches: 171, Mismatches: 30, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
42 4 0.02
43 102 0.60
44 4 0.02
45 2 0.01
46 59 0.35
ACGTcount: A:0.26, C:0.16, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGATGACCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCC
Found at i:11745791 original size:89 final size:91
Alignment explanation
Indices: 11745697--11745953 Score: 233
Period size: 89 Copynumber: 2.9 Consensus size: 91
11745687 AATGTTGTGT
* * * *
11745697 GATGATGATGACTCAGCTATGTGCGAGTAGGGAGTG-CGT-AAAAGCCGATGATGACCCGACTAT
1 GATGATGATGACCCAGCTATGTGCGAGTAGAGAGTGACATGAAAAGACGATGATGACCCGACTAT
11745760 GTGCGAGTAGGGAGTGCGCATAAGCC
66 GTGCGAGTAGGGAGTGCGCATAAGCC
*** * *
11745786 ---GATGATGACCCAGCTATGTGCGAGTAGAGAGTGCACATGAGTTGATGATGATGACCCGGCTA
1 GATGATGATGACCCAGCTATGTGCGAGTAGAGAGTG-ACATGAAAAGACGATGATGACCCGACTA
* *
11745848 TGTGTGAGTAGGGAGTGCGCATAAGTC
65 TGTGCGAGTAGGGAGTGCGCATAAGCC
* * * * *** * * * **
11745875 ---GATGATGACCTACCTATGTGCGAGTATAGAGTGCACGTGAGCTGATGAAGATGACCAGGTTA
1 GATGATGATGACCCAGCTATGTGCGAGTAGAGAGTG-ACATGAAAAGACGATGATGACCCGACTA
11745937 TGTGCGAGTAGGGAGTG
65 TGTGCGAGTAGGGAGTG
11745954 TACATGACGA
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
86 31 0.21
88 2 0.01
89 112 0.77
ACGTcount: A:0.26, C:0.16, G:0.35, T:0.23
Consensus pattern (91 bp):
GATGATGATGACCCAGCTATGTGCGAGTAGAGAGTGACATGAAAAGACGATGATGACCCGACTAT
GTGCGAGTAGGGAGTGCGCATAAGCC
Found at i:11751707 original size:46 final size:46
Alignment explanation
Indices: 11751655--11751748 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
11751645 CTTAGAAGTA
*
11751655 AAATAAATTCATACATACAATAATTTACAAAGTTATAATGTATAAT
1 AAATAAATTCATACATACAATAATTTACAAAGTTATAATGTACAAT
11751701 AAATAAATTCATACATACAATAATTTACAAAGTTATAATGTACAAT
1 AAATAAATTCATACATACAATAATTTACAAAGTTATAATGTACAAT
11751747 AA
1 AA
11751749 TAATTAGAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (46 bp):
AAATAAATTCATACATACAATAATTTACAAAGTTATAATGTACAAT
Found at i:11753841 original size:28 final size:30
Alignment explanation
Indices: 11753783--11753842 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
11753773 TATTTGAAAT
* *
11753783 TTACACTTTTGCCCCCGTAAAAGTGAAAAA
1 TTACACTTTTGCCCCCGAAAAACTGAAAAA
*
11753813 TTACATTTTTG-CCCC-AAAAACTGAAAAA
1 TTACACTTTTGCCCCCGAAAAACTGAAAAA
11753841 TT
1 TT
11753843 GCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 13 0.48
29 4 0.15
30 10 0.37
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (30 bp):
TTACACTTTTGCCCCCGAAAAACTGAAAAA
Found at i:11764465 original size:43 final size:43
Alignment explanation
Indices: 11764369--11764500 Score: 200
Period size: 43 Copynumber: 3.2 Consensus size: 43
11764359 TGCAATATCA
11764369 TCATCATCAACTCATGTGCACTCCCACACCGCAC--A--TGGG
1 TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGG
* *
11764408 TCATCATCAGCTCATGTACACTCCCACACCGCACATAGCTGGG
1 TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGG
*
11764451 TCATCATCAACTCATGTGCACTCCCACACTGCACATAGCTGGG
1 TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGG
*
11764494 TCCTCAT
1 TCATCAT
11764501 TATCACACAA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
39 32 0.39
41 1 0.01
43 50 0.60
ACGTcount: A:0.25, C:0.37, G:0.15, T:0.23
Consensus pattern (43 bp):
TCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGG
Found at i:11776263 original size:15 final size:14
Alignment explanation
Indices: 11776235--11776270 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
11776225 AGATGCCCAC
11776235 TCTTTCTTTTTCTTT
1 TCTTT-TTTTTCTTT
11776250 TCTTTTTTTCTCTTT
1 TCTTTTTTT-TCTTT
11776265 TCTTTT
1 TCTTTT
11776271 CTCTCTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TCTTTTTTTTCTTT
Found at i:11776279 original size:20 final size:19
Alignment explanation
Indices: 11776234--11776279 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
11776224 GAGATGCCCA
11776234 CTCTTTCTTTTTCTTTTCT
1 CTCTTTCTTTTTCTTTTCT
* *
11776253 TTTTTTCTCTTTTCTTTTCT
1 CTCTTTCT-TTTTCTTTTCT
11776273 CTCTTTC
1 CTCTTTC
11776280 ACTGTCCAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
CTCTTTCTTTTTCTTTTCT
Found at i:11776646 original size:35 final size:35
Alignment explanation
Indices: 11776546--11776651 Score: 113
Period size: 35 Copynumber: 3.0 Consensus size: 35
11776536 AACCAAACCG
* * *
11776546 CACCTTTCAGCCTTCAAAATCAACAACTAAAACCA
1 CACCTTTCAGCCTTCAAAATCAGCAACAAAAACTA
* * * ***
11776581 TACCATTCAACCTTCAAAATCAGTGGCAAAAACTA
1 CACCTTTCAGCCTTCAAAATCAGCAACAAAAACTA
* *
11776616 CACCTTTTAGCCTTCAAAATCAGCAACAAAAGCTA
1 CACCTTTCAGCCTTCAAAATCAGCAACAAAAACTA
11776651 C
1 C
11776652 TCCTCTCACC
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.42, C:0.30, G:0.07, T:0.22
Consensus pattern (35 bp):
CACCTTTCAGCCTTCAAAATCAGCAACAAAAACTA
Found at i:11783053 original size:35 final size:35
Alignment explanation
Indices: 11782940--11783053 Score: 86
Period size: 35 Copynumber: 3.3 Consensus size: 35
11782930 AACCAAACCG
* * * * *
11782940 CACCTTTCAGCCTTCAAAATCAACAACTAAAACCA
1 CACCTCTCAGCCTTCAAAATCAGCAGCAAAAACTA
* * * * * *
11782975 TACGGT-TCAGCCTTCAAAATCAGTAGTAAAAATTG
1 CAC-CTCTCAGCCTTCAAAATCAGCAGCAAAAACTA
* *
11783010 CACTTCTCAGCCTTCAAAATCAGCAGCAAAAGCTA
1 CACCTCTCAGCCTTCAAAATCAGCAGCAAAAACTA
*
11783045 CTCCTCTCA
1 CACCTCTCA
11783054 CCCCTTAAAT
Statistics
Matches: 58, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
34 1 0.02
35 56 0.97
36 1 0.02
ACGTcount: A:0.37, C:0.30, G:0.10, T:0.24
Consensus pattern (35 bp):
CACCTCTCAGCCTTCAAAATCAGCAGCAAAAACTA
Found at i:11783294 original size:12 final size:12
Alignment explanation
Indices: 11783277--11783301 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11783267 TATTGAATTA
11783277 TATATATATATT
1 TATATATATATT
11783289 TATATATATATT
1 TATATATATATT
11783301 T
1 T
11783302 TTTATTCTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATATATT
Found at i:11787208 original size:22 final size:23
Alignment explanation
Indices: 11787183--11787244 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
11787173 TTCAAGAAAT
11787183 TTCTTGCTGCTA-CGAGAATACA
1 TTCTTGCTGCTAGCGAGAATACA
* *
11787205 TTCTTGTTGC-AGCTAGAATACA
1 TTCTTGCTGCTAGCGAGAATACA
11787227 TTCTTGCTG-TAGCGAGAA
1 TTCTTGCTGCTAGCGAGAA
11787245 CCAAGCCAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (23 bp):
TTCTTGCTGCTAGCGAGAATACA
Found at i:11787600 original size:43 final size:43
Alignment explanation
Indices: 11787536--11787620 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
11787526 CAATATCATC
*
11787536 ATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTG
1 ATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGGTG
* *
11787579 ATCATCAACTCATGTGTACTCCCACATCGCACATAGCTGGGT
1 ATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGGT
11787621 CCTCATTATC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.24
Consensus pattern (43 bp):
ATCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGGTG
Found at i:11790796 original size:68 final size:68
Alignment explanation
Indices: 11790722--11790981 Score: 333
Period size: 68 Copynumber: 3.8 Consensus size: 68
11790712 ATGTTTCCTT
* * * * *
11790722 ATCTCATAAGGTATATGAAAAATACATCATATACATTATCTCATGGCATTCATCATGCTTCCTCA
1 ATCTCATAAGGTATATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTTA
11790787 ATC
66 ATC
* * *
11790790 ATCTCATGTA-GTATATGGAACATACATCATATACATAATCTCATGGCATTCATCATGCATACTT
1 ATCTCAT-AAGGTATATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTT
11790854 AATC
65 AATC
* * * * * *
11790858 ATCTCATATGGTATATGAAATTTACATCATATAAATAATCTCATAGTATACATCATGCATACTTA
1 ATCTCATAAGGTATATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTTA
11790923 ATC
66 ATC
* * * * *
11790926 ATCTCATATGGTATATGCAATTTACATCATATACCTAATCTTATGGCATTCATCAT
1 ATCTCATAAGGTATATGAAATATACATCATATACATAATCTCATGGCATTCATCAT
11790982 ACCAAACATG
Statistics
Matches: 167, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
68 166 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (68 bp):
ATCTCATAAGGTATATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTTA
ATC
Found at i:11794586 original size:2 final size:2
Alignment explanation
Indices: 11794579--11794611 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11794569 AAGAAAGAAA
*
11794579 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11794612 AATAAGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11795039 original size:34 final size:35
Alignment explanation
Indices: 11794977--11795057 Score: 121
Period size: 34 Copynumber: 2.3 Consensus size: 35
11794967 TGTTGTTTTG
11794977 GCTACTGATTTTTGGAGGGAAAATAGAGCAGCTTA
1 GCTACTGATTTTTGGAGGGAAAATAGAGCAGCTTA
*
11795012 GCTATTGATTTTT-GA-GGAGAAATAGAGCAGCTTA
1 GCTACTGATTTTTGGAGGGA-AAATAGAGCAGCTTA
*
11795046 GCTGCTGATTTT
1 GCTACTGATTTT
11795058 GAAGTCAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 3 0.07
34 27 0.64
35 12 0.29
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.33
Consensus pattern (35 bp):
GCTACTGATTTTTGGAGGGAAAATAGAGCAGCTTA
Found at i:11795073 original size:33 final size:33
Alignment explanation
Indices: 11794981--11795085 Score: 106
Period size: 34 Copynumber: 3.1 Consensus size: 33
11794971 GTTTTGGCTA
* *
11794981 CTGATTTTTGGAGGGAAAATAGAGCAGCTTAGCTA
1 CTGATTTTT-GAGAG-AAATAGAGCAGCTTAGCTG
*
11795016 TTGATTTTTGAGGAGAAATAGAGCAGCTTAGCTG
1 CTGATTTTTGA-GAGAAATAGAGCAGCTTAGCTG
*
11795050 CTGA-TTTTGA-AGTCAATATGAGCAGCTGTAGCTG
1 CTGATTTTTGAGAG-AAATA-GAGCAGCT-TAGCTG
11795084 CT
1 CT
11795086 TAAAATTTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
31 2 0.03
32 4 0.07
33 14 0.23
34 31 0.51
35 10 0.16
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (33 bp):
CTGATTTTTGAGAGAAATAGAGCAGCTTAGCTG
Found at i:11796335 original size:2 final size:2
Alignment explanation
Indices: 11796328--11796357 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11796318 CAGAATCCAG
11796328 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
11796358 GTACCTCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11797465 original size:11 final size:11
Alignment explanation
Indices: 11797449--11797478 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11797439 GGAGCTTTTG
11797449 GGTTTAAAGTT
1 GGTTTAAAGTT
11797460 GGTTTAAAGTT
1 GGTTTAAAGTT
*
11797471 GTTTTAAA
1 GGTTTAAA
11797479 ATTTACAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (11 bp):
GGTTTAAAGTT
Found at i:11801144 original size:18 final size:18
Alignment explanation
Indices: 11801121--11801160 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
11801111 CAAGAGAAAA
11801121 ATTTTA-AAATAAAATAAT
1 ATTTTATAAA-AAAATAAT
11801139 ATTTTATTAAAAAAATAAT
1 ATTTTA-TAAAAAAATAAT
11801158 ATT
1 ATT
11801161 AAAATATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 11 0.55
20 3 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTTATAAAAAAATAAT
Found at i:11802169 original size:34 final size:35
Alignment explanation
Indices: 11802117--11802190 Score: 107
Period size: 34 Copynumber: 2.1 Consensus size: 35
11802107 TTGGCTGCTG
*
11802117 ATTTTTAGAGGGAAAATAGAGCAGCTTAGCTACTA
1 ATTTTTAGAGGGAAAATAGAGCAGCTTAACTACTA
*
11802152 ATTTTT-GA-GGAGAAATAGAGCAGCTTAACTACTG
1 ATTTTTAGAGGGA-AAATAGAGCAGCTTAACTACTA
11802186 ATTTT
1 ATTTT
11802191 GAAGTCAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 3 0.08
34 27 0.75
35 6 0.17
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (35 bp):
ATTTTTAGAGGGAAAATAGAGCAGCTTAACTACTA
Found at i:11802371 original size:5 final size:5
Alignment explanation
Indices: 11802349--11802419 Score: 87
Period size: 5 Copynumber: 14.6 Consensus size: 5
11802339 ACGGTGGAAG
*
11802349 AAAG- AAAG- AAAG- AAAGA AAAGA AAAGA AAGGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
11802396 AAAGA ACAAGA ACAAG- AAAGA AAA
1 AAAGA A-AAGA A-AAGA AAAGA AAA
11802420 ATGGGCATGA
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
4 15 0.24
5 38 0.61
6 9 0.15
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:11802418 original size:4 final size:4
Alignment explanation
Indices: 11802346--11802397 Score: 50
Period size: 4 Copynumber: 11.5 Consensus size: 4
11802336 TAGACGGTGG
11802346 AAGA AAGA AAGA AAGA AAGAA AAGAA AAGA AAGGAA AAGAA AAGAA AAGA
1 AAGA AAGA AAGA AAGA AAG-A AAG-A AAGA AA-G-A AAG-A AAG-A AAGA
11802396 AA
1 AA
11802398 AGAACAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
4 21 0.47
5 21 0.47
6 3 0.07
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:11802466 original size:26 final size:27
Alignment explanation
Indices: 11802406--11802470 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
11802396 AAAGAACAAG
11802406 AACAAGAAAGAAAAATGGGCATGACCC
1 AACAAGAAAGAAAAATGGGCATGACCC
*
11802433 AACAAGAAAGAAAAATGGGCATGGCCC
1 AACAAGAAAGAAAAATGGGCATGACCC
*
11802460 AA-TAGAAAGAA
1 AACAAGAAAGAA
11802471 GTTGAGGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 8 0.22
27 28 0.78
ACGTcount: A:0.54, C:0.15, G:0.23, T:0.08
Consensus pattern (27 bp):
AACAAGAAAGAAAAATGGGCATGACCC
Found at i:11808678 original size:21 final size:22
Alignment explanation
Indices: 11808645--11808685 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11808635 AAATTAATTC
*
11808645 AAACGTAAGTAGACAAAAAACT
1 AAACGTAAGTAGAAAAAAAACT
*
11808667 AAAC-TAATTAGAAAAAAAA
1 AAACGTAAGTAGAAAAAAAA
11808686 AATCATTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.15
Consensus pattern (22 bp):
AAACGTAAGTAGAAAAAAAACT
Found at i:11821192 original size:20 final size:20
Alignment explanation
Indices: 11821167--11821204 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11821157 AAGAAAAAGT
*
11821167 TGTTGGAAGCTTGAAGAATC
1 TGTTGGAAACTTGAAGAATC
*
11821187 TGTTGGAAATTTGAAGAA
1 TGTTGGAAACTTGAAGAA
11821205 GTTACTAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (20 bp):
TGTTGGAAACTTGAAGAATC
Found at i:11823736 original size:40 final size:39
Alignment explanation
Indices: 11823681--11823784 Score: 165
Period size: 38 Copynumber: 2.7 Consensus size: 39
11823671 ATCCAGCTCA
11823681 TGTGCATCCCCCCACATCGTGCACATAGCCAGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACATA-CCAGAGTCATCG
* *
11823721 TGTGCATCCCCCCACATCGTGCACA-ATCAGTGTCATCG
1 TGTGCATCCCCCCACATCGTGCACATACCAGAGTCATCG
*
11823759 TGTACATCCCCCCACATCGTGCACAT
1 TGTGCATCCCCCCACATCGTGCACAT
11823785 GAGCACTGTC
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
38 34 0.57
39 1 0.02
40 25 0.42
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.22
Consensus pattern (39 bp):
TGTGCATCCCCCCACATCGTGCACATACCAGAGTCATCG
Found at i:11832740 original size:80 final size:80
Alignment explanation
Indices: 11832640--11832847 Score: 258
Period size: 80 Copynumber: 2.6 Consensus size: 80
11832630 ATCATTATAC
* *
11832640 TTAGCCCATAATGTACATGACTATCTCAACACATACATCTCATGGCATACATTTCATAATCTCAT
1 TTAGCCCATAGTGTACATGACTATCTCAACACATACATCTCATGGCATACATTTCATAACCTCAT
11832705 AAATCACTTACATGT
66 AAATCACTTACATGT
* * * * * * *
11832720 TTCA-CCCATAGTGTATATGACTACCTCAACATACACATCTCATGGCATACATTTCGTCACCTCT
1 TT-AGCCCATAGTGTACATGACTATCTCAACACATACATCTCATGGCATACATTTCATAACCTCA
*
11832784 TAAATCACTTATATGT
65 TAAATCACTTACATGT
** * *
11832800 TTAGCCCATAGCATACATGA-TATACTGAACACATATATCTCATGGCAT
1 TTAGCCCATAGTGTACATGACTAT-CTCAACACATACATCTCATGGCAT
11832848 GCATGTTACA
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 3 0.03
80 103 0.96
81 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.32
Consensus pattern (80 bp):
TTAGCCCATAGTGTACATGACTATCTCAACACATACATCTCATGGCATACATTTCATAACCTCAT
AAATCACTTACATGT
Found at i:11836810 original size:37 final size:37
Alignment explanation
Indices: 11836756--11836827 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
11836746 TAAATCATCC
*
11836756 TATGATTCACACCTGAAATGGAAGCTTCTTTTTGTCA
1 TATGATTCACACATGAAATGGAAGCTTCTTTTTGTCA
11836793 TATGATTCACACATGAAATGGAAGCTTCTTTTTGT
1 TATGATTCACACATGAAATGGAAGCTTCTTTTTGT
11836828 TTTTTTCGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (37 bp):
TATGATTCACACATGAAATGGAAGCTTCTTTTTGTCA
Found at i:11838179 original size:34 final size:34
Alignment explanation
Indices: 11838141--11838328 Score: 85
Period size: 34 Copynumber: 5.2 Consensus size: 34
11838131 GTGATGTGGA
11838141 AGTGCACATGACGATGATATTGGTGTGCTGTGTG
1 AGTGCACATGACGATGATATTGGTGTGCTGTGTG
* * *
11838175 AGTGCACA-CACTGATGATATATGCCATGTGCGGTGTGGG
1 AGTGCACATGAC-GATGATAT-TG--GTGTGC--TGTGTG
* * * * * * * *
11838214 AGTGTAAATGATGGTGATAGTGGTATGTTGCGTG
1 AGTGCACATGACGATGATATTGGTGTGCTGTGTG
* *
11838248 AGTGCACA-CACTGATGATATATGCCATGTG-TGGTGTTGG
1 AGTGCACATGAC-GATGATAT-TG--GTGTGCT-GTG-T-G
* * *
11838287 AGTGCACATGACGGTGATACTGGTGTGTTGTGTG
1 AGTGCACATGACGATGATATTGGTGTGCTGTGTG
*
11838321 ACTGCACA
1 AGTGCACA
11838329 CACTGATGAT
Statistics
Matches: 110, Mismatches: 28, Indels: 32
0.65 0.16 0.19
Matches are distributed among these distances:
33 3 0.03
34 40 0.36
35 5 0.05
36 11 0.10
37 11 0.10
38 5 0.05
39 32 0.29
40 3 0.03
ACGTcount: A:0.22, C:0.13, G:0.34, T:0.30
Consensus pattern (34 bp):
AGTGCACATGACGATGATATTGGTGTGCTGTGTG
Found at i:11838254 original size:73 final size:73
Alignment explanation
Indices: 11838135--11838370 Score: 310
Period size: 73 Copynumber: 3.2 Consensus size: 73
11838125 GTGTGTGTGA
* * * * * * *
11838135 TGTGGAAGTGCACATGACGATGATATTGGTGTGCTGTGTGAGTGCACACACTGATGATATATGCC
1 TGTGGGAGTGCAAATGACGGTGATACTGGTATGTTGCGTGAGTGCACACACTGATGATATATGCC
11838200 ATGTGCGG
66 ATGTGCGG
* * *
11838208 TGTGGGAGTGTAAATGATGGTGATAGTGGTATGTTGCGTGAGTGCACACACTGATGATATATGCC
1 TGTGGGAGTGCAAATGACGGTGATACTGGTATGTTGCGTGAGTGCACACACTGATGATATATGCC
*
11838273 ATGTGTGG
66 ATGTGCGG
* * * * *
11838281 TGTTGGAGTGCACATGACGGTGATACTGGTGTGTTGTGTGACTGCACACACTGATGATATATGCC
1 TGTGGGAGTGCAAATGACGGTGATACTGGTATGTTGCGTGAGTGCACACACTGATGATATATGCC
*
11838346 ATGTGCGA
66 ATGTGCGG
*
11838354 TGTGGGAGTGCACATGA
1 TGTGGGAGTGCAAATGA
11838371 GCTGGTGAGA
Statistics
Matches: 142, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 142 1.00
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.30
Consensus pattern (73 bp):
TGTGGGAGTGCAAATGACGGTGATACTGGTATGTTGCGTGAGTGCACACACTGATGATATATGCC
ATGTGCGG
Found at i:11838290 original size:39 final size:39
Alignment explanation
Indices: 11838174--11838367 Score: 126
Period size: 39 Copynumber: 5.2 Consensus size: 39
11838164 TGTGCTGTGT
* *
11838174 GAGTGCACACACTGATGATATATGCCATGTGCGGTGTGG
1 GAGTGCACACACTGATGATATATGCCATGTGTGGTGTTG
* * ** *
11838213 GAGTGTA-A-A-TGATGGTGATAGTGGTATGT-T-GCG-T-
1 GAGTGCACACACTGATGAT-ATA-TGCCATGTGTGGTGTTG
11838247 GAGTGCACACACTGATGATATATGCCATGTGTGGTGTTG
1 GAGTGCACACACTGATGATATATGCCATGTGTGGTGTTG
* * * * *
11838286 GAGTGCACATGAC-GGTGATA-CTG--GTGTGTTGTG-T-
1 GAGTGCACA-CACTGATGATATATGCCATGTGTGGTGTTG
* * * *
11838320 GACTGCACACACTGATGATATATGCCATGTGCGATGTGG
1 GAGTGCACACACTGATGATATATGCCATGTGTGGTGTTG
11838359 GAGTGCACA
1 GAGTGCACA
11838368 TGAGCTGGTG
Statistics
Matches: 112, Mismatches: 27, Indels: 32
0.65 0.16 0.19
Matches are distributed among these distances:
33 2 0.02
34 20 0.18
35 10 0.09
36 21 0.19
37 18 0.16
38 10 0.09
39 29 0.26
40 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.29
Consensus pattern (39 bp):
GAGTGCACACACTGATGATATATGCCATGTGTGGTGTTG
Found at i:11840775 original size:2 final size:2
Alignment explanation
Indices: 11840768--11840810 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
11840758 TGCGTGCATG
*
11840768 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11840810 T
1 T
11840811 GTATGCCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11841295 original size:24 final size:23
Alignment explanation
Indices: 11841215--11841298 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 23
11841205 TATTAAATTT
11841215 TTTAAATATTAATAATCTAGAATTTAA
1 TTTAAATATTAATAAT-T---ATTTAA
* *
11841242 TTAAAATATTAATAATTA-ATAA
1 TTTAAATATTAATAATTATTTAA
* *
11841264 TTTGAATATTAATATTTTATTTAA
1 TTTAAATATTAATA-ATTATTTAA
11841288 TTTAAATATTA
1 TTTAAATATTA
11841299 TTATGATTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
22 15 0.31
23 4 0.08
24 13 0.27
26 1 0.02
27 15 0.31
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAAATATTAATAATTATTTAA
Found at i:11841589 original size:109 final size:111
Alignment explanation
Indices: 11841452--11841755 Score: 363
Period size: 109 Copynumber: 2.8 Consensus size: 111
11841442 AATTATTTTA
* * *
11841452 TTTTATTTTATTTTTGAAA-ATTAATAATTGATTATTTATTTAAAATATTAATAATAGATAATTT
1 TTTTATTTTATTTTTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTGATAATTT
*
11841516 AAATAATAATATTTTATTTAATTTAAAT-ACTATTATGATTA-AT-T
66 AAATATTAATATTTTATTTAATTTAAATGA-TATTATGATTATATAT
* *
11841560 TTTTATTTTATTTTTTAAATATTAATAATTGGTAATTTATTTAAAATATTAATAATTGATGATTT
1 TTTTATTTTATTTTTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTGATAATTT
* * ** *
11841625 AATTATTAATATTGTTTATATAATTTAAATGATATTATTTTTATTTAT
66 AAATATTAATA-T-TTTATTTAATTTAAATGATATTATGATTATATAT
* ** * *
11841673 TTTTAGTTTGTTTTTTTTAAATAGGAATAATTTATAATTTATTT----TATTAAAAATTGATAAT
1 TTTTA-TTT-TATTTTTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTGATAAT
11841734 TTAAATATTAATATTTTATTTA
64 TTAAATATTAATATTTTATTTA
11841756 TAATTTAATA
Statistics
Matches: 168, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
108 18 0.11
109 57 0.34
110 2 0.01
111 51 0.30
112 2 0.01
113 6 0.04
114 3 0.02
115 29 0.17
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (111 bp):
TTTTATTTTATTTTTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTGATAATTT
AAATATTAATATTTTATTTAATTTAAATGATATTATGATTATATAT
Found at i:11841624 original size:27 final size:27
Alignment explanation
Indices: 11841471--11841625 Score: 101
Period size: 27 Copynumber: 5.7 Consensus size: 27
11841461 ATTTTTGAAA
11841471 ATTAATAATTGATTATTTATTTAAAAT
1 ATTAATAATTGATTATTTATTTAAAAT
*
11841498 ATTAATAATAGA-TA---ATTT-AAAT
1 ATTAATAATTGATTATTTATTTAAAAT
*
11841520 AATAAT-ATT--TTATTTAATTTAAATACT
1 ATTAATAATTGATTATTT-ATTTAAA-A-T
** *
11841547 ATTATGATTAATTTTTTATTTTATTTTTTAAAT
1 ATTA--A-TAATTGATTA-TTTA--TTTAAAAT
* *
11841580 ATTAATAATTGGTAATTTATTTAAAAT
1 ATTAATAATTGATTATTTATTTAAAAT
*
11841607 ATTAATAATTGATGATTTA
1 ATTAATAATTGATTATTTA
11841626 ATTATTAATA
Statistics
Matches: 100, Mismatches: 11, Indels: 34
0.69 0.08 0.23
Matches are distributed among these distances:
20 2 0.02
21 2 0.02
22 9 0.09
23 4 0.04
24 4 0.04
25 2 0.02
26 3 0.03
27 39 0.39
29 5 0.05
30 8 0.08
31 4 0.04
33 9 0.09
34 4 0.04
35 5 0.05
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (27 bp):
ATTAATAATTGATTATTTATTTAAAAT
Found at i:11848951 original size:43 final size:43
Alignment explanation
Indices: 11848873--11848995 Score: 169
Period size: 43 Copynumber: 2.9 Consensus size: 43
11848863 TGTGTGATAT
*
11848873 TGATGACCCAGCTATGTG-GGTGTGGGACTGCACATGAGCTGA
1 TGATGACCCAGCTATGTGCAGTGTGGGACTGCACATGAGCTGA
*
11848915 TGATGACCCAACTATGTGCAGTGTGGGACTGCACATGAGCTGA
1 TGATGACCCAGCTATGTGCAGTGTGGGACTGCACATGAGCTGA
* * * *
11848958 TGATGAACCAGCTATATGCGAGT-AGGGAGTGCACATGA
1 TGATGACCCAGCTATGTGC-AGTGTGGGACTGCACATGA
11848996 ACGGACTGTG
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
42 17 0.24
43 52 0.72
44 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (43 bp):
TGATGACCCAGCTATGTGCAGTGTGGGACTGCACATGAGCTGA
Found at i:11852125 original size:2 final size:2
Alignment explanation
Indices: 11852118--11852166 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
11852108 NNNNTAGTAG
11852118 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11852160 TA TA TA T
1 TA TA TA T
11852167 GATTGCCTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11860162 original size:39 final size:39
Alignment explanation
Indices: 11860108--11860199 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 39
11860098 CTGTAGCTTC
* * * *
11860108 TCGCTGCAGTGAGAAACTTTCTGTTTCTGGGTTGCAATT
1 TCGCTGCAGTGAGAAACATTCTGCTTCTAGGTTACAATT
*
11860147 TCGCTGCAGCGAGAAACATTCTGCTTCTAGGTTACAATT
1 TCGCTGCAGTGAGAAACATTCTGCTTCTAGGTTACAATT
*
11860186 TTGCTGCAGTGAGA
1 TCGCTGCAGTGAGA
11860200 TTGAATCTCG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.34
Consensus pattern (39 bp):
TCGCTGCAGTGAGAAACATTCTGCTTCTAGGTTACAATT
Found at i:11865893 original size:11 final size:11
Alignment explanation
Indices: 11865877--11865901 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11865867 CTTAATAAAA
11865877 TATTATTATTT
1 TATTATTATTT
11865888 TATTATTATTT
1 TATTATTATTT
11865899 TAT
1 TAT
11865902 CACATACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTATTT
Found at i:11866479 original size:69 final size:69
Alignment explanation
Indices: 11866406--11866589 Score: 181
Period size: 77 Copynumber: 2.5 Consensus size: 69
11866396 ATCACATAAC
**
11866406 TTTAGGAATTTCTTTTGAAGTAAAAAACTATTTCCTATGAATTTCA-AAAATTAAAATGCTATCC
1 TTTAGGAATTTCTTTT-AAGTAAAAAACTATTTCCTATGAATCACACAAAATTAAAATGCTATCC
11866470 TTAAT
65 TTAAT
* *
11866475 TTTAGGAATTTCTTTTAATGTAGAAAACAATTTCATATTCTTTATGAATCACACAAAATTAAAAT
1 TTTAGGAATTTCTTTTAA-GT--AAAA-AA-CT-AT-TTC-CTATGAATCACACAAAATTAAAAT
**
11866540 TTTATCCTTAAT
58 GCTATCCTTAAT
* ** *
11866552 TTTAGGAATTACTTTTCAAGTAGGAAACAATTTCCTAT
1 TTTAGGAATTTCTTTT-AAGTAAAAAACTATTTCCTAT
11866590 TCTTTATGAA
Statistics
Matches: 93, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
68 2 0.02
69 18 0.19
70 3 0.03
71 7 0.08
72 4 0.04
73 1 0.01
74 4 0.04
75 5 0.05
76 9 0.10
77 38 0.41
78 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (69 bp):
TTTAGGAATTTCTTTTAAGTAAAAAACTATTTCCTATGAATCACACAAAATTAAAATGCTATCCT
TAAT
Found at i:11866617 original size:77 final size:77
Alignment explanation
Indices: 11866452--11866617 Score: 244
Period size: 77 Copynumber: 2.2 Consensus size: 77
11866442 ATGAATTTCA
* *
11866452 AAAATTAAAATGCTATCCTTAATTTTAGGAATTTCTTTTAATGTAGAAAACAATTTCATATTCTT
1 AAAATTAAAATTCTATCCTTAATTTTAGGAATTACTTTTAATGTAGAAAACAATTTCATATTCTT
11866517 TATGAATCACAC
66 TATGAATCACAC
* * *
11866529 AAAATTAAAATTTTATCCTTAATTTTAGGAATTACTTTTCAA-GTAGGAAACAATTTCCTATTCT
1 AAAATTAAAATTCTATCCTTAATTTTAGGAATTACTTTT-AATGTAGAAAACAATTTCATATTCT
**
11866593 TTATGAATCATTC
65 TTATGAATCACAC
*
11866606 AGAATTAAAATT
1 AAAATTAAAATT
11866618 GATGGCATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
77 78 0.98
78 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (77 bp):
AAAATTAAAATTCTATCCTTAATTTTAGGAATTACTTTTAATGTAGAAAACAATTTCATATTCTT
TATGAATCACAC
Found at i:11871946 original size:19 final size:19
Alignment explanation
Indices: 11871909--11871946 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11871899 CCATTTAACT
* *
11871909 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATCTGAG
11871928 TATTGGAGTATAATCTGAG
1 TATTGGAGTATAATCTGAG
11871947 GGTTTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (19 bp):
TATTGGAGTATAATCTGAG
Found at i:11880457 original size:16 final size:16
Alignment explanation
Indices: 11880436--11880472 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
11880426 AGATGGTGTC
11880436 TGTTTACTCATTGGGA
1 TGTTTACTCATTGGGA
11880452 TGTTTACTCATTGGGA
1 TGTTTACTCATTGGGA
11880468 T-TTTA
1 TGTTTA
11880473 TAATCTCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.49
Consensus pattern (16 bp):
TGTTTACTCATTGGGA
Found at i:11883341 original size:20 final size:20
Alignment explanation
Indices: 11883313--11883365 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
11883303 AATGTCTAAG
*
11883313 TTTCTAGCAACTTCTTCAAA
1 TTTCCAGCAACTTCTTCAAA
*
11883333 TTTCCAGCAGA-TTCTTCAAG
1 TTTCCAGCA-ACTTCTTCAAA
*
11883353 CTTCCAGCAACTT
1 TTTCCAGCAACTT
11883366 TTTCTTCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.36
Consensus pattern (20 bp):
TTTCCAGCAACTTCTTCAAA
Found at i:11884152 original size:7 final size:7
Alignment explanation
Indices: 11884142--11884166 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11884132 TGTTTGATGT
11884142 TGTGAAA
1 TGTGAAA
11884149 TGTGAAA
1 TGTGAAA
11884156 TGTGAAA
1 TGTGAAA
11884163 TGTG
1 TGTG
11884167 TAAAAGGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (7 bp):
TGTGAAA
Found at i:11884362 original size:35 final size:35
Alignment explanation
Indices: 11884319--11884390 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
11884309 AAATGGATGG
11884319 TGATACGGTTCAGCTATGTGCACGATGTGGTGGGA
1 TGATACGGTTCAGCTATGTGCACGATGTGGTGGGA
11884354 TGATACGGTTCAGCTATGTGCACGATGTGGTGGGA
1 TGATACGGTTCAGCTATGTGCACGATGTGGTGGGA
11884389 TG
1 TG
11884391 CATATGAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.19, C:0.14, G:0.38, T:0.29
Consensus pattern (35 bp):
TGATACGGTTCAGCTATGTGCACGATGTGGTGGGA
Found at i:11884452 original size:54 final size:54
Alignment explanation
Indices: 11884361--11884464 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
11884351 GGATGATACG
* *
11884361 GTTCAGCTATGTGCACGATGTGGTGGGATGCATATGAGCTGGGTGAGATGGGAT
1 GTTCAGCTATGTGCACGATGTGGTGGGATGCACATGAGCTAGGTGAGATGGGAT
*
11884415 GTTCGGCTATGTGCACGATGTGGTGGGATGCACATGAGCTAGGTGAGATG
1 GTTCAGCTATGTGCACGATGTGGTGGGATGCACATGAGCTAGGTGAGATG
11884465 CACGTGATGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.20, C:0.12, G:0.40, T:0.27
Consensus pattern (54 bp):
GTTCAGCTATGTGCACGATGTGGTGGGATGCACATGAGCTAGGTGAGATGGGAT
Found at i:11895827 original size:21 final size:21
Alignment explanation
Indices: 11895801--11895873 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 21
11895791 AGATGTTACT
11895801 TTTAAATTTAAACAAATTAAA
1 TTTAAATTTAAACAAATTAAA
* ** * **
11895822 TTTAAATGTAATTAATTTTTA
1 TTTAAATTTAAACAAATTAAA
*
11895843 TTTAAATTTAAACAAATAAAA
1 TTTAAATTTAAACAAATTAAA
11895864 TTTAAATTTA
1 TTTAAATTTA
11895874 TATCCTATCT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (21 bp):
TTTAAATTTAAACAAATTAAA
Found at i:11901068 original size:24 final size:24
Alignment explanation
Indices: 11901036--11901083 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
11901026 ATCAAAATAT
*
11901036 GTTGCATAAGCATGTCATTGATAA
1 GTTGCATAACCATGTCATTGATAA
11901060 GTTGCATAACCATGTCATTGATAA
1 GTTGCATAACCATGTCATTGATAA
11901084 ATCTCATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (24 bp):
GTTGCATAACCATGTCATTGATAA
Found at i:11901949 original size:87 final size:87
Alignment explanation
Indices: 11901803--11901970 Score: 291
Period size: 87 Copynumber: 1.9 Consensus size: 87
11901793 CACATACAAC
* *
11901803 TCATCAGCATACAATTCATGCCATAGCACATATTTCACAATCTTTGCTATGGGTGGGAATGCCTA
1 TCATCAACATACAATTCATGCCATAGCACATATTTCACAATCTTTGCTATAGGTGGGAATGCCTA
*
11901868 CATCCACCTAAGCATATCATCA
66 CATCCACCCAAGCATATCATCA
* *
11901890 TCATCAACATACATTTCTTGCCATAGCACATATTTCACAATCTTTGCTATAGGTGGGAATGCCTA
1 TCATCAACATACAATTCATGCCATAGCACATATTTCACAATCTTTGCTATAGGTGGGAATGCCTA
11901955 CATCCACCCAAGCATA
66 CATCCACCCAAGCATA
11901971 CATTTCATAA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (87 bp):
TCATCAACATACAATTCATGCCATAGCACATATTTCACAATCTTTGCTATAGGTGGGAATGCCTA
CATCCACCCAAGCATATCATCA
Found at i:11917970 original size:73 final size:73
Alignment explanation
Indices: 11917851--11918012 Score: 179
Period size: 73 Copynumber: 2.2 Consensus size: 73
11917841 CTAACTGTGC
* *
11917851 TCTTAGTCGACTAAGTTGTCTCTGTCTTCTGATCTTAGGTTTTGGCAGTGA-GCACTTAGTCGAC
1 TCTTAGTCGACTAAGTTGTCTCTGTCTTCTGATCTCAGATTTTGGCAGT-ATGCACTTAGTCGAC
*
11917915 TAAATTATT
65 TAAATTACT
* * * *
11917924 TCTTAGTCGATTAAGTTGTTTCTGTC-T-TGAAGTC-CAGATTTATGGCAGTATGCTCTTAGTTG
1 TCTTAGTCGACTAAGTTGTCTCTGTCTTCTG-A-TCTCAGATTT-TGGCAGTATGCACTTAGTCG
*
11917986 ACTAACTTACT
63 ACTAAATTACT
*
11917997 TCTTGGTCGACTAAGT
1 TCTTAGTCGACTAAGT
11918013 CTTCTCTATC
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
71 2 0.03
72 8 0.11
73 65 0.87
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (73 bp):
TCTTAGTCGACTAAGTTGTCTCTGTCTTCTGATCTCAGATTTTGGCAGTATGCACTTAGTCGACT
AAATTACT
Found at i:11938796 original size:31 final size:31
Alignment explanation
Indices: 11938761--11938820 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
11938751 AAGGTACATC
11938761 CCCATTACACCTTAGACTGGCAACGTATAAG
1 CCCATTACACCTTAGACTGGCAACGTATAAG
* * * *
11938792 CCCATTGCACCTTGGGCTGGCAATGTATA
1 CCCATTACACCTTAGACTGGCAACGTATA
11938821 TTCAATGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (31 bp):
CCCATTACACCTTAGACTGGCAACGTATAAG
Found at i:11939553 original size:65 final size:65
Alignment explanation
Indices: 11939449--11939577 Score: 222
Period size: 65 Copynumber: 2.0 Consensus size: 65
11939439 ATAGAATCTT
* * *
11939449 ATTTAAGTTTGCCCTAATTATAATTAGAAGGATAACGTGAGAGATAGCAATAGATTAACAAGTTC
1 ATTTAAGTATGCACTAATTACAATTAGAAGGATAACGTGAGAGATAGCAATAGATTAACAAGTTC
*
11939514 ATTTAAGTATGCACTAATTACAATTAGAAGGATAACGTGAGAGATAGCAATAGATTAAGAAGTT
1 ATTTAAGTATGCACTAATTACAATTAGAAGGATAACGTGAGAGATAGCAATAGATTAACAAGTT
11939578 GAACATGAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.29
Consensus pattern (65 bp):
ATTTAAGTATGCACTAATTACAATTAGAAGGATAACGTGAGAGATAGCAATAGATTAACAAGTTC
Found at i:11943013 original size:2 final size:2
Alignment explanation
Indices: 11943006--11943043 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11942996 TGATCAAGAA
11943006 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
11943044 TGCCATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11943450 original size:111 final size:110
Alignment explanation
Indices: 11943247--11943453 Score: 371
Period size: 111 Copynumber: 1.9 Consensus size: 110
11943237 TGGTCATTGT
*
11943247 ATTGTTAAGACAGGGCATTGACAATACTCAAAAACTAGTACATGTTAAGCTCCTTACTTTGGAAG
1 ATTGTTAAGACAGGGCATTGACAATACTCAAAAACTAGTACATGTTAAGCTCCTTACTTGGGAAG
11943312 TAAGAAATCGATCTCATAGATTAAAAGTATAGAGATACTTAAAAC
66 TAAGAAATCGATCTCATAGATTAAAAGTATAGAGATACTTAAAAC
*
11943357 NATTGTTAAGACAGGGCATTGACAATACTCAAAGACTAGTACATGTTAAGCCTCCTTACTTGGGA
1 -ATTGTTAAGACAGGGCATTGACAATACTCAAAAACTAGTACATGTTAAG-CTCCTTACTTGGGA
11943422 AGTAAGAAATCGATCTCATAGATT-AAAGTATA
64 AGTAAGAAATCGATCTCATAGATTAAAAGTATA
11943454 TGGGATATTT
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
111 56 0.60
112 37 0.40
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (110 bp):
ATTGTTAAGACAGGGCATTGACAATACTCAAAAACTAGTACATGTTAAGCTCCTTACTTGGGAAG
TAAGAAATCGATCTCATAGATTAAAAGTATAGAGATACTTAAAAC
Found at i:11947207 original size:22 final size:22
Alignment explanation
Indices: 11947182--11947233 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
11947172 TTCTCACTGT
11947182 AGCGAGAATCCATTTTCGCTGC
1 AGCGAGAATCCATTTTCGCTGC
* * *
11947204 AGCGAGAATTCTTTTTTGCTGC
1 AGCGAGAATCCATTTTCGCTGC
*
11947226 AGTGAGAA
1 AGCGAGAA
11947234 ATCGGGCTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (22 bp):
AGCGAGAATCCATTTTCGCTGC
Found at i:11947542 original size:37 final size:37
Alignment explanation
Indices: 11947469--11947631 Score: 188
Period size: 37 Copynumber: 4.4 Consensus size: 37
11947459 TACACCACCC
* *
11947469 CACTTCATTCATCATCA--TGTGCACTCCTTACTCGCA
1 CACTTCA-ACATCATCATGTGTGCACTCCCTACTCGCA
* * * *
11947505 CACTTTAACAACATCATGTGTGGACTTCCTACTCGCA
1 CACTTCAACATCATCATGTGTGCACTCCCTACTCGCA
* * *
11947542 C-CCTCTAACATCATCATGCGTGCACTCCCTACTCACA
1 CACTTC-AACATCATCATGTGTGCACTCCCTACTCGCA
*
11947579 CACTTCAACATCATCATGTGTGCACTCCCTACTCGTA
1 CACTTCAACATCATCATGTGTGCACTCCCTACTCGCA
*
11947616 TACTTCAACATCATCA
1 CACTTCAACATCATCA
11947632 CACAACATTA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
35 7 0.07
36 8 0.08
37 87 0.83
38 3 0.03
ACGTcount: A:0.26, C:0.36, G:0.09, T:0.29
Consensus pattern (37 bp):
CACTTCAACATCATCATGTGTGCACTCCCTACTCGCA
Found at i:11950949 original size:14 final size:15
Alignment explanation
Indices: 11950930--11950958 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11950920 CATCAAAACT
11950930 TATATTTA-TAAATG
1 TATATTTATTAAATG
11950944 TATATTTATTAAATG
1 TATATTTATTAAATG
11950959 ACAATGATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
TATATTTATTAAATG
Found at i:11951815 original size:18 final size:19
Alignment explanation
Indices: 11951789--11951825 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
11951779 TAGAAATTTA
11951789 ATTTAAAATTTAAATTATT
1 ATTTAAAATTTAAATTATT
11951808 ATTT-AAATTTAAATTATT
1 ATTTAAAATTTAAATTATT
11951826 TTAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAAAATTTAAATTATT
Found at i:11951832 original size:6 final size:5
Alignment explanation
Indices: 11951783--11951845 Score: 54
Period size: 5 Copynumber: 11.6 Consensus size: 5
11951773 TAAAGATAGA
* * *
11951783 AATTT AATTT AAAATTT AAATTAT TATTT AAATTT AAATT ATTTT AATTT
1 AATTT AATTT --AATTT -AATT-T AATTT -AATTT AATTT AATTT AATTT
11951833 AATTT AATTT AAT
1 AATTT AATTT AAT
11951846 CTACTGCGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 30 0.62
6 12 0.25
7 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:11951845 original size:15 final size:16
Alignment explanation
Indices: 11951783--11951844 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
11951773 TAAAGATAGA
11951783 AATTTAATTTAAAATTT
1 AATTTAATTT-AAATTT
*
11951800 AAATTATTATTTAAATTT
1 -AATT-TAATTTAAATTT
* *
11951818 AAATT-ATTTTAATTT
1 AATTTAATTTAAATTT
11951833 AATTTAATTTAA
1 AATTTAATTTAA
11951845 TCTACTGCGT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
15 13 0.35
16 6 0.16
17 3 0.08
18 10 0.27
19 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTAATTTAAATTT
Found at i:11956711 original size:42 final size:42
Alignment explanation
Indices: 11956645--11956769 Score: 214
Period size: 42 Copynumber: 3.0 Consensus size: 42
11956635 TGTTGATGTG
*
11956645 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
*
11956687 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
* *
11956729 GACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCCTTGC
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGC
11956770 ATATGAGATG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.19, C:0.24, G:0.35, T:0.22
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
Found at i:11956817 original size:2 final size:2
Alignment explanation
Indices: 11956810--11956854 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
11956800 ATGATGATTA
* *
11956810 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
11956853 AT
1 AT
11956855 GGTTGTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:11958044 original size:18 final size:18
Alignment explanation
Indices: 11958021--11958060 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11958011 AGTAATTGGA
11958021 GTTGTGAGTTCTTTTATT
1 GTTGTGAGTTCTTTTATT
*
11958039 GTTGTGAGTTGTTTTATT
1 GTTGTGAGTTCTTTTATT
11958057 GTTG
1 GTTG
11958061 AGGTTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.03, G:0.28, T:0.60
Consensus pattern (18 bp):
GTTGTGAGTTCTTTTATT
Found at i:11958545 original size:20 final size:21
Alignment explanation
Indices: 11958503--11958546 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
11958493 ATGTATATAT
*
11958503 ATGAATATATGTTGTGCGTTG
1 ATGAATATATGTTGTGCGATG
*
11958524 ATGAATA-ATGTTGTGTGATG
1 ATGAATATATGTTGTGCGATG
11958544 ATG
1 ATG
11958547 TTGAAGTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.27, C:0.02, G:0.30, T:0.41
Consensus pattern (21 bp):
ATGAATATATGTTGTGCGATG
Found at i:11958581 original size:37 final size:37
Alignment explanation
Indices: 11958539--11958694 Score: 206
Period size: 37 Copynumber: 4.2 Consensus size: 37
11958529 TAATGTTGTG
*
11958539 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGTACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* * * * *
11958576 TGATGATATTGAAGTGTGCAATTAAGGAGTGCAGACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* *
11958613 TGATGATGTT-AGAGTGTGCTAGTAGGGAGTGAACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGGAGTGCACACA
* *
11958650 TGATGATGTTGAAGTGTGTGAGTAGGGAGTGCGCACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
11958687 TGATGATG
1 TGATGATG
11958695 ATATTGCATT
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
36 1 0.01
37 99 0.98
38 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.36, T:0.28
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:11958747 original size:2 final size:2
Alignment explanation
Indices: 11958740--11958766 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11958730 CATGATGATG
11958740 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11958767 GTTATAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11964990 original size:42 final size:42
Alignment explanation
Indices: 11964923--11965005 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
11964913 ATGTTGATTT
11964923 TGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
1 TGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
* *
11964965 TGACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 TGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
11965006 TTGCCCCCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.23
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
Found at i:11965276 original size:26 final size:26
Alignment explanation
Indices: 11965240--11965301 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
11965230 TTGCATATGA
11965240 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
11965266 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
11965292 GTTGATGATG
1 GATGATGATG
11965302 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:11970936 original size:2 final size:2
Alignment explanation
Indices: 11970929--11970964 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
11970919 ATGATGATGG
* *
11970929 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11970965 GTGTGTCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:11971402 original size:19 final size:19
Alignment explanation
Indices: 11971378--11971425 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
11971368 GGGTTTGGTG
*
11971378 AGAAACCCTCAACCAGCTA
1 AGAAACCCTCAACCAACTA
*
11971397 AGAAACCCTTAACCAACTA
1 AGAAACCCTCAACCAACTA
11971416 AGAAACCCTC
1 AGAAACCCTC
11971426 GGCCAGTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.44, C:0.35, G:0.08, T:0.12
Consensus pattern (19 bp):
AGAAACCCTCAACCAACTA
Found at i:11975061 original size:20 final size:20
Alignment explanation
Indices: 11975036--11975076 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11975026 CACTAGTTGG
11975036 GCATTTTAGAGAGAGAAAAA
1 GCATTTTAGAGAGAGAAAAA
*
11975056 GCATTTTAGTGAGAGAAAAA
1 GCATTTTAGAGAGAGAAAAA
11975076 G
1 G
11975077 AGAATTACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.27, T:0.22
Consensus pattern (20 bp):
GCATTTTAGAGAGAGAAAAA
Found at i:11975698 original size:43 final size:43
Alignment explanation
Indices: 11975649--11975759 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
11975639 ATTGATTTGA
* *
11975649 CTATGTGCGAGTAGGGAGTGCGTATAAGCCGATGATGACCC-G
1 CTATGTGCGAGTAGGGAGTGCGCATAACCCGATGATGACCCAG
* *
11975691 ATTATGTGGGAGTAGGGAGTGCGCATAACCCGATGATGACCCAG
1 -CTATGTGCGAGTAGGGAGTGCGCATAACCCGATGATGACCCAG
* *
11975735 CCATGTACGAGTAGGGAGTGCGCAT
1 CTATGTGCGAGTAGGGAGTGCGCAT
11975760 GAGCTGGTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 58 0.98
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAACCCGATGATGACCCAG
Found at i:11983746 original size:153 final size:152
Alignment explanation
Indices: 11983466--11983772 Score: 589
Period size: 153 Copynumber: 2.0 Consensus size: 152
11983456 AGATTTCCAA
11983466 AGTTCAACATGCCAAATTCATATGCATTTCAACCATAAACCATATACATGAGTTTTCATTCTCTA
1 AGTTCAACATGCCAAATTCATATGCATTTCAACCATAAACCATATACATGAGTTTTCATTCTCTA
11983531 AACATATATACATATACATACATGGATAAATACCAATACCACTATCATCACATCCAGCTCATGTG
66 AACATATATACATATACATACATGGATAAATACCAATACCACTATCATCACATCCAGCTCATGTG
11983596 CATCCCCC-CACATCGTGCACAT
131 CATCCCCCAC-CATCGTGCACAT
11983618 AGNTTCAACATGCCAAATTCATATGCATTTCAACCATAAACCATATACATGAGTTTTCATTCTCT
1 AG-TTCAACATGCCAAATTCATATGCATTTCAACCATAAACCATATACATGAGTTTTCATTCTCT
11983683 AAACATATATACATATACATACATGGATAAATACCAATACCACTATCATCACATCCAGCTCATGT
65 AAACATATATACATATACATACATGGATAAATACCAATACCACTATCATCACATCCAGCTCATGT
11983748 GCATCCCCCACCATCGTGCACAT
130 GCATCCCCCACCATCGTGCACAT
11983771 AG
1 AG
11983773 CTGGAGTCAT
Statistics
Matches: 153, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
152 2 0.01
153 150 0.98
154 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.28
Consensus pattern (152 bp):
AGTTCAACATGCCAAATTCATATGCATTTCAACCATAAACCATATACATGAGTTTTCATTCTCTA
AACATATATACATATACATACATGGATAAATACCAATACCACTATCATCACATCCAGCTCATGTG
CATCCCCCACCATCGTGCACAT
Found at i:11986990 original size:139 final size:137
Alignment explanation
Indices: 11986808--11987060 Score: 416
Period size: 139 Copynumber: 1.8 Consensus size: 137
11986798 TTAAATGTTT
** *
11986808 AAAGATTATGAATTAAAAATATTTTAATTATAATCTTAATAAGATTAGGAATGGATAATATTACT
1 AAAGATTACAAATTAAAAATATTTTAATTATAATCCTAATAAGATTAGGAATGGATAATATTACT
* *
11986873 AATACTGATTAGTAAAGACTTTCTATATATGAAAAAATGTTTCCATACACAAAATTAAAAATGAA
66 AATACTGATTAGTAAAGACTTTCCATATATGAAAAAATATTTCCATACACAAAATTAAAAATGAA
11986938 CTCGNTTA
131 CTCG-TTA
*
11986946 AAAGATTACAAATTAAAAATTATTTTAATTCTAATCCTAATAAGATTAGGAATGGATAATATTAC
1 AAAGATTACAAATTAAAAA-TATTTTAATTATAATCCTAATAAGATTAGGAATGGATAATATTAC
* *
11987011 TAATACTGATTAGTAAAGACTTTCCATATATGGAAAACTATTTCCATACA
65 TAATACTGATTAGTAAAGACTTTCCATATATGAAAAAATATTTCCATACA
11987061 TGGAATTAAA
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
138 17 0.16
139 89 0.84
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (137 bp):
AAAGATTACAAATTAAAAATATTTTAATTATAATCCTAATAAGATTAGGAATGGATAATATTACT
AATACTGATTAGTAAAGACTTTCCATATATGAAAAAATATTTCCATACACAAAATTAAAAATGAA
CTCGTTA
Found at i:12015542 original size:21 final size:21
Alignment explanation
Indices: 12015521--12015559 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12015511 ACTCTTTTTA
12015521 AAGT-AAATTAAACTAAAATT
1 AAGTAAAATTAAACTAAAATT
*
12015541 AAGTAAAATTAAGCTAAAA
1 AAGTAAAATTAAACTAAAA
12015560 CAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.26
Consensus pattern (21 bp):
AAGTAAAATTAAACTAAAATT
Found at i:12019521 original size:26 final size:26
Alignment explanation
Indices: 12019485--12019540 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
12019475 TGATGGAATT
12019485 CCTTGTACCAAAGGAATAGCATAATC
1 CCTTGTACCAAAGGAATAGCATAATC
*
12019511 CCTTGTACCAAAGGAATTGCATAATC
1 CCTTGTACCAAAGGAATAGCATAATC
12019537 CCTT
1 CCTT
12019541 AAGTAATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (26 bp):
CCTTGTACCAAAGGAATAGCATAATC
Found at i:12029731 original size:281 final size:280
Alignment explanation
Indices: 12029228--12029789 Score: 1097
Period size: 281 Copynumber: 2.0 Consensus size: 280
12029218 GCAGCGAACA
12029228 TTGTCTCATCATTAAAGTTCTACCCTTATCTATTGATCATAGCTCCCTTACACATTTACTATACT
1 TTGTCTCATCATTAAAGTTCTACCCTTATCTATTGATCATAGCTCCCTTACACATTTACTATACT
12029293 TTCCTGGGTTACTTACAAGTCACTCATGGCCATCCAACTTTTAACCTCTTATAGTAAGTCAAACT
66 TTCCTGGGTTACTTACAAGTCACTCATGGCCATCCAACTTTTAACCTCTTATAGTAAGTCAAACT
12029358 AATATATTCTCTTATACTTTTCCATACGCTTCCTTAATAAAGTTCCACTCTTTCATACGAATATA
131 AATATATTCTCTTATACTTTTCCATACGCTTCCTTAATAAAGTTCCACTCTTTCATACGAATATA
12029423 ACATCATTCTTCCTTAACCAATTTACAAATTGTACTTGAAATTGCAAGACTTAAAACTAGATTCT
196 ACATCATTCTTCCTTAACCAATTTACAAATTGTACTTGAAATTGCAAGACTTAAAACTAGATTCT
12029488 CCTCAAGTACTTTTCAATAT
261 CCTCAAGTACTTTTCAATAT
12029508 NTTGTCTCATCATTAAAGTTCTACCCTTATCTATTGATCATAGCTCCCTTACACATTTACTATAC
1 -TTGTCTCATCATTAAAGTTCTACCCTTATCTATTGATCATAGCTCCCTTACACATTTACTATAC
**
12029573 TTTCCTGGGTTACTTACAAGTCACTCATGGCCATCCAACTTTTGCCCTCTTATAGTAAGTCAAAC
65 TTTCCTGGGTTACTTACAAGTCACTCATGGCCATCCAACTTTTAACCTCTTATAGTAAGTCAAAC
12029638 TAATATATTCTCTTATACTTTTCCATACGCTTCCTTAATAAAGTTCCACTCTTTCATACGAATAT
130 TAATATATTCTCTTATACTTTTCCATACGCTTCCTTAATAAAGTTCCACTCTTTCATACGAATAT
12029703 AACATCATTCTTCCTTAACCAATTTACAAATTGTACTTGAAATTGCAAGACTTAAAACTAGATTC
195 AACATCATTCTTCCTTAACCAATTTACAAATTGTACTTGAAATTGCAAGACTTAAAACTAGATTC
12029768 TCCTCAAGTACTTTTCAATAT
260 TCCTCAAGTACTTTTCAATAT
12029789 T
1 T
12029790 AATACTAATA
Statistics
Matches: 279, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
280 1 0.00
281 278 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (280 bp):
TTGTCTCATCATTAAAGTTCTACCCTTATCTATTGATCATAGCTCCCTTACACATTTACTATACT
TTCCTGGGTTACTTACAAGTCACTCATGGCCATCCAACTTTTAACCTCTTATAGTAAGTCAAACT
AATATATTCTCTTATACTTTTCCATACGCTTCCTTAATAAAGTTCCACTCTTTCATACGAATATA
ACATCATTCTTCCTTAACCAATTTACAAATTGTACTTGAAATTGCAAGACTTAAAACTAGATTCT
CCTCAAGTACTTTTCAATAT
Found at i:12030560 original size:15 final size:14
Alignment explanation
Indices: 12030540--12030590 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 14
12030530 TTCTTAATAT
12030540 AACTTTAAAATCGAA
1 AACTTTAAAATC-AA
12030555 AACTTTAAAATCCAA
1 AACTTTAAAAT-CAA
*
12030570 AGCTTTAAAATCAA
1 AACTTTAAAATCAA
12030584 AATCTTT
1 AA-CTTT
12030591 GATCTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 4 0.12
15 27 0.84
16 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (14 bp):
AACTTTAAAATCAA
Found at i:12037022 original size:20 final size:20
Alignment explanation
Indices: 12036999--12037037 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12036989 ATTGAGAAAT
12036999 AGAAAAGACTTAGTTGACTC
1 AGAAAAGACTTAGTTGACTC
* **
12037019 AGAAATGGGTTAGTTGACT
1 AGAAAAGACTTAGTTGACT
12037038 AAAAGTCTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (20 bp):
AGAAAAGACTTAGTTGACTC
Found at i:12037147 original size:73 final size:73
Alignment explanation
Indices: 12037061--12037260 Score: 201
Period size: 73 Copynumber: 2.7 Consensus size: 73
12037051 TAGAAATCTA
* * * *
12037061 GACTTCAAGACAGAACCAATTTAATCGACTAAGAAATAAGTTAGTCGACTAAGAGCAT-ACTGCC
1 GACTTCAAAACAGAAACAACTTAATCGACTAAGAAAGAAGTTAGTCGACTAAGAGC-TCACTGCC
12037125 AAAAATTTT
65 AAAAATTTT
* * * *
12037134 GACTTTAAAACAGAAACAACTTAATCGACTAAGAAGGAAGTTAGTCGACTAAGTGCTCATTGCCA
1 GACTTCAAAACAGAAACAACTTAATCGACTAAGAAAGAAGTTAGTCGACTAAGAGCTCACTGCCA
**
12037199 AAAATTGG
66 AAAATTTT
* ** * *
12037207 GA-TT-AGAAGACA-AAGACAACTTAGTCGACTAAGAGTGCAGTTAGTCAACTAAGA
1 GACTTCA-AA-ACAGAA-ACAACTTAATCGACTAAGAAAGAAGTTAGTCGACTAAGA
12037261 TCATTCTGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
71 1 0.01
72 7 0.07
73 99 0.93
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (73 bp):
GACTTCAAAACAGAAACAACTTAATCGACTAAGAAAGAAGTTAGTCGACTAAGAGCTCACTGCCA
AAAATTTT
Found at i:12037696 original size:35 final size:33
Alignment explanation
Indices: 12037648--12037748 Score: 114
Period size: 32 Copynumber: 3.0 Consensus size: 33
12037638 AAGTTAATTA
* *
12037648 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTG
1 TTGGGTTTTGGTTGAGCCCATGAAAAACCATTG
* ** * *
12037681 TTGTAGGTTGTGGTTGAGCCTTTCAAAAACCACT-
1 TTG--GGTTTTGGTTGAGCCCATGAAAAACCATTG
12037715 TTGGGTTTTGGTTGAGCCCATGAAAAACCATTG
1 TTGGGTTTTGGTTGAGCCCATGAAAAACCATTG
12037748 T
1 T
12037749 GAAAGGATGT
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
32 24 0.44
33 4 0.07
34 3 0.06
35 23 0.43
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (33 bp):
TTGGGTTTTGGTTGAGCCCATGAAAAACCATTG
Found at i:12037727 original size:67 final size:68
Alignment explanation
Indices: 12037648--12037822 Score: 239
Period size: 67 Copynumber: 2.6 Consensus size: 68
12037638 AAGTTAATTA
* * *
12037648 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTCAAAAACC
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGATGTGGTTAAGCCTTTCAAAAACC
12037712 ACT
66 ACT
* * *
12037715 TTGGGTTTTGGTTGAGCCCATGAAAAACCATTG-TGAAAGGATGTGGTTAAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGATGTGGTTAAGCCTTTCAAAAACC
12037779 ACT
66 ACT
* * *
12037782 TTGGGTTTTAGTTGATCCCGATAAAAAACTATTG-TGAAAGG
1 TTGGGTTTTGGTTGATCCCG-TGAAAAACCATTGTTGAAAGG
12037823 TTTTGGCTAA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
66 2 0.02
67 75 0.79
68 18 0.19
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (68 bp):
TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGATGTGGTTAAGCCTTTCAAAAACC
ACT
Found at i:12037732 original size:32 final size:32
Alignment explanation
Indices: 12037648--12037796 Score: 120
Period size: 35 Copynumber: 4.5 Consensus size: 32
12037638 AAGTTAATTA
* * *
12037648 TTGGGTTTTGGTTGATCCCGTGAAAAACCATT
1 TTGGGTTTTGGTTGAGCCCTTGAAAAACCACT
* * *
12037680 GTTGTAGGTTGTGGTTGAGCCTTTCAAAAACCACT
1 -TTG--GGTTTTGGTTGAGCCCTTGAAAAACCACT
*
12037715 TTGGGTTTTGGTTGAGCCCATGAAAAACCA-T
1 TTGGGTTTTGGTTGAGCCCTTGAAAAACCACT
* * * *
12037746 TGTGAAAGGATGTGGTTAAGCCTTTGAAAAACCACT
1 T-TG---GGTTTTGGTTGAGCCCTTGAAAAACCACT
*
12037782 TTGGGTTTTAGTTGA
1 TTGGGTTTTGGTTGA
12037797 TCCCGATAAA
Statistics
Matches: 90, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
31 2 0.02
32 33 0.37
33 3 0.03
34 3 0.03
35 47 0.52
36 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (32 bp):
TTGGGTTTTGGTTGAGCCCTTGAAAAACCACT
Found at i:12038741 original size:11 final size:12
Alignment explanation
Indices: 12038725--12038758 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
12038715 ATATGGCTAG
12038725 CCAAAGGAA-AA
1 CCAAAGGAAGAA
12038736 CCAAAGGAAGAA
1 CCAAAGGAAGAA
12038748 -CAAAGGAAGAA
1 CCAAAGGAAGAA
12038759 AAGAAGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 20 0.91
12 2 0.09
ACGTcount: A:0.62, C:0.15, G:0.24, T:0.00
Consensus pattern (12 bp):
CCAAAGGAAGAA
Found at i:12038754 original size:22 final size:19
Alignment explanation
Indices: 12038726--12038770 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
12038716 TATGGCTAGC
12038726 CAAAGGAAAACCAAAGGAAGAA
1 CAAAGGAAAA--AAA-GAAGAA
*
12038748 CAAAGGAAGAAAAGAAGAA
1 CAAAGGAAAAAAAGAAGAA
12038767 CAAA
1 CAAA
12038771 AACCCTAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 3 0.14
22 9 0.41
ACGTcount: A:0.67, C:0.11, G:0.22, T:0.00
Consensus pattern (19 bp):
CAAAGGAAAAAAAGAAGAA
Found at i:12048279 original size:46 final size:45
Alignment explanation
Indices: 12048212--12048302 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 45
12048202 TCCTAACATG
12048212 TTGGCAATGGAATTGAATTATAATATTATTAATTAATTAATTTAA
1 TTGGCAATGGAATTGAATTATAATATTATTAATTAATTAATTTAA
*
12048257 NTTGGCAATGGAATTGAGTTATAATATTATTAATTAATTAATTTAA
1 -TTGGCAATGGAATTGAATTATAATATTATTAATTAATTAATTTAA
12048303 ATGAATCATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.44
Consensus pattern (45 bp):
TTGGCAATGGAATTGAATTATAATATTATTAATTAATTAATTTAA
Found at i:12058380 original size:24 final size:24
Alignment explanation
Indices: 12058348--12058396 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
12058338 GGTTAGTACT
12058348 ACACCTATTTCCATCAGAAAAAGA
1 ACACCTATTTCCATCAGAAAAAGA
*
12058372 ACACCTATTTCCATCAGAAAGAGA
1 ACACCTATTTCCATCAGAAAAAGA
12058396 A
1 A
12058397 AAAGAGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.20
Consensus pattern (24 bp):
ACACCTATTTCCATCAGAAAAAGA
Found at i:12071072 original size:20 final size:21
Alignment explanation
Indices: 12071030--12071073 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
12071020 ATATATATAT
*
12071030 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTGCAATG
*
12071051 ATGAATA-ATGTTGTGTAATG
1 ATGAATATATGTTGTGCAATG
12071071 ATG
1 ATG
12071074 TGGACCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.41
Consensus pattern (21 bp):
ATGAATATATGTTGTGCAATG
Found at i:12071143 original size:42 final size:42
Alignment explanation
Indices: 12071070--12071235 Score: 192
Period size: 42 Copynumber: 3.9 Consensus size: 42
12071060 GTTGTGTAAT
* * * *
12071070 GATGTGGACCC-AGCTATGTGTGAGTAGGAGTGTGCATAAGCC
1 GATGTTGACCCGA-CTATGTGCGAGTGGGAGTGCGCATAAGCC
* **
12071112 GATGCTG-CCCTGGTTATGTGCGAGTGGGAGTGCGCATAAGCC
1 GATGTTGACCC-GACTATGTGCGAGTGGGAGTGCGCATAAGCC
* * * *
12071154 AATGTTGACCCAACTATGTACGAGTGAGAGTGCGCATAAGCC
1 GATGTTGACCCGACTATGTGCGAGTGGGAGTGCGCATAAGCC
12071196 GATGTTGACCCGACTATGTGCGAGTAGGGAGTGCGCATAA
1 GATGTTGACCCGACTATGTGCGAGT-GGGAGTGCGCATAA
12071236 ATCAATGGTG
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 3 0.03
42 83 0.81
43 16 0.16
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (42 bp):
GATGTTGACCCGACTATGTGCGAGTGGGAGTGCGCATAAGCC
Found at i:12071185 original size:84 final size:85
Alignment explanation
Indices: 12071071--12071235 Score: 219
Period size: 84 Copynumber: 2.0 Consensus size: 85
12071061 TTGTGTAATG
* ** * **
12071071 ATGTGGACCCAGCTATGTGTGAGTAGGAGTGTGCATAAGCCGATGCTG-CCCTGGTTATGTGCGA
1 ATGTGGACCCAACTATGTACGAGTAGGAGTGCGCATAAGCCGATGCTGACCC-GACTATGTGCGA
12071135 GT-GGGAGTGCGCATAAGCCA
65 GTAGGGAGTGCGCATAAGCCA
* *
12071155 ATGTTGACCCAACTATGTACGAGT-GAGAGTGCGCATAAGCCGATGTTGACCCGACTATGTGCGA
1 ATGTGGACCCAACTATGTACGAGTAG-GAGTGCGCATAAGCCGATGCTGACCCGACTATGTGCGA
12071219 GTAGGGAGTGCGCATAA
65 GTAGGGAGTGCGCATAA
12071236 ATCAATGGTG
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
83 1 0.01
84 52 0.74
85 17 0.24
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.23
Consensus pattern (85 bp):
ATGTGGACCCAACTATGTACGAGTAGGAGTGCGCATAAGCCGATGCTGACCCGACTATGTGCGAG
TAGGGAGTGCGCATAAGCCA
Found at i:12076730 original size:27 final size:27
Alignment explanation
Indices: 12076689--12076746 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
12076679 AAATTATTAG
* *
12076689 ATATCCAAGATATTTGATGAAAGGACC
1 ATATCCAAGAGATTTGATAAAAGGACC
*
12076716 ATATCTAAGAGATTTGATAAAAGGACC
1 ATATCCAAGAGATTTGATAAAAGGACC
12076743 ATAT
1 ATAT
12076747 TACACTGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (27 bp):
ATATCCAAGAGATTTGATAAAAGGACC
Found at i:12084233 original size:77 final size:75
Alignment explanation
Indices: 12084145--12084290 Score: 168
Period size: 76 Copynumber: 1.9 Consensus size: 75
12084135 TTAGGTGATT
* * * * *
12084145 CATAAAAAATAGAAAATTT-TTTCCTACTTGAAAGTGAATTCCTAAAATTAAGGATAGAATTTTA
1 CATAAAAAATAG-AAATTTGTTACCTACTTAAAAG-AAATTCCTAAAATTAAAGATAGAACTTTA
12084209 AGTTTGGGTTATC
64 A-TTTGGGTTATC
* * * * *
12084222 CATAAAGAATAGGAATTTGTTACTTGCTTAAAAGAAATTCCTAAAATTAAAGATAGCACTTTAAT
1 CATAAAAAATAGAAATTTGTTACCTACTTAAAAGAAATTCCTAAAATTAAAGATAGAACTTTAAT
12084287 TTGG
66 TTGG
12084291 AAAACTTATA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
75 5 0.09
76 31 0.53
77 22 0.38
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (75 bp):
CATAAAAAATAGAAATTTGTTACCTACTTAAAAGAAATTCCTAAAATTAAAGATAGAACTTTAAT
TTGGGTTATC
Found at i:12084851 original size:28 final size:30
Alignment explanation
Indices: 12084794--12084851 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
12084784 AGGATTGATC
12084794 CTGTGAAGTAGAAACTTAGGGCTAAATAAT
1 CTGTGAAGTAGAAACTTAGGGCTAAATAAT
*
12084824 CTGTGAAG-A-AAATTTAAGGG-TAAATAAT
1 CTGTGAAGTAGAAACTT-AGGGCTAAATAAT
12084852 AACACTGGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 13 0.50
29 5 0.19
30 8 0.31
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (30 bp):
CTGTGAAGTAGAAACTTAGGGCTAAATAAT
Found at i:12088510 original size:28 final size:30
Alignment explanation
Indices: 12088454--12088513 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
12088444 TTTTTGAAAT
* *
12088454 TTACACTTTTGCCCCCATAAAAGTTAAAAA
1 TTACACTTTTGCCCCCATAAAACTGAAAAA
*
12088484 TTACA-TTTTTCCCCCA-AAAACTGAAAAA
1 TTACACTTTTGCCCCCATAAAACTGAAAAA
12088512 TT
1 TT
12088514 GCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 10 0.37
30 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (30 bp):
TTACACTTTTGCCCCCATAAAACTGAAAAA
Found at i:12089328 original size:49 final size:49
Alignment explanation
Indices: 12089276--12089741 Score: 353
Period size: 49 Copynumber: 9.5 Consensus size: 49
12089266 GATAATTTCG
* * * * *
12089276 GATGATGATATGATATGAGATATGTATATTCTATCCGTGGATGGTTTTG
1 GATGATGATATGATGTGAGATATGTATGTTCTATCCGTAGATGATTTTA
* * * *
12089325 GATGATGATATGATGTGAGATATGTATGTTCCATACGTAGACGATTCTA
1 GATGATGATATGATGTGAGATATGTATGTTCTATCCGTAGATGATTTTA
* * * *
12089374 AATGATGATATGATGTGAGGTATGTATG-TCTTATTCGTAGATGATTTCA
1 GATGATGATATGATGTGAGATATGTATGTTC-TATCCGTAGATGATTTTA
* * ** * **
12089423 GACGATGATATGATGTGAGGTATGTATGTT-TCGCTCGTAAATGATTCCA
1 GATGATGATATGATGTGAGATATGTATGTTCTATC-CGTAGATGATTTTA
* * * * * * * **
12089472 GATGAATGATATGATATGAGATATGTATATTTTGTCCCTGGATGGTTCCA
1 GATG-ATGATATGATGTGAGATATGTATGTTCTATCCGTAGATGATTTTA
* ** * * *
12089522 AACAATGATATGATGTG-GAATATGTATGTTCTATCTGAAGATAATTTTA
1 GATGATGATATGATGTGAG-ATATGTATGTTCTATCCGTAGATGATTTTA
* * ** * *
12089571 GACGATGATATGATATGAGATATGTATGTTCCGTCCATAGATGATTTTG
1 GATGATGATATGATGTGAGATATGTATGTTCTATCCGTAGATGATTTTA
* * ** ** **
12089620 GATGATGATATGATGTGTGGTATGTATGTTCCCTCTATAGATGATTCCA
1 GATGATGATATGATGTGAGATATGTATGTTCTATCCGTAGATGATTTTA
* * * * * * *
12089669 AACGATGATGTGATGTGAGATATGTATGTTCTGTCTGTAAATGATTTTG
1 GATGATGATATGATGTGAGATATGTATGTTCTATCCGTAGATGATTTTA
* *
12089718 GACGATGATATGATGTGAGGTATG
1 GATGATGATATGATGTGAGATATG
12089742 CATGCTCCAA
Statistics
Matches: 328, Mismatches: 82, Indels: 14
0.77 0.19 0.03
Matches are distributed among these distances:
48 4 0.01
49 286 0.87
50 36 0.11
51 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.38
Consensus pattern (49 bp):
GATGATGATATGATGTGAGATATGTATGTTCTATCCGTAGATGATTTTA
Found at i:12089385 original size:98 final size:98
Alignment explanation
Indices: 12089277--12089750 Score: 427
Period size: 98 Copynumber: 4.8 Consensus size: 98
12089267 ATAATTTCGG
* * * *
12089277 ATGATGATATGATATGAGATATGTATATTCTATCCGTGGATGGTTTTGGATGATGATATGATGTG
1 ATGATGATATGATATGAGATATGTATATTCTGTCCGTAGATGATTTTGGACGATGATATGATGTG
* * *
12089342 AGATATGTATGTTCCATAC-GTAGACGATTCTAA
66 AGGTATGTATGTTCCAT-CTGTAGATGATTCCAA
* * * * * **
12089375 ATGATGATATGATGTGAGGTATGTAT-GTCTTATTCGTAGATGATTTCAGACGATGATATGATGT
1 ATGATGATATGATATGAGATATGTATATTC-TGTCCGTAGATGATTTTGGACGATGATATGATGT
* *
12089439 GAGGTATGTATGTTTCGC-TC-GTAAATGATTCCAG
65 GAGGTATGTATG-TTC-CATCTGTAGATGATTCCAA
* * * * **** *
12089473 ATGAATGATATGATATGAGATATGTATATTTTGTCCCTGGATGGTTCCAAACAATGATATGATGT
1 ATG-ATGATATGATATGAGATATGTATATTCTGTCCGTAGATGATTTTGGACGATGATATGATGT
* * * * ** *
12089538 G-GAATATGTATGTTCTATCTGAAGATAATTTTAG
65 GAG-GTATGTATGTTCCATCTGTAGATGATTCCAA
* * * * *
12089572 ACGATGATATGATATGAGATATGTATGTTCCGTCCATAGATGATTTTGGATGATGATATGATGTG
1 ATGATGATATGATATGAGATATGTATATTCTGTCCGTAGATGATTTTGGACGATGATATGATGTG
* * *
12089637 TGGTATGTATGTTCCCTCTATAGATGATTCCAA
66 AGGTATGTATGTTCCATCTGTAGATGATTCCAA
* * * * * *
12089670 ACGATGATGTGATGTGAGATATGTATGTTCTGTCTGTAAATGATTTTGGACGATGATATGATGTG
1 ATGATGATATGATATGAGATATGTATATTCTGTCCGTAGATGATTTTGGACGATGATATGATGTG
* *
12089735 AGGTATGCATGCTCCA
66 AGGTATGTATGTTCCA
12089751 ACCATGGATG
Statistics
Matches: 301, Mismatches: 66, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
97 2 0.01
98 225 0.75
99 72 0.24
100 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (98 bp):
ATGATGATATGATATGAGATATGTATATTCTGTCCGTAGATGATTTTGGACGATGATATGATGTG
AGGTATGTATGTTCCATCTGTAGATGATTCCAA
Found at i:12089761 original size:147 final size:144
Alignment explanation
Indices: 12089279--12089800 Score: 449
Period size: 147 Copynumber: 3.5 Consensus size: 144
12089269 AATTTCGGAT
* * * * * * * *
12089279 GATGATATGATATGAGATATGTATATTCTATCCGTGGATGGTTTTGGATGATGATATGATGTGAG
1 GATGATATGATGTGAGGTATGTATGTTCCA-CCATAGATGATTTCGGATGATGATATGATGTGAG
* * * * * *
12089344 ATATGTATGTTCCATACGTAGACGATTCTAAATGATGATATGATGTGAGGTATGTATG-TCTTAT
65 ATATGTATGTTCCAT-CATAGATGATTCCAAACGATGATATGATGTGAGATATGTATGTTCTT-C
* *
12089408 TCGTAGATGATTTCAGAC
128 T-GTAAATGATTTTAGAC
* * * * * * *
12089426 GATGATATGATGTGAGGTATGTATGTTTCGCTCGTAAATGATTCCAGATGAATGATATGATATGA
1 GATGATATGATGTGAGGTATGTATGTTCCAC-CATAGATGATTTCGGATG-ATGATATGATGTGA
* *** * * * *
12089491 GATATGTATATTTTGTCCCTGGATGGTTCCAAACAATGATATGATGTG-GAATATGTATGTTCTA
64 GATATGTATGTTCCAT-CATAGATGATTCCAAACGATGATATGATGTGAG-ATATGTATGTTCT-
*
12089555 TCTG-AAGATAATTTTAGAC
126 TCTGTAA-ATGATTTTAGAC
* * * * *
12089574 GATGATATGATATGAGATATGTATGTTCCGTCCATAGATGATTTTGGATGATGATATGATGTGTG
1 GATGATATGATGTGAGGTATGTATGTTCC-ACCATAGATGATTTCGGATGATGATATGATGTGAG
* * *
12089639 GTATGTATGTTCCCTCTATAGATGATTCCAAACGATGATGTGATGTGAGATATGTATGTTCTGTC
65 ATATGTATGTTCCATC-ATAGATGATTCCAAACGATGATATGATGTGAGATATGTATGTTCT-TC
*
12089704 TGTAAATGATTTTGGAC
128 TGTAAATGATTTTAGAC
* * * * *
12089721 GATGATATGATGTGAGGTATGCATGCTCCAACCATGGATGATTTCGGACGATGTTATGATGTTG-
1 GATGATATGATGTGAGGTATGTATGTTCC-ACCATAGATGATTTCGGATGATGATATGATG-TGA
* *
12089785 GTTATGCATGTTCCAT
64 GATATGTATGTTCCAT
12089801 GAATAGAGGA
Statistics
Matches: 297, Mismatches: 67, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
146 2 0.01
147 177 0.60
148 112 0.38
149 5 0.02
150 1 0.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (144 bp):
GATGATATGATGTGAGGTATGTATGTTCCACCATAGATGATTTCGGATGATGATATGATGTGAGA
TATGTATGTTCCATCATAGATGATTCCAAACGATGATATGATGTGAGATATGTATGTTCTTCTGT
AAATGATTTTAGAC
Found at i:12089762 original size:49 final size:49
Alignment explanation
Indices: 12089270--12089800 Score: 309
Period size: 49 Copynumber: 10.8 Consensus size: 49
12089260 AATGTGGATA
* * * * * * *
12089270 ATTTCGGATGATGATATGATATGAGATATGTATATTCTATCCGTGGATG
1 ATTTTGGACGATGATATGATGTGAGATATGTATGTTCCATCCATAGATG
* * * * *
12089319 GTTTTGGATGATGATATGATGTGAGATATGTATGTTCCATACGTAGACG
1 ATTTTGGACGATGATATGATGTGAGATATGTATGTTCCATCCATAGATG
* ** * * * * *
12089368 ATTCTAAATGATGATATGATGTGAGGTATGTATG-TCTTATTCGTAGATG
1 ATTTTGGACGATGATATGATGTGAGATATGTATGTTC-CATCCATAGATG
** * * *
12089417 ATTTCAGACGATGATATGATGTGAGGTATGTATGTTTCGC-T-CGTAAATG
1 ATTTTGGACGATGATATGATGTGAGATATGTATG-TTC-CATCCATAGATG
*** * * * *** * *
12089466 ATTCCAGATGAATGATATGATATGAGATATGTATATTTTGTCCCTGGATG
1 ATTTTGGACG-ATGATATGATGTGAGATATGTATGTTCCATCCATAGATG
* **** * * * *
12089516 GTTCCAAACAATGATATGATGTG-GAATATGTATGTTCTATCTGA-AGATA
1 ATTTTGGACGATGATATGATGTGAG-ATATGTATGTTCCATC-CATAGATG
* * *
12089565 ATTTTAGACGATGATATGATATGAGATATGTATGTTCCGTCCATAGATG
1 ATTTTGGACGATGATATGATGTGAGATATGTATGTTCCATCCATAGATG
* * * * *
12089614 ATTTTGGATGATGATATGATGTGTGGTATGTATGTTCCCTCTATAGATG
1 ATTTTGGACGATGATATGATGTGAGATATGTATGTTCCATCCATAGATG
**** * ** ** *
12089663 ATTCCAAACGATGATGTGATGTGAGATATGTATGTTCTGTCTGTAAATG
1 ATTTTGGACGATGATATGATGTGAGATATGTATGTTCCATCCATAGATG
* * * * *
12089712 ATTTTGGACGATGATATGATGTGAGGTATGCATGCTCCAACCATGGATG
1 ATTTTGGACGATGATATGATGTGAGATATGTATGTTCCATCCATAGATG
* * * *
12089761 ATTTCGGACGATGTTATGATGTTG-GTTATGCATGTTCCAT
1 ATTTTGGACGATGATATGATG-TGAGATATGTATGTTCCAT
12089801 GAATAGAGGA
Statistics
Matches: 377, Mismatches: 94, Indels: 22
0.76 0.19 0.04
Matches are distributed among these distances:
48 4 0.01
49 335 0.89
50 36 0.10
51 2 0.01
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (49 bp):
ATTTTGGACGATGATATGATGTGAGATATGTATGTTCCATCCATAGATG
Found at i:12092275 original size:68 final size:68
Alignment explanation
Indices: 12092169--12092295 Score: 175
Period size: 68 Copynumber: 1.9 Consensus size: 68
12092159 ATACTGCCAA
** * * *
12092169 TTGGGAGATTACCCTGGGTGATGCTAATCATCGGGAGATTACTCTAGTCGATGATGTGATACCAC
1 TTGGGAGATTACCAGGGGTGATGCTAATCATCGAGAGATTACTCCAGTCGATAATGTGATACCAC
12092234 CTC
66 CTC
* *
12092237 TTGGGAGATTACCAGGGGTGGTGCTGA-CTATCGAGAGATTACTCCAGTCGATAATGTGA
1 TTGGGAGATTACCAGGGGTGATGCTAATC-ATCGAGAGATTACTCCAGTCGATAATGTGA
12092296 CTATGTCCAG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 1 0.02
68 50 0.98
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (68 bp):
TTGGGAGATTACCAGGGGTGATGCTAATCATCGAGAGATTACTCCAGTCGATAATGTGATACCAC
CTC
Done.