Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 114 of 171
Found at i:36368269 original size:37 final size:38
Alignment explanation
Indices: 36368219--36368293 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
36368209 ACCTCTGAAC
* *
36368219 TTTCCAAAATTCCA-TTTTAGCCCTGATTTCACCAAAA
1 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
*
36368256 TTTCCAAAATTCCATTTTTAACCCCGGTTTCACCAAAA
1 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
36368294 ACTACCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 14 0.41
38 20 0.59
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (38 bp):
TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
Found at i:36380626 original size:76 final size:76
Alignment explanation
Indices: 36380500--36381334 Score: 1370
Period size: 76 Copynumber: 11.0 Consensus size: 76
36380490 TCAATCCAAC
* *
36380500 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTAAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
36380565 GTAAGAGCAAG
66 GTAAGAGCAAG
* *
36380576 ATCATTTCCTATCCTCTTAAAATTGAAGTAAAGCGGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
36380641 GTAAGAGTAAG
66 GTAAGAGCAAG
* * *
36380652 ATCATTTCCTATCCTCTTGAAATCGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
36380717 GTAAGAGCAAG
66 GTAAGAGCAAG
36380728 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTC-TTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
36380792 GTAAGAGCAGG
66 GTAAGAGCAAG
*
36380803 ATCATTTCCTATTCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTC-TTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
36380867 GTAAGACCAAG
66 GTAAGAGCAAG
* *
36380878 ATCATTTCCTATCCTCTTGAAATTGAACTAAAGCGGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
36380943 GTAAGAGCAAG
66 GTAAGAGCAAG
*
36380954 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTTTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
36381019 GTAAGAACAAG
66 GTAAGAGCAAG
* * *
36381030 ATCATTTCC-ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
36381094 GTAAGAACAAG
66 GTAAGAGCAAG
* * *
36381105 ATCATTTCGTATCCTTTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
36381170 GTAAGAGCAAG
66 GTAAGAGCAAG
*
36381181 ATCATTTCCTATCCTCTTGAAATTAAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
36381246 GTAAGAACAAG
66 GTAAGAGCAAG
* * * * * * *
36381257 ATCATTTCCCATGCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCAGTAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
36381322 GTAAGAGCAAG
66 GTAAGAGCAAG
36381333 AT
1 AT
36381335 AAAGACTCGA
Statistics
Matches: 706, Mismatches: 51, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
75 213 0.30
76 493 0.70
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:36381017 original size:227 final size:228
Alignment explanation
Indices: 36380500--36381334 Score: 1370
Period size: 227 Copynumber: 3.7 Consensus size: 228
36380490 TCAATCCAAC
* *
36380500 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTAAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
* * * *
36380565 GTAAGAGCAAGATCATTTCCTATCCTCTTAAAATTGAAGTAAAGCGGGATATCAAGTCTTTATCT
66 GTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
* * * *
36380630 CTGAAATTGAAGTAAGAGTAAGATCATTTCCTATCCTCTTGAAATCGAAGTAGAGCTGGATAACA
131 CTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCA
36380695 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
196 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
36380728 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTC-TTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
* * * *
36380792 GTAAGAGCAGGATCATTTCCTATTCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTC-TTATCT
66 GTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
* * *
36380856 CTGAAATTGAAGTAAGACCAAGATCATTTCCTATCCTCTTGAAATTGAACTAAAGCGGGATATCA
131 CTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCA
36380921 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
196 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
*
36380954 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTTTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
* *
36381019 GTAAGAACAAGATCATTTCC-ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCT
66 GTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
* * * *
36381083 CTGAAATTGAAGTAAGAACAAGATCATTTCGTATCCTTTTGAAATTGAAGTAAAGCTAGATATCA
131 CTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCA
36381148 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
196 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
*
36381181 ATCATTTCCTATCCTCTTGAAATTAAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
* * * *
36381246 GTAAGAACAAGATCATTTCCCATGCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCT
66 GTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
* *
36381311 CAGTAATTGAAGTAAGAGCAAGAT
131 CTGAAATTGAAGTAAGAGCAAGAT
36381335 AAAGACTCGA
Statistics
Matches: 572, Mismatches: 32, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
226 177 0.31
227 285 0.50
228 110 0.19
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (228 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
GTAAGAACAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
CTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCA
AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
Found at i:36381613 original size:17 final size:16
Alignment explanation
Indices: 36381593--36381682 Score: 74
Period size: 17 Copynumber: 5.4 Consensus size: 16
36381583 TTTGAAATGA
36381593 AATTTATTTTAATTTTG
1 AATTTATTTTAA-TTTG
* *
36381610 AATTTATTTTAAATTC
1 AATTTATTTTAATTTG
*
36381626 AATTTAATTTGAATTTG
1 AATTT-ATTTTAATTTG
*
36381643 AATTTAATTTAAATTT-
1 AATTT-ATTTTAATTTG
* *
36381659 AATATTATTGTAAATTTA
1 AAT-TTATT-TTAATTTG
36381677 AATTTA
1 AATTTA
36381683 AAAAAAGGGT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
16 13 0.21
17 47 0.75
18 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (16 bp):
AATTTATTTTAATTTG
Found at i:36381624 original size:11 final size:11
Alignment explanation
Indices: 36381600--36381683 Score: 66
Period size: 11 Copynumber: 7.5 Consensus size: 11
36381590 TGAAATTTAT
*
36381600 TTTAATTTTGAA
1 TTTAA-TTTAAA
*
36381612 TTTATTTTAAA
1 TTTAATTTAAA
*
36381623 TTCAATTT-AA
1 TTTAATTTAAA
*
36381633 TTTGAATTTGAA
1 TTT-AATTTAAA
36381645 TTTAATTTAAA
1 TTTAATTTAAA
36381656 TTTAATATT--A
1 TTTAAT-TTAAA
36381666 TTGTAAATTTAAA
1 TT-T-AATTTAAA
36381679 TTTAA
1 TTTAA
36381684 AAAAAGGGTC
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
10 7 0.12
11 34 0.58
12 15 0.25
13 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:36381630 original size:33 final size:32
Alignment explanation
Indices: 36381593--36381683 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 32
36381583 TTTGAAATGA
*
36381593 AATTTATTTTAATTTTGAATTTATTTTAAATTC
1 AATTTATTTTAA-TTTGAATTTAATTTAAATTC
* *
36381626 AATTTAATTTGAATTTGAATTTAATTTAAATTT
1 AATTT-ATTTTAATTTGAATTTAATTTAAATTC
* *
36381659 AATATTATTGTAAATTTAAATTTAA
1 AAT-TTATT-TTAATTTGAATTTAA
36381684 AAAAAGGGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
33 29 0.58
34 21 0.42
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (32 bp):
AATTTATTTTAATTTGAATTTAATTTAAATTC
Found at i:36381642 original size:6 final size:5
Alignment explanation
Indices: 36381593--36381683 Score: 58
Period size: 6 Copynumber: 16.4 Consensus size: 5
36381583 TTTGAAATGA
* * *
36381593 AATTT ATTTT AATTTT GAATTT ATTTT AAATTC AATTT AATTT GAATTT
1 AATTT AATTT AA-TTT -AATTT AATTT -AATTT AATTT AATTT -AATTT
36381642 GAATTT AATTT AAATTT AATATT -ATTGT AAATTT AAATTT AA
1 -AATTT AATTT -AATTT AAT-TT AATT-T -AATTT -AATTT AA
36381684 AAAAAGGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
4 1 0.01
5 31 0.44
6 34 0.48
7 5 0.07
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (5 bp):
AATTT
Found at i:36382337 original size:20 final size:19
Alignment explanation
Indices: 36382312--36382356 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
36382302 GTTCCTAATA
*
36382312 TATTAATATTAATAACATAT
1 TATTAATAATAATAACAT-T
36382332 TATTAATAATAATAACATT
1 TATTAATAATAATAACATT
36382351 TATTAA
1 TATTAA
36382357 CATCATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
TATTAATAATAATAACATT
Found at i:36382382 original size:29 final size:29
Alignment explanation
Indices: 36382316--36382383 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
36382306 CTAATATATT
* *
36382316 AATATTAATAACATATTATTAATAATAATA
1 AATATTATTAACATATTA-TAATAACAATA
*
36382346 ACAT-TTATTAACATCATTA-AATGACAATA
1 A-ATATTATTAACAT-ATTATAATAACAATA
36382375 AATATTATT
1 AATATTATT
36382384 CAATAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 2 0.06
29 14 0.44
30 10 0.31
31 6 0.19
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.40
Consensus pattern (29 bp):
AATATTATTAACATATTATAATAACAATA
Found at i:36382729 original size:20 final size:20
Alignment explanation
Indices: 36382704--36382757 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
36382694 GATTGATGAC
*
36382704 CGGAGACGGTCGAGCAGGAT
1 CGGAGACGGACGAGCAGGAT
*
36382724 CGGAGATGGACGAGCAGGAT
1 CGGAGACGGACGAGCAGGAT
* *
36382744 GGGGGACGTGACGA
1 CGGAGACG-GACGA
36382758 CGCGCCCCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.26, C:0.17, G:0.48, T:0.09
Consensus pattern (20 bp):
CGGAGACGGACGAGCAGGAT
Found at i:36383299 original size:162 final size:161
Alignment explanation
Indices: 36383085--36383421 Score: 620
Period size: 162 Copynumber: 2.1 Consensus size: 161
36383075 GGTTTTCAAT
36383085 TTAGTCCTTTGACTGTTTGACTGCACAGAGGCTGCCACGTGTCACCTTTTGGCTTATTTATGTAT
1 TTAGTCCTTTGACTGTTTGACTGCACAGAGGCTGCCACGTGTCACCTTTTGGCTTATTTATGTAT
*
36383150 CTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTGTTTAATTACAAA
66 CTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAAA
*
36383215 ATTGGCCCAAGAATTTTTCAAGATTTATAAA
131 ATTGGCCCAAAAATTTTTCAAGATTTATAAA
* * *
36383246 TTAGTCCTTTGGCTGTTTGACTGCACCCGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCA-CAGAGGCTGCCACGTGTCACCTTTTGGCTTATTTATGTA
36383311 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
65 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
36383376 AATTGGCCCAAAAATTTTTCAAGATTTATAAA
130 AATTGGCCCAAAAATTTTTCAAGATTTATAAA
36383408 TTAGTCCTTTGACT
1 TTAGTCCTTTGACT
36383422 TCTGGGTACC
Statistics
Matches: 169, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
161 24 0.14
162 145 0.86
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (161 bp):
TTAGTCCTTTGACTGTTTGACTGCACAGAGGCTGCCACGTGTCACCTTTTGGCTTATTTATGTAT
CTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAAA
ATTGGCCCAAAAATTTTTCAAGATTTATAAA
Found at i:36383653 original size:59 final size:59
Alignment explanation
Indices: 36383495--36384023 Score: 299
Period size: 59 Copynumber: 8.7 Consensus size: 59
36383485 GGACTGTCCG
* * * * * *
36383495 AAAATTACCATTTTATCCTTAAACTCTT-CAAAATTTCATTTTTGAGCCCGGTTTTACCA
1 AAAATTACCATTTTACCCCTAAACT-TTCCAAAATTCCATTTTTAACCCCAGTTTTACCA
* *
36383554 AAAATTACCA-TTTACCTCC-GAACTTTCCAAAATTTCATTTTTAACCCCAGTTTTACCA
1 AAAATTACCATTTTACC-CCTAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTTACCA
*
36383612 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA-CCCTGATTTTACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAG-TTTTACCA
** * * *
36383671 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCTTTTTTAGCCCC-GATTTCACCAA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAG-TTTTACC-A
* * *
36383731 AGTTTCTGAAATT-CCATTTTTAACCCC--GATTTTACTAAAAATTACCA-TTTT-A-CCC--TT
1 A-------AAATTACCA-TTTT-ACCCCTAAACTTT-C-CAAAATT-CCATTTTTAACCCCAGTT
** *
36383788 AAACTCTC
54 TTAC-C-A
* * * * * **
36383796 CAAATT-CTATTTTAACCCC--GATTTTACCAAAAATTACCA-TTTTACCCCCGAACTTT-CC-
1 AAAATTACCATTTT-ACCCCTAAACTTT-CC-AAAATT-CCATTTTTAACCCC-AGTTTTACCA
* * * *
36383854 AAAATT-CCATTTTTAACCCCGGTTTCACCAAAGTTTCCAAAATTCTATTTTTAACCCTACTTTT
1 AAAATTACCA-TTTT-ACCCC----T----AAACTTTCCAAAATTCCATTTTTAACCCCAGTTTT
36383918 ACCA
56 ACCA
*
36383922 AAAATTACCATTTTACCCCTAAACTCTCC-AAATTCCATTTTTAACCCCAGTTTTACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTTACCA
* *
36383980 AAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTTA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTA
36384024 GCCGCGATTT
Statistics
Matches: 381, Mismatches: 47, Indels: 84
0.74 0.09 0.16
Matches are distributed among these distances:
57 34 0.09
58 119 0.31
59 131 0.34
60 6 0.02
61 1 0.00
62 1 0.00
63 1 0.00
64 4 0.01
65 1 0.00
66 16 0.04
67 31 0.08
68 27 0.07
69 9 0.02
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTTACCA
Found at i:36383704 original size:29 final size:28
Alignment explanation
Indices: 36383554--36383866 Score: 134
Period size: 30 Copynumber: 10.5 Consensus size: 28
36383544 GGTTTTACCA
*
36383554 AAAATTACCA-TTTACCTCCGAACTTTCC
1 AAAATT-CCATTTTACCCCCGAACTTTCC
* * **
36383582 AAAATTTCATTTTTAACCCC-AGTTTTACC
1 AAAATTCCA-TTTTACCCCCGAACTTT-CC
**
36383611 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
* * *
36383641 AAAATTCCATTTTTAACCCTG-ATTTTACC
1 AAAATTCCA-TTTTACCCCCGAACTTT-CC
36383670 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
* * *
36383700 AAAATTCCTTTTTTAGCCCCGATTTCACCAAAGTTTCT
1 AAAATTCC-ATTTTACCCCCGA----A-C----TTTCC
* * * *
36383738 GAAATTCCATTTTTAACCCCG-ATTTTACTA
1 AAAATTCCATTT-TACCCCCGAACTTT-C-C
*** *
36383768 AAAATTACCATTTTACCCTTAAACTCTCC
1 AAAATT-CCATTTTACCCCCGAACTTTCC
* * *
36383797 -AAATTCTATTTTAACCCCG-ATTTTACC
1 AAAATTCCATTTTACCCCCGAACTTT-CC
36383824 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
36383854 AAAATTCCATTTT
1 AAAATTCCATTTT
36383867 TAACCCCGGT
Statistics
Matches: 212, Mismatches: 42, Indels: 62
0.67 0.13 0.20
Matches are distributed among these distances:
26 3 0.01
27 13 0.06
28 34 0.16
29 55 0.26
30 57 0.27
31 26 0.12
33 2 0.01
34 1 0.00
37 3 0.01
38 18 0.08
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.37
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCCGAACTTTCC
Found at i:36383828 original size:57 final size:59
Alignment explanation
Indices: 36383739--36383885 Score: 208
Period size: 57 Copynumber: 2.5 Consensus size: 59
36383729 AAAGTTTCTG
* **
36383739 AAATTCCATTTTTAACCCCGATTTTACTAAAAATTACCATTTTACCCTTAAACTCTCC-
1 AAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCAAACTCTCCA
* * *
36383797 AAATTCTA-TTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCGAACTTTCCA
1 AAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCAAACTCTCCA
* *
36383855 AAATTCCATTTTTAACCCCGGTTTCACCAAA
1 AAATTCCATTTTTAACCCCGATTTTACCAAA
36383886 GTTTCCAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
57 44 0.56
58 14 0.18
59 20 0.26
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCAAACTCTCCA
Found at i:36383922 original size:38 final size:38
Alignment explanation
Indices: 36383849--36383923 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
36383839 ACCCCCGAAC
**
36383849 TTTCCAAAATTCCATTTTTAACCCCGGTTTCACCAAAG
1 TTTCCAAAATTCCATTTTTAACCCCACTTTCACCAAAG
* * *
36383887 TTTCCAAAATTCTATTTTTAACCCTACTTTTACCAAA
1 TTTCCAAAATTCCATTTTTAACCCCACTTTCACCAAA
36383924 AATTACCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.39
Consensus pattern (38 bp):
TTTCCAAAATTCCATTTTTAACCCCACTTTCACCAAAG
Found at i:36383927 original size:30 final size:30
Alignment explanation
Indices: 36383892--36383993 Score: 88
Period size: 30 Copynumber: 3.4 Consensus size: 30
36383882 CAAAGTTTCC
*
36383892 AAAATTCTATTTTTAACCCTACTTTTACCA
1 AAAATTCCATTTTTAACCCTACTTTTACCA
* *
36383922 AAAATTACCA-TTTTACCCCTAAAC-TCT-CC-
1 AAAATT-CCATTTTTAACCCT--ACTTTTACCA
* *
36383951 -AAATTCCATTTTTAACCCCAGTTTTACCA
1 AAAATTCCATTTTTAACCCTACTTTTACCA
36383980 AAAATTACCATTTT
1 AAAATT-CCATTTT
36383994 ACCCCTGAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
26 1 0.02
27 5 0.09
28 15 0.27
30 22 0.39
31 11 0.20
32 2 0.04
ACGTcount: A:0.34, C:0.26, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAATTCCATTTTTAACCCTACTTTTACCA
Found at i:36383981 original size:96 final size:96
Alignment explanation
Indices: 36383797--36383981 Score: 284
Period size: 96 Copynumber: 1.9 Consensus size: 96
36383787 TAAACTCTCC
* *
36383797 AAATTCTATTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCC
1 AAATTCTATTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCC
*
36383862 ATTTTTAACCCCGGTTTCACCAAAGTTTCCA
66 ATTTTTAACCCCAGTTTCACCAAAGTTTCCA
* *
36383893 AAATTCTATTTTTAA-CCCTACTTTTACCAAAAATTACCATTTTACCCCTAAACTCTCC-AAATT
1 AAATTCTA-TTTTAACCCCGA-TTTTACCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATT
*
36383956 CCATTTTTAACCCCAGTTTTACCAAA
64 CCATTTTTAACCCCAGTTTCACCAAA
36383982 AATTACCATT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
96 41 0.51
97 40 0.49
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (96 bp):
AAATTCTATTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCC
ATTTTTAACCCCAGTTTCACCAAAGTTTCCA
Found at i:36383983 original size:58 final size:59
Alignment explanation
Indices: 36383892--36384023 Score: 203
Period size: 58 Copynumber: 2.3 Consensus size: 59
36383882 CAAAGTTTCC
* *
36383892 AAAATTCTATTTTTAACCCTACTTTTACCAAAAATTACCATTTTACCCCTAAACTCTC-
1 AAAATTCCATTTTTAACCCCACTTTTACCAAAAATTACCATTTTACCCCTAAACTCTCT
* * * *
36383950 CAAATTCCATTTTTAACCCCAGTTTTACCAAAAATTACCATTTTACCCCTGAACTTTCT
1 AAAATTCCATTTTTAACCCCACTTTTACCAAAAATTACCATTTTACCCCTAAACTCTCT
36384009 AAAATTCCATTTTTA
1 AAAATTCCATTTTTA
36384024 GCCGCGATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
58 52 0.79
59 14 0.21
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.39
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCCCACTTTTACCAAAAATTACCATTTTACCCCTAAACTCTCT
Found at i:36383994 original size:30 final size:29
Alignment explanation
Indices: 36383914--36383998 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 29
36383904 TTAACCCTAC
36383914 TTTTACCAAAAATTACCATTTTACCCCTAAA
1 TTTTACCAAAAATTACCATTTTACCCC--AA
* * *
36383945 CTCT-CC--AAATT-CCATTTTTAACCCCAG
1 TTTTACCAAAAATTACCA-TTTT-ACCCCAA
36383972 TTTTACCAAAAATTACCATTTTACCCC
1 TTTTACCAAAAATTACCATTTTACCCC
36383999 TGAACTTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
27 6 0.14
28 11 0.26
29 10 0.23
30 11 0.26
31 5 0.12
ACGTcount: A:0.33, C:0.31, G:0.01, T:0.35
Consensus pattern (29 bp):
TTTTACCAAAAATTACCATTTTACCCCAA
Found at i:36384044 original size:155 final size:155
Alignment explanation
Indices: 36383577--36384090 Score: 811
Period size: 154 Copynumber: 3.3 Consensus size: 155
36383567 ACCTCCGAAC
* *
36383577 TTTCCAAAATTTCATTTTTAACCCC-AGTTTTACCAAAAATTACCATTTTACCCCTAAACTTTCC
1 TTTCCAAAATTCCATTTTTAACCCCGA-TTTTACCAAAAATTACCATTTTACCCCTAAACTCTCC
*
36383641 AAAATTCCATTTTTAACCCTGATTTTACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATT
65 -AAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATT
*
36383706 CCTTTTTTAGCCCCGATTTCACCAAAG
129 CCATTTTTAGCCCCGATTTCACCAAAG
** * *
36383733 TTTCTGAAATTCCATTTTTAACCCCGATTTTACTAAAAATTACCATTTTACCCTTAAACTCTCCA
1 TTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCTAAACTCTCCA
*
36383798 AATTCTA-TTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCC
66 AATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCC
* *
36383862 ATTTTTAACCCCGGTTTCACCAAAG
131 ATTTTTAGCCCCGATTTCACCAAAG
* *
36383887 TTTCCAAAATTCTATTTTTAA-CCCTACTTTTACCAAAAATTACCATTTTACCCCTAAACTCTCC
1 TTTCCAAAATTCCATTTTTAACCCCGA-TTTTACCAAAAATTACCATTTTACCCCTAAACTCTCC
* *
36383951 AAATTCCATTTTTAACCCC-AGTTTTACCAAAAATTACCATTTTACCCCTGAACTTTCTAAAATT
65 AAATTCCATTTTTAACCCCGA-TTTTACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATT
*
36384015 CCATTTTTAGCCGCGATTTCACCAAAG
129 CCATTTTTAGCCCCGATTTCACCAAAG
*
36384042 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTT
1 TTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTT
36384091 GCCCTCGTAC
Statistics
Matches: 327, Mismatches: 26, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
153 4 0.01
154 139 0.43
155 123 0.38
156 60 0.18
157 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.37
Consensus pattern (155 bp):
TTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCTAAACTCTCCA
AATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCC
ATTTTTAGCCCCGATTTCACCAAAG
Found at i:36384060 original size:38 final size:38
Alignment explanation
Indices: 36384004--36384078 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
36383994 ACCCCTGAAC
* * *
36384004 TTTCTAAAATTCCATTTTTAGCCGCGATTTCACCAAAG
1 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAG
36384042 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAA
1 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAA
36384079 AATTACCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (38 bp):
TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAG
Found at i:36384153 original size:155 final size:152
Alignment explanation
Indices: 36383577--36384126 Score: 707
Period size: 155 Copynumber: 3.5 Consensus size: 152
36383567 ACCTCCGAAC
* *
36383577 TTTCCAAAATTTCATTTTTAACCCC-AGTTTTACCAAAAATTACCATTTTACCC-CTAAACTTTC
1 TTTCCAAAATTCCATTTTTAACCCCGA-TTTTACCAAAAATTACCATTTTACCCTCT--ACTCTC
* *
36383640 CAAAATTCCATTTTTAACCCTGATTTTACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAAT
63 C-AAATTCCA-TTTTAACCCCGGTTTTACCAAAAATTA-CATTTTACCCCCGAACTTTCCAAAAT
*
36383705 TCCTTTTTTAGCCCCGATTTCACCAAAG
125 TCCATTTTTAGCCCCGATTTCACCAAAG
** *
36383733 TTTCTGAAATTCCATTTTTAACCCCGATTTTACTAAAAATTACCATTTTACCCT-TAAACTCTCC
1 TTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCTCT--ACTCTCC
* *
36383797 AAATTCTATTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCC
64 AAATTCCATTTTAACCCCGGTTTTACCAAAAATTA-CATTTTACCCCCGAACTTTCCAAAATTCC
* *
36383862 ATTTTTAACCCCGGTTTCACCAAAG
128 ATTTTTAGCCCCGATTTCACCAAAG
* *
36383887 TTTCCAAAATTCTATTTTTAA-CCCTACTTTTACCAAAAATTACCATTTTACCC-CTAAACTCTC
1 TTTCCAAAATTCCATTTTTAACCCCGA-TTTTACCAAAAATTACCATTTTACCCTCT--ACTCTC
* * *
36383950 CAAATTCCATTTTTAACCCCAGTTTTACCAAAAATTACCATTTTACCCCTGAACTTTCTAAAATT
63 CAAATTCCA-TTTTAACCCCGGTTTTACCAAAAATTA-CATTTTACCCCCGAACTTTCCAAAATT
*
36384015 CCATTTTTAGCCGCGATTTCACCAAAG
126 CCATTTTTAGCCCCGATTTCACCAAAG
* * *
36384042 TTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTGCCCTCGTACGT-TCA
1 TTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCTC-TAC-TCTCC
*
36384106 AAATTACCATTTTACCCCCGG
64 AAATT-CCATTTTAACCCCGG
36384127 GTATCCAAAA
Statistics
Matches: 354, Mismatches: 30, Indels: 21
0.87 0.07 0.05
Matches are distributed among these distances:
153 4 0.01
154 138 0.39
155 145 0.41
156 65 0.18
157 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (152 bp):
TTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCTCTACTCTCCAA
ATTCCATTTTAACCCCGGTTTTACCAAAAATTACATTTTACCCCCGAACTTTCCAAAATTCCATT
TTTAGCCCCGATTTCACCAAAG
Found at i:36388244 original size:21 final size:21
Alignment explanation
Indices: 36388218--36388263 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
36388208 CGTGAACCGT
* *
36388218 TCGTATAACGTTTGTTTATGC
1 TCGTATAAAGTTCGTTTATGC
*
36388239 TCGTATAAAGTTCGTTTATGT
1 TCGTATAAAGTTCGTTTATGC
36388260 TCGT
1 TCGT
36388264 TTATGTTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.48
Consensus pattern (21 bp):
TCGTATAAAGTTCGTTTATGC
Found at i:36388263 original size:10 final size:10
Alignment explanation
Indices: 36388248--36388273 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
36388238 CTCGTATAAA
36388248 GTTCGTTTAT
1 GTTCGTTTAT
36388258 GTTCGTTTAT
1 GTTCGTTTAT
36388268 GTTCGT
1 GTTCGT
36388274 GAGCCTTGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.58
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:36390744 original size:50 final size:50
Alignment explanation
Indices: 36390668--36391194 Score: 535
Period size: 50 Copynumber: 10.6 Consensus size: 50
36390658 TTTTTCCCTA
* * * * *
36390668 CCCCTCTATAGCTTTAGAGGTGTAAGATTTGATT-TCGCAACTTCAATTTG
1 CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCT-GCAGCTTCAATCTG
* * * * *
36390718 TCCCTCTACAGCTTTAGGGGTATAAGATTTGCCTCTACAGCTTTAA---G
1 CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCTGCAGCTTCAATCTG
* * * *
36390765 CCCCTTTATAGCTTTAGGGGTATAAGATTTGCTTTTACAACTTCAATCTG
1 CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCTGCAGCTTCAATCTG
* *
36390815 CCCCTCTATAGCTTTAGGGGTATAAGATTTGTTTCTGCAGCTTCAATTTG
1 CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCTGCAGCTTCAATCTG
* * ** * ** *
36390865 CCCCTCTACAACTTTAGAAGTATAAGATTTGCCTCTATAGCTTCAATCTA
1 CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCTGCAGCTTCAATCTG
* *
36390915 CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCTGCAGCTTTAATTTG
1 CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCTGCAGCTTCAATCTG
* * * * * * * *
36390965 ACCCTCCACAGCTTTAAGGGTATAAGATTTGCTTCTGTAACTACAATCTA
1 CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCTGCAGCTTCAATCTG
* * * *
36391015 CCCCTCTATAGCTTTAGAGATATAAGATTTGCCTCTACAGCTTCAATCTG
1 CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCTGCAGCTTCAATCTG
* * * * *
36391065 CCACTTTATAGCTTTAGGGATATAAGATTTGATT-TGCAGCTTTAATCTG
1 CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCTGCAGCTTCAATCTG
* * * * * *
36391114 CCCCTCTACAACTCTAAGGGTATAAGATTTTACTT-TGCATCTTCAATCTG
1 CCCCTCTATAGCTTTAGGGGTATAAGA-TTTGCTTCTGCAGCTTCAATCTG
* *
36391164 CCCCTCTACAACTTTAGGGGTATAAGATTTG
1 CCCCTCTATAGCTTTAGGGGTATAAGATTTG
36391195 TTAGTTCACT
Statistics
Matches: 387, Mismatches: 85, Indels: 11
0.80 0.18 0.02
Matches are distributed among these distances:
47 40 0.10
49 36 0.09
50 310 0.80
51 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (50 bp):
CCCCTCTATAGCTTTAGGGGTATAAGATTTGCTTCTGCAGCTTCAATCTG
Found at i:36390992 original size:150 final size:149
Alignment explanation
Indices: 36390668--36391194 Score: 629
Period size: 150 Copynumber: 3.5 Consensus size: 149
36390658 TTTTTCCCTA
* * * * *
36390668 CCCCTCTATAGCTTT-AGAGGTGTAAGATTTGATTTC-GCAACTTCAATTTGTCCCTCTACAGCT
1 CCCCTCTACAGCTTTAAG-GGTATAAGATTTG-TTTCTGCAACTTCAATCTGCCCCTCTACAACT
* *
36390731 TTAGGGGTATAAGATTTGCCTCTACAGCTTTAA---GCCCCTTTATAGCTTTAGGGGTATAAGAT
64 TTAGGAGTATAAGATTTGCCTCTACAGCTTCAATCTGCCCCTTTATAGCTTTAGGGGTATAAGAT
* * *
36390793 TTGCTTTTACAACTTCAATCTG
129 TTGC-TTTGCAGCTTTAATCTG
* * * *
36390815 CCCCTCTATAGCTTTAGGGGTATAAGATTTGTTTCTGCAGCTTCAATTTGCCCCTCTACAACTTT
1 CCCCTCTACAGCTTTAAGGGTATAAGATTTGTTTCTGCAACTTCAATCTGCCCCTCTACAACTTT
* * * *
36390880 AGAAGTATAAGATTTGCCTCTATAGCTTCAATCTACCCCTCTATAGCTTTAGGGGTATAAGATTT
66 AGGAGTATAAGATTTGCCTCTACAGCTTCAATCTGCCCCTTTATAGCTTTAGGGGTATAAGATTT
*
36390945 GCTTCTGCAGCTTTAATTTG
131 GCTT-TGCAGCTTTAATCTG
* * * * * * * *
36390965 ACCCTCCACAGCTTTAAGGGTATAAGATTTGCTTCTGTAACTACAATCTACCCCTCTATAGCTTT
1 CCCCTCTACAGCTTTAAGGGTATAAGATTTGTTTCTGCAACTTCAATCTGCCCCTCTACAACTTT
* *
36391030 A-GAGATATAAGATTTGCCTCTACAGCTTCAATCTGCCACTTTATAGCTTTAGGGATATAAGATT
66 AGGAG-TATAAGATTTGCCTCTACAGCTTCAATCTGCCCCTTTATAGCTTTAGGGGTATAAGATT
*
36391094 TGATTTGCAGCTTTAATCTG
130 TGCTTTGCAGCTTTAATCTG
* * *
36391114 CCCCTCTACAACTCTAAGGGTATAAGATTT-TACTT-TGCATCTTCAATCTGCCCCTCTACAACT
1 CCCCTCTACAGCTTTAAGGGTATAAGATTTGT--TTCTGCAACTTCAATCTGCCCCTCTACAACT
*
36391177 TTAGGGGTATAAGATTTG
64 TTAGGAGTATAAGATTTG
36391195 TTAGTTCACT
Statistics
Matches: 323, Mismatches: 47, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
146 4 0.01
147 80 0.25
148 1 0.00
149 80 0.25
150 158 0.49
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (149 bp):
CCCCTCTACAGCTTTAAGGGTATAAGATTTGTTTCTGCAACTTCAATCTGCCCCTCTACAACTTT
AGGAGTATAAGATTTGCCTCTACAGCTTCAATCTGCCCCTTTATAGCTTTAGGGGTATAAGATTT
GCTTTGCAGCTTTAATCTG
Found at i:36395308 original size:66 final size:69
Alignment explanation
Indices: 36395194--36395336 Score: 177
Period size: 67 Copynumber: 2.1 Consensus size: 69
36395184 TTAAAATTGT
* * **
36395194 TTTTTAAAGAGAATACTGAAGAAGTGAATTATGAGAGTATTCAGTAGTCAATGT-GTGA-TAAAA
1 TTTTTAATGAGAATACTGAAGAAGTGAACTATGAGAGTATTCAGTAGTCAACATAG-GATTAAAA
36395257 TTAAC
65 TTAAC
* * **
36395262 TTTTTAATGA-AATAGTGAAGAAGT-AGCTATGAGAGTATTCCTTAGTCAACATAGGATTAAAAT
1 TTTTTAATGAGAATACTGAAGAAGTGAACTATGAGAGTATTCAGTAGTCAACATAGGATTAAAAT
36395325 TAAC
66 TAAC
36395329 TTTTTAAT
1 TTTTTAAT
36395337 AAAAATAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
66 24 0.37
67 32 0.49
68 9 0.14
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (69 bp):
TTTTTAATGAGAATACTGAAGAAGTGAACTATGAGAGTATTCAGTAGTCAACATAGGATTAAAAT
TAAC
Found at i:36395427 original size:94 final size:92
Alignment explanation
Indices: 36395313--36395521 Score: 253
Period size: 94 Copynumber: 2.2 Consensus size: 92
36395303 TTAGTCAACA
* *
36395313 TAGGATTAAAATTAACTTTTTAATAAAAATAATAAAGAAATTGT-TACTTGTTTATAAGGTAAAT
1 TAGGATTAAAATTAATTTTTTAATAAAAATAATAAAGAAATT-TATACTTATTTAT-AGGTAAAT
*
36395377 GTAAGCTATGGGAGTGTTATCTAG-TCAATG
64 GTAAG-TATGAGAGTGTTATCTAGCT-AATG
* * * * *
36395407 T-GAGATTAAAGTTAATTTTTTAATGAAAATAGTGAAGAAATTTATACTTATTTATAGGTAAGTG
1 TAG-GATTAAAATTAATTTTTTAATAAAAATAATAAAGAAATTTATACTTATTTATAGGTAAATG
* *
36395471 TGAGTATGAGAGTGTTCTCTAGCTAATG
65 TAAGTATGAGAGTGTTATCTAGCTAATG
*
36395499 TAGGATTAAAATTAATTTATTAA
1 TAGGATTAAAATTAATTTTTTAA
36395522 CCTTTTAAGG
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
92 39 0.39
93 15 0.15
94 45 0.45
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (92 bp):
TAGGATTAAAATTAATTTTTTAATAAAAATAATAAAGAAATTTATACTTATTTATAGGTAAATGT
AAGTATGAGAGTGTTATCTAGCTAATG
Found at i:36397431 original size:18 final size:19
Alignment explanation
Indices: 36397408--36397446 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
36397398 TCACTTGTTT
36397408 TTATT-AATTTACAATT-TA
1 TTATTAAATTTA-AATTGTA
36397426 TTATTAAATTTAAATTGTA
1 TTATTAAATTTAAATTGTA
36397445 TT
1 TT
36397447 TATATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTATTAAATTTAAATTGTA
Found at i:36400515 original size:18 final size:19
Alignment explanation
Indices: 36400482--36400520 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
36400472 TCATTTGTTT
36400482 TTATTAATTTACAATT-TA
1 TTATTAATTTACAATTGTA
36400500 TTATTGAATTTA-AATTGTA
1 TTATT-AATTTACAATTGTA
36400519 TT
1 TT
36400521 TATATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (19 bp):
TTATTAATTTACAATTGTA
Found at i:36403360 original size:25 final size:23
Alignment explanation
Indices: 36403332--36403377 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
36403322 GTTGGATCCA
36403332 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
36403357 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
36403378 CCCTATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:36409289 original size:23 final size:23
Alignment explanation
Indices: 36409262--36409321 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
36409252 TTATATGTTT
*
36409262 ATGAACATGTTCGTTTAATGTT-C
1 ATGAACATGTTCGTTTAA-GTTAA
* *
36409285 GTGAACATGTTCGATTAAGTTAA
1 ATGAACATGTTCGTTTAAGTTAA
36409308 ATGAACATGTTCGT
1 ATGAACATGTTCGT
36409322 GAACATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 3 0.10
23 28 0.90
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (23 bp):
ATGAACATGTTCGTTTAAGTTAA
Found at i:36409330 original size:23 final size:23
Alignment explanation
Indices: 36409286--36409331 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
36409276 TTAATGTTCG
* *
36409286 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
36409309 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
36409332 CAAACGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:36421234 original size:18 final size:19
Alignment explanation
Indices: 36421213--36421248 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
36421203 TTTTCTAATT
36421213 TTAATTTTT-ATATTTTTA
1 TTAATTTTTAATATTTTTA
36421231 TTAATTTTTAATATTTTT
1 TTAATTTTTAATATTTTT
36421249 TATAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTAATTTTTAATATTTTTA
Found at i:36421239 original size:10 final size:9
Alignment explanation
Indices: 36421214--36421255 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
36421204 TTTCTAATTT
36421214 TAATTTTTA
1 TAATTTTTA
36421223 T-ATTTTTA
1 TAATTTTTA
36421231 TTAATTTTTAA
1 -TAATTTTT-A
*
36421242 TATTTTTTA
1 TAATTTTTA
36421251 TAATT
1 TAATT
36421256 CTTTTGTCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 7 0.25
9 7 0.25
10 13 0.46
11 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TAATTTTTA
Found at i:36421859 original size:23 final size:25
Alignment explanation
Indices: 36421832--36421890 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 25
36421822 TTTTGAAACA
*
36421832 AAATATTTTATATTAATTTA-ATT-
1 AAATATTTTATATTAACTTATATTG
*
36421855 TAATATTTTATATTAACTTATATTG
1 AAATATTTTATATTAACTTATATTG
36421880 AAATATTTTAT
1 AAATATTTTAT
36421891 TTTTATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 18 0.58
24 3 0.10
25 10 0.32
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
AAATATTTTATATTAACTTATATTG
Found at i:36428768 original size:55 final size:55
Alignment explanation
Indices: 36428665--36428814 Score: 160
Period size: 55 Copynumber: 2.7 Consensus size: 55
36428655 ACTACTAATG
* * * * *****
36428665 TCGCTACATGAGCATATCCAGAATTACACCCAGAATTGTTGTTGCATTTGACAGC
1 TCGCTACATGAGCATATCCTGAATTGCGCCCAGAATTATCACCACATTTGACAGC
*
36428720 TCGCTACATGAGCATATCCTGAATTGCGCCCAGAATTATCACCACATTTGATAGC
1 TCGCTACATGAGCATATCCTGAATTGCGCCCAGAATTATCACCACATTTGACAGC
* *
36428775 TCACTACAT-ATGCATAT-CTAGAATTGCGCCCAAAATTATC
1 TCGCTACATGA-GCATATCCT-GAATTGCGCCCAGAATTATC
36428815 GTCGCATCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 3 0.04
55 78 0.96
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (55 bp):
TCGCTACATGAGCATATCCTGAATTGCGCCCAGAATTATCACCACATTTGACAGC
Found at i:36432249 original size:18 final size:18
Alignment explanation
Indices: 36432228--36432265 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36432218 CTTTGTTTAT
36432228 TTTTCTTGCTTTATTTGC
1 TTTTCTTGCTTTATTTGC
* *
36432246 TTTTCTTGTTTTGTTTGC
1 TTTTCTTGCTTTATTTGC
36432264 TT
1 TT
36432266 GAGAACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.03, C:0.13, G:0.13, T:0.71
Consensus pattern (18 bp):
TTTTCTTGCTTTATTTGC
Found at i:36432646 original size:16 final size:17
Alignment explanation
Indices: 36432625--36432664 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
36432615 TTTTCTTTGA
**
36432625 TTCTTTTTCTTTTCT-C
1 TTCTTTTTCTCCTCTCC
36432641 TTCTTTTTCTCCTCTCC
1 TTCTTTTTCTCCTCTCC
36432658 TTCTTTT
1 TTCTTTT
36432665 AAAGTGACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
TTCTTTTTCTCCTCTCC
Found at i:36437930 original size:11 final size:11
Alignment explanation
Indices: 36437916--36437941 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36437906 GTGAAAAATC
36437916 AAAAGAAAAAG
1 AAAAGAAAAAG
36437927 AAAAGAAAAAG
1 AAAAGAAAAAG
36437938 AAAA
1 AAAA
36437942 ATGAGTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:36448470 original size:15 final size:15
Alignment explanation
Indices: 36448437--36448477 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
36448427 TTTGCATCGA
*
36448437 CTTCTTTTTC-TTTC
1 CTTCTTCTTCTTTTC
*
36448451 TTTCTTCTTCTTTTC
1 CTTCTTCTTCTTTTC
36448466 CTTCTTCTTCTT
1 CTTCTTCTTCTT
36448478 CTTCTACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
CTTCTTCTTCTTTTC
Found at i:36454420 original size:37 final size:37
Alignment explanation
Indices: 36454363--36454467 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
36454353 TATTAAAAAG
*
36454363 AACATGTCGCTGCATGAGCACTTCTAGATTACGCCCA
1 AACATGTCGCCGCATGAGCACTTCTAGATTACGCCCA
* * * *
36454400 AACATGTTGCCGCATTAGCACCTCTAGATTGCGCCCA
1 AACATGTCGCCGCATGAGCACTTCTAGATTACGCCCA
* *
36454437 AAAACTGTCGCCACATGAGCACTTCTAGATT
1 AACA-TGTCGCCGCATGAGCACTTCTAGATT
36454468 GCACCAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
37 35 0.61
38 22 0.39
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AACATGTCGCCGCATGAGCACTTCTAGATTACGCCCA
Found at i:36455481 original size:17 final size:17
Alignment explanation
Indices: 36455459--36455491 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36455449 CAATGCAATG
36455459 ATAAATGTCAGAGCAAA
1 ATAAATGTCAGAGCAAA
*
36455476 ATAAATGTTAGAGCAA
1 ATAAATGTCAGAGCAA
36455492 TTGAAAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.21
Consensus pattern (17 bp):
ATAAATGTCAGAGCAAA
Found at i:36467038 original size:37 final size:37
Alignment explanation
Indices: 36466988--36467103 Score: 151
Period size: 37 Copynumber: 3.1 Consensus size: 37
36466978 TTAATCCAGA
* *
36466988 ATTGCGTCCAAACATGTCGCTGCATGAGCACTTCTAG
1 ATTGCGTCCAAACATGTCGCAGCATGAGCACCTCTAG
* *
36467025 ATTGCGCCCAAACATGTCGCCGCATGAGCACCTCTAG
1 ATTGCGTCCAAACATGTCGCAGCATGAGCACCTCTAG
* * * *
36467062 ATTGCGTTCAAAAACTATCGCAGCATGAGCACCTCCAG
1 ATTGCGTCCAAACA-TGTCGCAGCATGAGCACCTCTAG
36467100 ATTG
1 ATTG
36467104 TACCAAAACT
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
37 45 0.65
38 24 0.35
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (37 bp):
ATTGCGTCCAAACATGTCGCAGCATGAGCACCTCTAG
Found at i:36470301 original size:17 final size:17
Alignment explanation
Indices: 36470281--36470325 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
36470271 ACATTTCTTC
*
36470281 TGTCATTGCATTTTTAG
1 TGTCACTGCATTTTTAG
*
36470298 TGTCACTGCATTTTTAT
1 TGTCACTGCATTTTTAG
*
36470315 TGTCGCTGCAT
1 TGTCACTGCAT
36470326 CTGCATTGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (17 bp):
TGTCACTGCATTTTTAG
Found at i:36471521 original size:37 final size:37
Alignment explanation
Indices: 36471471--36471548 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36471461 TTAATCCAGA
*
36471471 ATTGCGCCCAAACATGTCG-CTGCATGAGCACTTCTAG
1 ATTGCGCCCAAACATGTCGTC-GCATGAACACTTCTAG
*
36471508 ATTGCGTCCAAACATGTCGTCGCATGAACACTTCTAG
1 ATTGCGCCCAAACATGTCGTCGCATGAACACTTCTAG
36471545 ATTG
1 ATTG
36471549 TACCAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (37 bp):
ATTGCGCCCAAACATGTCGTCGCATGAACACTTCTAG
Found at i:36479846 original size:12 final size:12
Alignment explanation
Indices: 36479829--36479865 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
36479819 ATATTTAGGG
36479829 TTTGTGTTTGAT
1 TTTGTGTTTGAT
36479841 TTTGTGTTTGAT
1 TTTGTGTTTGAT
* *
36479853 TGTGTATTTGAT
1 TTTGTGTTTGAT
36479865 T
1 T
36479866 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.24, T:0.65
Consensus pattern (12 bp):
TTTGTGTTTGAT
Found at i:36479978 original size:14 final size:13
Alignment explanation
Indices: 36479961--36479994 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
36479951 ATTTTTATTT
36479961 ATAAAATAAATAAA
1 ATAAAAT-AATAAA
36479975 ATAATAATAATAAA
1 ATAA-AATAATAAA
36479989 ATAAAA
1 ATAAAA
36479995 ACAAAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 14 0.74
15 3 0.16
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAAAATAATAAA
Found at i:36480495 original size:101 final size:101
Alignment explanation
Indices: 36480311--36480523 Score: 261
Period size: 101 Copynumber: 2.1 Consensus size: 101
36480301 TCTACTAGAC
* * * * * *
36480311 ATAGGATTTGATGTTGTAGCTTCAACTTGCTTCGCTGTAACTTCAGGGAGATAAAGATTTACTTT
1 ATAGGATTTGGTGTTGTAGCTTCAACCTGCTTCGCTGCAACTTCAGAGAGATAAAGATTCACTTG
* * *
36480376 TAAGACTTTAATCCGATCCACTGTAACTTTAGGGGT
66 TAAGACTTCAATCCGATCCACTGCAACTTTAGGGAT
* * *
36480412 ATAGGATTTGGTTTTGTAGCTTCATCCTGC-TCTGCTGCAACTTCAGAGAGATAAGGATTCACCT
1 ATAGGATTTGGTGTTGTAGCTTCAACCTGCTTC-GCTGCAACTTCAGAGAGATAAAGATTCA-CT
*
36480476 TCGT-AG-CTTCAATCTGATCCACTGCAACTTTAGGGAT
64 T-GTAAGACTTCAATCCGATCCACTGCAACTTTAGGGAT
36480513 ATAGGATTTGG
1 ATAGGATTTGG
36480524 CTTCACTCCA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
100 2 0.02
101 88 0.92
102 5 0.05
103 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (101 bp):
ATAGGATTTGGTGTTGTAGCTTCAACCTGCTTCGCTGCAACTTCAGAGAGATAAAGATTCACTTG
TAAGACTTCAATCCGATCCACTGCAACTTTAGGGAT
Found at i:36480699 original size:50 final size:50
Alignment explanation
Indices: 36480587--36480848 Score: 188
Period size: 50 Copynumber: 5.2 Consensus size: 50
36480577 TCTTAATCCA
* * * * *
36480587 CCCCTCTACAACTTT-AGAGGTATAAGATTTGCTC-TTGTAGCTTTAATTTA
1 CCCCTCTACAGCTTTAAGA-GTATAAGATTCGC-CATTGCAGCTTTAATCTG
* * * * * * *
36480637 CCCTTTTCCAGCTTCAGGAGTATAAGATTCGCCCTTGCAGCTTCAATCTG
1 CCCCTCTACAGCTTTAAGAGTATAAGATTCGCCATTGCAGCTTTAATCTG
* * * * * *
36480687 CCCCTCTACAGCTGTAAGTGTATGATATTCACCATTGCGGCTTTAATCTG
1 CCCCTCTACAGCTTTAAGAGTATAAGATTCGCCATTGCAGCTTTAATCTG
* * * *
36480737 CCTCTCTACTAGCTTTAAGAGTATAAGATTTGCAATTGCGGCTTTAATCTG
1 CCCCTCTAC-AGCTTTAAGAGTATAAGATTCGCCATTGCAGCTTTAATCTG
* * * * * * * *
36480788 TCACTCTTCCAGCTTTAGGAGTATAAGAGTCACCATTGC-GACTTCAATCTA
1 CCCCTC-TACAGCTTTAAGAGTATAAGATTCGCCATTGCAG-CTTTAATCTG
36480839 CCCCTCTACA
1 CCCCTCTACA
36480849 ATTTTGGGGG
Statistics
Matches: 162, Mismatches: 45, Indels: 10
0.75 0.21 0.05
Matches are distributed among these distances:
49 1 0.01
50 83 0.51
51 76 0.47
52 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (50 bp):
CCCCTCTACAGCTTTAAGAGTATAAGATTCGCCATTGCAGCTTTAATCTG
Found at i:36480784 original size:51 final size:50
Alignment explanation
Indices: 36480645--36480848 Score: 183
Period size: 51 Copynumber: 4.0 Consensus size: 50
36480635 TACCCTTTTC
* * * * * *
36480645 CAGCTTCAGGAGTATAAGATTCGCCCTTGCAGCTTCAATCTGCCCCTCTA
1 CAGCTTTAAGAGTATAAGATTCGCCATTGCGGCTTTAATCTGCCACTCTA
* * * * * *
36480695 CAGCTGTAAGTGTATGATATTCACCATTGCGGCTTTAATCTGCCTCTCTA
1 CAGCTTTAAGAGTATAAGATTCGCCATTGCGGCTTTAATCTGCCACTCTA
* * * *
36480745 CTAGCTTTAAGAGTATAAGATTTGCAATTGCGGCTTTAATCTGTCACTCTTC
1 C-AGCTTTAAGAGTATAAGATTCGCCATTGCGGCTTTAATCTGCCACTC-TA
* * * * * * *
36480797 CAGCTTTAGGAGTATAAGAGTCACCATTGCGACTTCAATCTACCCCTCTA
1 CAGCTTTAAGAGTATAAGATTCGCCATTGCGGCTTTAATCTGCCACTCTA
36480847 CA
1 CA
36480849 ATTTTGGGGG
Statistics
Matches: 120, Mismatches: 32, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
50 43 0.36
51 75 0.62
52 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (50 bp):
CAGCTTTAAGAGTATAAGATTCGCCATTGCGGCTTTAATCTGCCACTCTA
Found at i:36481390 original size:29 final size:26
Alignment explanation
Indices: 36481340--36481406 Score: 66
Period size: 29 Copynumber: 2.5 Consensus size: 26
36481330 GAGAATGAAT
* *
36481340 AAAAT-CAAA-ATCAAACATTGGTTCA
1 AAAATGCAAACATTAAACAATGGTT-A
36481365 AAGAATGACAAACATTAAACAATGGTTA
1 AA-AATG-CAAACATTAAACAATGGTTA
*
36481393 AAATTGCAAACATT
1 AAAATGCAAACATT
36481407 GGTCTAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
25 2 0.06
26 11 0.31
27 3 0.09
28 7 0.20
29 12 0.34
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.24
Consensus pattern (26 bp):
AAAATGCAAACATTAAACAATGGTTA
Found at i:36489662 original size:11 final size:11
Alignment explanation
Indices: 36489638--36489689 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
36489628 ATAAAAAAAA
36489638 TTTCT-TTTTCT
1 TTTCTCTTTT-T
36489649 TTTCTCTTTTT
1 TTTCTCTTTTT
*
36489660 TTT-TCTTTCT
1 TTTCTCTTTTT
*
36489670 TTTCTCATTTT
1 TTTCTCTTTTT
36489681 TTTCT-TTTT
1 TTTCTCTTTT
36489690 AAGTGACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.34
11 19 0.54
12 4 0.11
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTCTCTTTTT
Found at i:36489682 original size:20 final size:21
Alignment explanation
Indices: 36489644--36489687 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
36489634 AAAATTTCTT
*
36489644 TTTCTTTTCTCTTTTTTTTTC
1 TTTCTTTTCTCTATTTTTTTC
36489665 TTTCTTTTCTC-ATTTTTTTC
1 TTTCTTTTCTCTATTTTTTTC
36489685 TTT
1 TTT
36489688 TTAAGTGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTCTTTTCTCTATTTTTTTC
Found at i:36490271 original size:19 final size:19
Alignment explanation
Indices: 36490247--36490294 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
36490237 ATGAAACGAC
36490247 AATGCAAT-AAAATAAAAAA
1 AATGCAATGAAAA-AAAAAA
* *
36490266 AATGCAATGACAAAATAAA
1 AATGCAATGAAAAAAAAAA
36490285 AATGCAATGA
1 AATGCAATGA
36490295 CAATAAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 23 0.88
20 3 0.12
ACGTcount: A:0.65, C:0.08, G:0.10, T:0.17
Consensus pattern (19 bp):
AATGCAATGAAAAAAAAAA
Found at i:36490299 original size:17 final size:18
Alignment explanation
Indices: 36490263--36490307 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
36490253 ATAAAATAAA
36490263 AAAAATGCAATGACAAAAT
1 AAAAATGCAATGAC-AAAT
36490282 AAAAATGCAATGAC-AAT
1 AAAAATGCAATGACAAAT
*
36490299 AAAGATGCA
1 AAAAATGCA
36490308 TGCAAACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.44
19 14 0.56
ACGTcount: A:0.60, C:0.11, G:0.13, T:0.16
Consensus pattern (18 bp):
AAAAATGCAATGACAAAT
Found at i:36492628 original size:15 final size:14
Alignment explanation
Indices: 36492610--36492641 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
36492600 AATTAAAACG
36492610 AAACAAATAAAAGTA
1 AAACAAATAAAAG-A
36492625 AAACAAATAAAAGA
1 AAACAAATAAAAGA
36492639 AAA
1 AAA
36492642 GGTGAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.09
Consensus pattern (14 bp):
AAACAAATAAAAGA
Found at i:36498167 original size:3 final size:3
Alignment explanation
Indices: 36498159--36498185 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
36498149 ATGATGGTAA
36498159 GTT GTT GTT GTT GTT GTT GTT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT
36498186 ACCAGCCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
GTT
Found at i:36498211 original size:26 final size:26
Alignment explanation
Indices: 36498175--36498236 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
36498165 GTTGTTGTTG
36498175 TTGTTGTTGTTACCAGCCATTTTCTT
1 TTGTTGTTGTTACCAGCCATTTTCTT
36498201 TTGTTGTTGTTACCAGCCATTTTCTT
1 TTGTTGTTGTTACCAGCCATTTTCTT
*
36498227 TTGTTCTTGT
1 TTGTTGTTGT
36498237 CTTTTCCTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (26 bp):
TTGTTGTTGTTACCAGCCATTTTCTT
Found at i:36498349 original size:13 final size:13
Alignment explanation
Indices: 36498331--36498355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36498321 AAGAATTCTG
36498331 AAAGAAATTAAAA
1 AAAGAAATTAAAA
36498344 AAAGAAATTAAA
1 AAAGAAATTAAA
36498356 CAAATTAGTA
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAGAAATTAAAA
Found at i:36504797 original size:30 final size:31
Alignment explanation
Indices: 36504750--36504831 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
36504740 ATTAAAATCG
*
36504750 GGTCAAATTTTGAATTTTTGGAAAGTTTAGA
1 GGTCAAATTTAGAATTTTTGGAAAGTTTAGA
*
36504781 GGTCAAA-TTAGAATTTTTGGAAAGTTCA-A
1 GGTCAAATTTAGAATTTTTGGAAAGTTTAGA
36504810 GGGTCAAATTTA-AATTTTTGGA
1 -GGTCAAATTTAGAATTTTTGGA
36504832 TAATTTGGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
29 1 0.02
30 36 0.77
31 10 0.21
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (31 bp):
GGTCAAATTTAGAATTTTTGGAAAGTTTAGA
Found at i:36504844 original size:30 final size:30
Alignment explanation
Indices: 36504749--36504847 Score: 112
Period size: 30 Copynumber: 3.3 Consensus size: 30
36504739 CATTAAAATC
*
36504749 GGGTCAAATTTTGAATTTTTGGAAAGTTTAG
1 GGGTCAAA-TTTAAATTTTTGGAAAGTTTAG
* * *
36504780 AGGTCAAA-TTAGAATTTTTGGAAAGTTCAA
1 GGGTCAAATTTA-AATTTTTGGAAAGTTTAG
*
36504810 GGGTCAAATTTAAATTTTTGGATAA-TTTGG
1 GGGTCAAATTTAAATTTTTGGA-AAGTTTAG
36504840 GGGTCAAA
1 GGGTCAAA
36504848 ATATAATTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
29 2 0.04
30 43 0.75
31 12 0.21
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (30 bp):
GGGTCAAATTTAAATTTTTGGAAAGTTTAG
Found at i:36504856 original size:30 final size:30
Alignment explanation
Indices: 36504762--36504857 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
36504752 TCAAATTTTG
* * *
36504762 AATTTTTGGAAAGTTTAGAGGTCAAATTAG
1 AATTTTTGGAAAGTTTAGGGGTCAAAATAT
* * *
36504792 AATTTTTGGAAAGTTCAAGGGTC-AAATTT
1 AATTTTTGGAAAGTTTAGGGGTCAAAATAT
*
36504821 AAATTTTTGGATAA-TTTGGGGGTCAAAATAT
1 -AATTTTTGGA-AAGTTTAGGGGTCAAAATAT
36504852 AATTTT
1 AATTTT
36504858 AAAATAAAGC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 3 0.06
30 43 0.81
31 7 0.13
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (30 bp):
AATTTTTGGAAAGTTTAGGGGTCAAAATAT
Found at i:36514527 original size:18 final size:18
Alignment explanation
Indices: 36514504--36514564 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
36514494 AAAGATGGTA
36514504 ATGAAGATTGTTCAGGTG
1 ATGAAGATTGTTCAGGTG
36514522 ATGAAGATTGTTCAGGT-
1 ATGAAGATTGTTCAGGTG
* *
36514539 AAGAAAGATTATTCAGGTG
1 ATG-AAGATTGTTCAGGTG
*
36514558 ATAAAGA
1 ATGAAGA
36514565 CTAGTTTGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.05
18 34 0.92
19 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.30
Consensus pattern (18 bp):
ATGAAGATTGTTCAGGTG
Found at i:36514576 original size:36 final size:36
Alignment explanation
Indices: 36514499--36514578 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
36514489 GGTGGAAAGA
* * *
36514499 TGGTAATG-AAGATTGTTCAGGTGATGAAGATTGTTC
1 TGGTAA-GAAAGATTATTCAGGTGATAAAGATAGTTC
*
36514535 AGGTAAGAAAGATTATTCAGGTGATAAAGACTAGTT-
1 TGGTAAGAAAGATTATTCAGGTGATAAAGA-TAGTTC
36514571 TGGTAAGA
1 TGGTAAGA
36514579 TTGGTGAGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 32 0.86
37 4 0.11
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (36 bp):
TGGTAAGAAAGATTATTCAGGTGATAAAGATAGTTC
Found at i:36516213 original size:28 final size:27
Alignment explanation
Indices: 36516190--36516240 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
36516180 ACTTTTGGAT
36516190 ACCCG-GGGGAAAAATGGTAATTTTGG
1 ACCCGCGGGGAAAAATGGTAATTTTGG
* *
36516216 ACTCGCGGGGCAAAATGGTAATTTT
1 ACCCGCGGGGAAAAATGGTAATTTT
36516241 TAGTGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.25
Consensus pattern (27 bp):
ACCCGCGGGGAAAAATGGTAATTTTGG
Found at i:36516283 original size:28 final size:30
Alignment explanation
Indices: 36516252--36516647 Score: 148
Period size: 28 Copynumber: 13.6 Consensus size: 30
36516242 AGTGAAATCA
*
36516252 GGGTTAAATGG-AATTTT-GGAAAGTTTAG
1 GGGTAAAATGGTAATTTTGGGAAAGTTTAG
*
36516280 GGGTAAAATGGTAATTTTGGTGAAA---TCG
1 GGGTAAAATGGTAATTTTGG-GAAAGTTTAG
* *
36516308 GGGTTAAAAAT-GAAATTTT-AGAAAGTTTAG
1 GGG-T-AAAATGGTAATTTTGGGAAAGTTTAG
*
36516338 GGGCAAAATGGTAATTTTTGGTGAAA--TT-G
1 GGGTAAAATGGTAA-TTTTGG-GAAAGTTTAG
* *
36516367 GGGTTAAAATGG-GATTTTAGG-AAGTTTAG
1 GGG-TAAAATGGTAATTTTGGGAAAGTTTAG
* * *
36516396 GGGCAAAATGGTAATTTTTGGTGAAA--TCAA
1 GGGTAAAATGGTAA-TTTTGG-GAAAGTTTAG
* * **
36516426 GGTTAAAAATGG-AATTTT-GGAAAATTCGG
1 GGGT-AAAATGGTAATTTTGGGAAAGTTTAG
**
36516455 GGGTAAAATGGTAATTTTTGGTGAAA-TCGA-
1 GGGTAAAATGGTAA-TTTTGG-GAAAGTTTAG
* * * *
36516485 GGTTAAAATGG-GATTTTAGG-AAGTTTGG
1 GGGTAAAATGGTAATTTTGGGAAAGTTTAG
**
36516513 GGGTAAAATGGTAATTTTTGGTGAAA-TCGA-
1 GGGTAAAATGGTAA-TTTTGG-GAAAGTTTAG
* *
36516543 GGTTAAAAATGG-AATTTT-GGAAAG-TTCG
1 GGGT-AAAATGGTAATTTTGGGAAAGTTTAG
** **
36516571 GGAAAAAATGGTAATTTTTGGTGAAA-TCGA-
1 GGGTAAAATGGTAA-TTTTGG-GAAAGTTTAG
* * **
36516601 GGTTAAAAATGG-AATCTT-GGAAAGTTCGG
1 GGGT-AAAATGGTAATTTTGGGAAAGTTTAG
36516630 GGGTAAAATGGTAATTTT
1 GGGTAAAATGGTAATTTT
36516648 TGGACAATCC
Statistics
Matches: 270, Mismatches: 53, Indels: 89
0.66 0.13 0.22
Matches are distributed among these distances:
26 4 0.01
27 26 0.10
28 71 0.26
29 59 0.22
30 64 0.24
31 34 0.13
32 12 0.04
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (30 bp):
GGGTAAAATGGTAATTTTGGGAAAGTTTAG
Found at i:36516332 original size:58 final size:59
Alignment explanation
Indices: 36516222--36516650 Score: 570
Period size: 58 Copynumber: 7.4 Consensus size: 59
36516212 TTGGACTCGC
* *
36516222 GGGGCAAAATGGTAATTTTTAGTGAAATC-AGGGTT--AAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGTTTA
* * *
36516279 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGAAATTTTAGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
* * * *
36516337 GGGGCAAAATGGTAATTTTTGGTGAAATTGGGGTT-AAAATGGGATTTTAGG-AAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTT-GGAAAGTTTA
* * * **
36516395 GGGGCAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAATTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
* *
36516454 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTTAGG-AAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTT-GGAAAGTTTA
*
36516512 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG-TTC
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
** * **
36516570 GGGAAAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
36516629 GGGGTAAAATGGTAATTTTTGG
1 GGGGTAAAATGGTAATTTTTGG
36516651 ACAATCCAGG
Statistics
Matches: 330, Mismatches: 31, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
56 16 0.05
57 14 0.04
58 194 0.59
59 106 0.32
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
Found at i:36516464 original size:117 final size:116
Alignment explanation
Indices: 36516221--36516650 Score: 600
Period size: 117 Copynumber: 3.7 Consensus size: 116
36516211 TTTGGACTCG
*
36516221 CGGGGCAAAATGGTAATTTTTAGTGAAATC-AGGGTT-AAATGGAATTTTGGAAAGTTTAGGGGT
1 CGGGGCAAAATGGTAATTTTTGGTGAAATCGA-GGTTAAAATGGAATTTTGGAAAGTTTAGGGGT
* * *
36516284 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGAAATTTTAGAAAGTTT
65 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG-TT
* * * * *
36516336 AGGGGCAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAATGGGATTTTAGG-AAGTTTAGGGGC
1 CGGGGCAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGAATTTT-GGAAAGTTTAGGGGT
* *
36516400 AAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAATT
65 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * *
36516452 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTAGG-AAGTTTGGGGG
1 C-GGGGCAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGAATTTT-GGAAAGTTTAGGGG
36516516 TAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
64 TAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
** * **
36516569 CGGGAAAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTGGAAAGTTCGGGGGT
1 CGGGGCAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGAATTTTGGAAAGTTTAGGGGT
36516634 AAAATGGTAATTTTTGG
65 AAAATGGTAATTTTTGG
36516651 ACAATCCAGG
Statistics
Matches: 284, Mismatches: 24, Indels: 12
0.89 0.08 0.04
Matches are distributed among these distances:
115 31 0.11
116 69 0.24
117 184 0.65
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (116 bp):
CGGGGCAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGAATTTTGGAAAGTTTAGGGGTA
AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:36516523 original size:175 final size:176
Alignment explanation
Indices: 36516222--36516650 Score: 627
Period size: 175 Copynumber: 2.5 Consensus size: 176
36516212 TTGGACTCGC
* * **
36516222 GGGGCAAAATGGTAATTTTTAGTGAAATCAGGGTT--AAATGGAATTTTGGAAAGTTTAGGGGTA
1 GGGGCAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTA
*
36516285 AAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGAAATTTTAGAAAGTTTAGGGGCAAAATGG
66 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAAGTTTAGGGGCAAAATGG
* * *
36516349 TAATTTTTGGTGAAATTGGGGTT-AAAATGGGATTTTAGG-AAGTTTA
131 TAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTT-GGAAAG-TTA
*
36516395 GGGGCAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAATTCGGGGGTA
1 GGGGCAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTA
** * * *
36516460 AAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTTAGGAAGTTTGGGGGTAAAATGG
66 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAAGTTTAGGGGCAAAATGG
*
36516524 TAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTC
131 TAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTA
** * *
36516570 GGGAAAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTGGAAAGTTCGGGGGTA
1 GGGGCAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTA
36516635 AAATGGTAATTTTTGG
66 AAATGGTAATTTTTGG
36516651 ACAATCCAGG
Statistics
Matches: 231, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
173 33 0.14
175 165 0.71
176 33 0.14
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (176 bp):
GGGGCAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTA
AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGAAATTTTAGAAAGTTTAGGGGCAAAATGG
TAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTA
Found at i:36517682 original size:14 final size:14
Alignment explanation
Indices: 36517663--36517707 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
36517653 CTCTTCTTTT
*
36517663 TTATTAATAAAATA
1 TTATTATTAAAATA
36517677 TTATTATTAAACAT-
1 TTATTATTAAA-ATA
36517691 TTATTATTAATAATA
1 TTATTATTAA-AATA
36517706 TT
1 TT
36517708 TATTGTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 22 0.81
15 5 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATTATTAAAATA
Found at i:36517685 original size:17 final size:16
Alignment explanation
Indices: 36517663--36517711 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
36517653 CTCTTCTTTT
36517663 TTATTAATAAAATATTA
1 TTATTAATAAAAT-TTA
*
36517680 TTATT-A-AACATTTA
1 TTATTAATAAAATTTA
*
36517694 TTATTAATAATATTTA
1 TTATTAATAAAATTTA
36517710 TT
1 TT
36517712 GTTATTAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 8 0.29
15 5 0.18
16 10 0.36
17 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATTAATAAAATTTA
Found at i:36517720 original size:16 final size:16
Alignment explanation
Indices: 36517675--36517720 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
36517665 ATTAATAAAA
*
36517675 TATTATTATTAAACATT
1 TATTATTATT-AATATT
*
36517692 TATTATTAATAATATT
1 TATTATTATTAATATT
*
36517708 TATTGTTATTAAT
1 TATTATTATTAAT
36517721 GTCCATTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTATTATTAATATT
Found at i:36517783 original size:18 final size:16
Alignment explanation
Indices: 36517751--36517793 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
36517741 AAATTAATAC
36517751 TAATATTATTTATTAT
1 TAATATTATTTATTAT
36517767 TAATATTATACTTATTAT
1 TAATATTAT--TTATTAT
*
36517785 AAATATTAT
1 TAATATTAT
36517794 CATTAATGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
18 15 0.62
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATATTATTTATTAT
Found at i:36518523 original size:17 final size:18
Alignment explanation
Indices: 36518503--36518543 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
36518493 AATTTTATGC
36518503 AAATTTAAATTCAAAA-T
1 AAATTTAAATTCAAAACT
*
36518520 AAATTT-AATTTAAAACT
1 AAATTTAAATTCAAAACT
36518537 AAATTTA
1 AAATTTA
36518544 TATCTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTAAATTCAAAACT
Found at i:36524413 original size:18 final size:18
Alignment explanation
Indices: 36524390--36524432 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
36524380 TAATAGATTT
36524390 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
36524408 TTAATTAAAAAATTTAAA
1 TTAATTAAAAAATTTAAA
36524426 TTAATTA
1 TTAATTA
36524433 CACTTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:36540960 original size:16 final size:15
Alignment explanation
Indices: 36540941--36540982 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
36540931 CTAAATAAAA
36540941 AAAATATAAAATTATT
1 AAAATATAAAATT-TT
*
36540957 AAAATA-AATATTTT
1 AAAATATAAAATTTT
*
36540971 AAAAAATAAAAT
1 AAAATATAAAAT
36540983 ATAATATAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 9 0.41
16 6 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATATAAAATTTT
Found at i:36549046 original size:21 final size:21
Alignment explanation
Indices: 36549020--36549065 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
36549010 TGAGATCGTT
36549020 GGATATAGTTGGCATGCAATA
1 GGATATAGTTGGCATGCAATA
36549041 GGATATAGTTGGCATGCAATA
1 GGATATAGTTGGCATGCAATA
36549062 GGAT
1 GGAT
36549066 TGTGAGCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (21 bp):
GGATATAGTTGGCATGCAATA
Found at i:36552327 original size:17 final size:17
Alignment explanation
Indices: 36552305--36552343 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
36552295 CTCCACCTTG
* *
36552305 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
36552322 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
36552339 ACAAG
1 ACAAG
36552344 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:36558918 original size:25 final size:25
Alignment explanation
Indices: 36558890--36558942 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
36558880 ATTAACTTAA
*
36558890 TCAGTGATTGATACATCTCTGTATC
1 TCAGTGATTGATACATCTCTATATC
36558915 TCAGTGATTGATACATCTCTATATC
1 TCAGTGATTGATACATCTCTATATC
36558940 TCA
1 TCA
36558943 TAAAACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (25 bp):
TCAGTGATTGATACATCTCTATATC
Found at i:36562002 original size:41 final size:38
Alignment explanation
Indices: 36561952--36562030 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
36561942 CATGTTTTAG
* * *
36561952 TATTAAAATTTTTAATTTTTTTAATGTTGGTTGGATATTGA
1 TATTAAAATTATT-A-TGTTTTAAAGTT-GTTGGATATTGA
*
36561993 TATTGAAATTATTATGTTTTAAAGTTGTTGGATATTGA
1 TATTAAAATTATTATGTTTTAAAGTTGTTGGATATTGA
36562031 ATTTATTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 12 0.35
39 10 0.29
40 1 0.03
41 11 0.32
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (38 bp):
TATTAAAATTATTATGTTTTAAAGTTGTTGGATATTGA
Found at i:36562027 original size:32 final size:32
Alignment explanation
Indices: 36561991--36562065 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
36561981 GTTGGATATT
36561991 GATATTGAAATTATTATGTTTTAAAG-TTGTTG
1 GATATTGAAATTATTATG-TTTAAAGTTTGTTG
* *
36562023 GATATTGAATTTATTATGTTTCAAGTTTGTTG
1 GATATTGAAATTATTATGTTTAAAGTTTGTTG
*
36562055 GATATTTAAAT
1 GATATTGAAAT
36562066 GATTGACAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 6 0.16
32 32 0.84
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (32 bp):
GATATTGAAATTATTATGTTTAAAGTTTGTTG
Found at i:36564209 original size:23 final size:24
Alignment explanation
Indices: 36564183--36564227 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
36564173 TTTTCTCTAA
*
36564183 TTTT-CCTGTCAATATTTCGAAAC
1 TTTTCCCTGTAAATATTTCGAAAC
*
36564206 TTTTCCCTGTAAATTTTTCGAA
1 TTTTCCCTGTAAATATTTCGAA
36564228 CCTATTTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (24 bp):
TTTTCCCTGTAAATATTTCGAAAC
Found at i:36566343 original size:7 final size:7
Alignment explanation
Indices: 36566326--36566355 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
36566316 TGTCCAAATT
36566326 AAAAT-A
1 AAAATGA
36566332 AAAATGA
1 AAAATGA
36566339 AAAATGA
1 AAAATGA
36566346 AAAATGA
1 AAAATGA
36566353 AAA
1 AAA
36566356 TGACTTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (7 bp):
AAAATGA
Found at i:36566348 original size:13 final size:13
Alignment explanation
Indices: 36566321--36566358 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
36566311 GGTTTTGTCC
*
36566321 AAATTAAAAT-AA
1 AAATGAAAATGAA
36566333 AAATGAAAAATGAA
1 AAATG-AAAATGAA
36566347 AAATGAAAATGA
1 AAATGAAAATGA
36566359 CTTGGAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 12 0.52
14 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (13 bp):
AAATGAAAATGAA
Found at i:36574065 original size:4 final size:4
Alignment explanation
Indices: 36574040--36574226 Score: 54
Period size: 4 Copynumber: 45.8 Consensus size: 4
36574030 TTTGTATTAT
* * *
36574040 TTTA TTTA -GTA TTTA ATT- TTTA TTTA -TTA TTCT- TCT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA
* * * *
36574084 TTTA TTT- GTTA TTCA -TT- TTTA TGTTA TTATA TTCTA -GTC TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TT-TA TT-TA TTTA TTTA TTTA
* * *
36574131 TTTA TTTA TTTA TGTA TTT- GTTA TTTTA TGTTA TTTA TATT- TTTGCC
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA T-TTA TTTA T-TTA TTT--A
* *
36574178 TTTA TTTAA TTTTA TTTA TTCA TTAA TTTCAA TTTAA TTTTA TTTA TTT
1 TTTA TTT-A -TTTA TTTA TTTA TTTA TTT--A TTT-A -TTTA TTTA TTT
36574227 GTATGCCATT
Statistics
Matches: 137, Mismatches: 23, Indels: 46
0.67 0.11 0.22
Matches are distributed among these distances:
3 20 0.15
4 79 0.58
5 25 0.18
6 13 0.09
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:36574095 original size:11 final size:10
Alignment explanation
Indices: 36574049--36574197 Score: 54
Period size: 10 Copynumber: 13.8 Consensus size: 10
36574039 TTTTATTTAG
36574049 TATTTAATTTT
1 TATTT-ATTTT
*
36574060 TATTTATTAT
1 TATTTATTTT
* *
36574070 TCTTCTTTTATT
1 TATT-TATT-TT
36574082 TATTTATTTGT
1 TATTTATTT-T
*
36574093 TATTCATTTT
1 TATTTATTTT
*
36574103 TATGTTA-TTA
1 TAT-TTATTTT
*
36574113 TATTCTAGTCTT
1 TATT-TA-TTTT
36574125 TATTTA--TT
1 TATTTATTTT
36574133 TATTTATTTAT
1 TATTTATTT-T
*
36574144 GTATTTGTTATTT
1 -TATTT-AT-TTT
*
36574157 TATGTTATTTA
1 TAT-TTATTTT
36574168 TATTT-TTGCCTT
1 TATTTATT---TT
*
36574180 TATTTAATTT
1 TATTTATTTT
36574190 TATTTATT
1 TATTTATT
36574198 CATTAATTTC
Statistics
Matches: 103, Mismatches: 17, Indels: 37
0.66 0.11 0.24
Matches are distributed among these distances:
8 8 0.08
9 3 0.03
10 31 0.30
11 30 0.29
12 24 0.23
13 5 0.05
14 2 0.02
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (10 bp):
TATTTATTTT
Found at i:36574169 original size:55 final size:51
Alignment explanation
Indices: 36574076--36574202 Score: 137
Period size: 55 Copynumber: 2.4 Consensus size: 51
36574066 TTATTCTTCT
* *
36574076 TTTATTTATTTATTTGTTATTCATTTTTATGTTATTATATTCTAGTCTTTA
1 TTTATTTATTTATTTATTATTCATTTTTATGTTATTATATTCTAGCCTTTA
** * *
36574127 TTTATTTATTTATTTATGTATTTGTTATTTTATGTTATTTATATTTTTGCCTTTA
1 TTTATTTATTTATTTAT-TA-TTCAT-TTTTATGTTA-TTATATTCTAGCCTTTA
*
36574182 TTTAATTTTATTTATTCATTA
1 TTT-A-TTTATTTATTTATTA
36574203 ATTTCAATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
51 16 0.25
52 2 0.03
53 3 0.05
54 10 0.16
55 17 0.27
56 3 0.05
57 12 0.19
ACGTcount: A:0.22, C:0.05, G:0.06, T:0.68
Consensus pattern (51 bp):
TTTATTTATTTATTTATTATTCATTTTTATGTTATTATATTCTAGCCTTTA
Found at i:36583760 original size:27 final size:29
Alignment explanation
Indices: 36583710--36583769 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
36583700 TAAAAGCTAT
** *
36583710 AAATATTATAAAATTTTAATAAAAAATTA
1 AAATATTATAAAATTAGAATAAAAAATAA
*
36583739 AAATATTA-AAAATTAGAA-AAAATATAA
1 AAATATTATAAAATTAGAATAAAAAATAA
36583766 AAAT
1 AAAT
36583770 CGTAAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 11 0.41
28 8 0.30
29 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (29 bp):
AAATATTATAAAATTAGAATAAAAAATAA
Found at i:36583766 original size:18 final size:18
Alignment explanation
Indices: 36583738--36583842 Score: 72
Period size: 18 Copynumber: 5.6 Consensus size: 18
36583728 ATAAAAAATT
36583738 AAAATATTAAAAATTAG-AA
1 AAAATA-TAAAAA-TAGTAA
*
36583757 AAAATATAAAAATCGTAA
1 AAAATATAAAAATAGTAA
36583775 AAAATATAAAATATA-TAA
1 AAAATATAAAA-ATAGTAA
* * * *
36583793 AAATTTTATAAAGTCGTAA
1 AAAATATA-AAAATAGTAA
36583812 GAAAATTATACAAAAT-GTAA
1 -AAAA-TATA-AAAATAGTAA
36583832 AGAAATATAAA
1 A-AAATATAAA
36583843 TTTCGTAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
17 2 0.03
18 31 0.45
19 19 0.28
20 10 0.14
21 7 0.10
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.27
Consensus pattern (18 bp):
AAAATATAAAAATAGTAA
Found at i:36583775 original size:27 final size:25
Alignment explanation
Indices: 36583730--36583797 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
36583720 AAATTTTAAT
*
36583730 AAAAAAT-TAAAATATTAAAAATTAG
1 AAAAAATATAAAA-ATTAAAAAATAG
*
36583755 AAAAAATATAAAAATCGTAAAAAATAT
1 AAAAAATATAAAAAT--TAAAAAATAG
*
36583782 AAAATATATAAAAATT
1 AAAAAATATAAAAATT
36583798 TTATAAAGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 10 0.27
26 5 0.14
27 22 0.59
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (25 bp):
AAAAAATATAAAAATTAAAAAATAG
Found at i:36583784 original size:9 final size:9
Alignment explanation
Indices: 36583728--36583795 Score: 61
Period size: 9 Copynumber: 7.8 Consensus size: 9
36583718 TAAAATTTTA
36583728 ATAAAAAAT
1 ATAAAAAAT
*
36583737 -TAAAATAT
1 ATAAAAAAT
*
36583745 -TAAAAATT
1 ATAAAAAAT
*
36583753 AGAAAAAAT
1 ATAAAAAAT
36583762 AT-AAAAAT
1 ATAAAAAAT
*
36583770 CGTAAAAAAT
1 -ATAAAAAAT
*
36583780 ATAAAATAT
1 ATAAAAAAT
36583789 ATAAAAA
1 ATAAAAA
36583796 TTTTATAAAG
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
8 19 0.41
9 21 0.46
10 6 0.13
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:36584081 original size:20 final size:19
Alignment explanation
Indices: 36584044--36584082 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
36584034 TTAAAGGGAC
36584044 TTTTTGATGCATTTTATAA
1 TTTTTGATGCATTTTATAA
36584063 TTTTTGTATG-ATTTCTATAA
1 TTTTTG-ATGCATTT-TATAA
36584083 AATTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.59
Consensus pattern (19 bp):
TTTTTGATGCATTTTATAA
Found at i:36584167 original size:19 final size:18
Alignment explanation
Indices: 36584140--36584196 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
36584130 TTAATAAATT
36584140 TTTAA-AATTTTATTATAA
1 TTTAATAATTTT-TTATAA
*
36584158 TTTAATAATTTTTCTAAAA
1 TTTAATAATTTTT-TATAA
*
36584177 TTT-ATTATTTTTTATAA
1 TTTAATAATTTTTTATAA
36584194 TTT
1 TTT
36584197 TTTTTTCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 7 0.21
18 14 0.41
19 13 0.38
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATAATTTTTTATAA
Found at i:36584190 original size:29 final size:27
Alignment explanation
Indices: 36584085--36584199 Score: 99
Period size: 29 Copynumber: 4.1 Consensus size: 27
36584075 TTCTATAAAA
* * *
36584085 TTTTATAATTTTTTATTTTTTATGATT
1 TTTTAAAATTTATTATTTTTTATAATT
* * *
36584112 TTTATAAAA--AAATATTTTTTAATAAAT
1 TTT-TAAAATTTATTATTTTTT-ATAATT
* *
36584139 TTTTAAAATTTTATTATAATTTAATAATT
1 TTTTAAAA-TTTATTAT-TTTTTATAATT
36584168 TTTCTAAAATTTATTATTTTTTATAATT
1 TTT-TAAAATTTATTATTTTTTATAATT
36584196 TTTT
1 TTTT
36584200 TTTCTAATTT
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
26 13 0.19
27 11 0.16
28 16 0.24
29 20 0.29
30 8 0.12
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.63
Consensus pattern (27 bp):
TTTTAAAATTTATTATTTTTTATAATT
Found at i:36592768 original size:32 final size:32
Alignment explanation
Indices: 36592732--36592792 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
36592722 AAATATCTCA
*
36592732 ATTTGATTTTATT-TCAATCAAATTGATTTTTG
1 ATTTGATTTGATTCT-AATCAAATTGATTTTTG
*
36592764 ATTTGATTTGATTCTATTCAAATTGATTT
1 ATTTGATTTGATTCTAATCAAATTGATTT
36592793 AAAGACTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.56
Consensus pattern (32 bp):
ATTTGATTTGATTCTAATCAAATTGATTTTTG
Found at i:36593270 original size:51 final size:47
Alignment explanation
Indices: 36593176--36593281 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 47
36593166 TTTTAGATCT
36593176 TATTTATTTATTTGTCTTTCCAGATCTGATGTTTATAATAATATAAA
1 TATTTATTTATTTGTCTTTCCAGATCTGATGTTTATAATAATATAAA
* ** * *
36593223 TATTTATTTAATTTGTTTTGTTTAGATCTGGTGTTTTTACATAAATATAAA
1 TATTTATTT-ATTTGTCTT-TCCAGATCTGATGTTTATA-AT-AATATAAA
*
36593274 AATTTATT
1 TATTTATT
36593282 GATATTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 9 0.18
48 8 0.16
49 15 0.31
50 2 0.04
51 15 0.31
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (47 bp):
TATTTATTTATTTGTCTTTCCAGATCTGATGTTTATAATAATATAAA
Found at i:36593592 original size:82 final size:84
Alignment explanation
Indices: 36593452--36594313 Score: 407
Period size: 82 Copynumber: 10.5 Consensus size: 84
36593442 TAAAAATTAA
* * * * *
36593452 AATTGAATAAATCTGTTTCGGGATTTATTTC-AGTCGTTCAACATATTTTATTCTAT-TTT-TAT
1 AATTGAATAATTCTGTTTCGAGATTTATTTCTA-CCGTTCAACAGATTTTATTCTATATTTGAAT
* * *
36593514 TTGGTTTCTAAACAAGAATT
65 TTTGTTTCTAAATAATAATT
* * * *
36593534 AAGTGAATAATTCTGTTTCGAGATTTATTTCTGCTGTTTAACAGATTTTATTCTAT-TTTG-ATT
1 AATTGAATAATTCTGTTTCGAGATTTATTTCTACCGTTCAACAGATTTTATTCTATATTTGAATT
* *
36593597 TTGTTTCCAATTAATAATT
66 TTGTTTCTAAATAATAATT
* * *
36593616 AATTGAATAAATCTATTTCGAGATTTA-TTCTCACCGTTCAACAGATTTTGTTCTATATTTGAAT
1 AATTGAATAATTCTGTTTCGAGATTTATTTCT-ACCGTTCAACAGATTTTATTCTATATTTGAAT
36593680 TTTGTTT-TCAAATAATAATT
65 TTTGTTTCT-AAATAATAATT
* * * * * * * * *
36593700 AATTAAATAATTTTGTTTTGGGATTTGTTCCCACCGTTCAATAGATTTTACTCTATATTTGAATT
1 AATTGAATAATTCTGTTTCGAGATTTATTTCTACCGTTCAACAGATTTTATTCTATATTTGAATT
*
36593765 TTGTTTCAAAATAATAATT
66 TTGTTTCTAAATAATAATT
* * *** * *
36593784 AATTGAATAATTCTATTTTGAGATTTA-TTCTTGTTGTTCAATAGA----ATT-GAT-TTTG-AT
1 AATTGAATAATTCTGTTTCGAGATTTATTTC-TACCGTTCAACAGATTTTATTCTATATTTGAAT
* * *
36593841 TTTGTTTCCAAAGAAGAATT
65 TTTGTTTCTAAATAATAATT
* * * **
36593861 AAAATTAAATAATTAC-GTTTTGGGATTTA-TTCTTGTCGTTCAAC-------A----AT-TTTG
1 --AATTGAATAATT-CTGTTTCGAGATTTATTTC-TACCGTTCAACAGATTTTATTCTATATTTG
* * *
36593912 -ATTTTGTTTCCAAACAAGAATT
62 AATTTTGTTTCTAAATAATAATT
* * * * *** *
36593934 AAAATTAAATAATTATGTTTCGGGATTTATTCCCGTCGTTCAAGAG-TTTTGATT-TGAT-TTTG
1 --AATTGAATAATTCTGTTTCGAGATTTATTTCTACCGTTCAACAGATTTT-ATTCT-ATATTTG
* *
36593996 -ATTTTGTTTCTAAACAAGAATT
62 AATTTTGTTTCTAAATAATAATT
* * * * *
36594018 AAAATTAAATAATTTTGTTTCGAGATTTATTCCCT-CCGTTCAACCGATTTAATT-TGATTTTAA
1 --AATTGAATAATTCTGTTTCGAGATTTATT-TCTACCGTTCAACAGATTTTATTCT-A---T-A
* * *
36594081 TTTTG-ATTTTGTTTCCAAACAATAGTT
58 -TTTGAATTTTGTTTCTAAATAATAATT
* * * * *
36594108 AATTGAATAATTCTATTTTGGGATATATTT-TCACCGTTCAACAGATTTGATT-TGAT-TTTG-A
1 AATTGAATAATTCTGTTTCGAGATTTATTTCT-ACCGTTCAACAGATTTTATTCT-ATATTTGAA
* * *
36594169 TTTTGTTTCCAAACAAGAATT
64 TTTTGTTTCTAAATAATAATT
* *** * *
36594190 AATTGAATAATTCTGTTTC-AGGATTTATTCCCGTCGTTTAACAGATTTGATT-TGAT-TTT-AA
1 AATTGAATAATTCTGTTTCGA-GATTTATTTCTACCGTTCAACAGATTTTATTCT-ATATTTGAA
* * * *
36594251 TTTTGTTTCCAAACAAGAATG
64 TTTTGTTTCTAAATAATAATT
* * *
36594272 AATT--A-AATTCTGTTTCAAGATTTAATCCTACCGTTCAACAGA
1 AATTGAATAATTCTGTTTCGAGATTTATTTCTACCGTTCAACAGA
36594314 GTTAATTTGG
Statistics
Matches: 643, Mismatches: 98, Indels: 81
0.78 0.12 0.10
Matches are distributed among these distances:
73 62 0.10
74 2 0.00
76 1 0.00
77 19 0.03
78 4 0.01
79 67 0.10
80 6 0.01
81 4 0.01
82 208 0.32
83 6 0.01
84 188 0.29
85 8 0.01
86 1 0.00
87 1 0.00
88 43 0.07
90 23 0.04
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (84 bp):
AATTGAATAATTCTGTTTCGAGATTTATTTCTACCGTTCAACAGATTTTATTCTATATTTGAATT
TTGTTTCTAAATAATAATT
Found at i:36593709 original size:84 final size:84
Alignment explanation
Indices: 36593452--36594313 Score: 430
Period size: 84 Copynumber: 10.5 Consensus size: 84
36593442 TAAAAATTAA
* * * * *
36593452 AATTGAATAAATCTGTTTCGGGATTTATT-TCAGTCGTTCAACATATTTTATTCTATTTT-TA-T
1 AATTGAATAATTCTGTTTCGAGATTTATTCTCA-CCGTTCAACAGATTTTATTCTATTTTGAATT
* * * *
36593514 TTGGTTTCTAAACAAGAATT
65 TTGTTTTCAAAATAATAATT
* * * *
36593534 AAGTGAATAATTCTGTTTCGAGATTTATT-TCTGCTGTTTAACAGATTTTATTCTATTTTG-ATT
1 AATTGAATAATTCTGTTTCGAGATTTATTCTC-ACCGTTCAACAGATTTTATTCTATTTTGAATT
* *
36593597 TTG-TTTCCAATTAATAATT
65 TTGTTTTCAAAATAATAATT
* * *
36593616 AATTGAATAAATCTATTTCGAGATTTATTCTCACCGTTCAACAGATTTTGTTCTATATTTGAATT
1 AATTGAATAATTCTGTTTCGAGATTTATTCTCACCGTTCAACAGATTTTATTCTAT-TTTGAATT
36593681 TTGTTTTC-AAATAATAATT
65 TTGTTTTCAAAATAATAATT
* * * * * * * *
36593700 AATTAAATAATTTTGTTTTGGGATTTGTTCCCACCGTTCAATAGATTTTACTCTATATTTGAATT
1 AATTGAATAATTCTGTTTCGAGATTTATTCTCACCGTTCAACAGATTTTATTCTAT-TTTGAATT
36593765 TTG-TTTCAAAATAATAATT
65 TTGTTTTCAAAATAATAATT
* * **** * *
36593784 AATTGAATAATTCTATTTTGAGATTTATTCTTGTTGTTCAATAGA----ATT-GATTTTG-ATTT
1 AATTGAATAATTCTGTTTCGAGATTTATTCTCACCGTTCAACAGATTTTATTCTATTTTGAATTT
* * *
36593843 TG-TTTCCAAAGAAGAATT
66 TGTTTTCAAAATAATAATT
* * * ***
36593861 AAAATTAAATAATTAC-GTTTTGGGATTTATTCTTGTCGTTCAAC-------A----ATTTTG-A
1 --AATTGAATAATT-CTGTTTCGAGATTTATTCTCACCGTTCAACAGATTTTATTCTATTTTGAA
* * *
36593913 TTTTG-TTTCCAAACAAGAATT
63 TTTTGTTTTCAAAATAATAATT
* * * * ** *
36593934 AAAATTAAATAATTATGTTTCGGGATTTATTCCCGTCGTTCAAGAG-TTTTGATT-TGATTTTG-
1 --AATTGAATAATTCTGTTTCGAGATTTATTCTCACCGTTCAACAGATTTT-ATTCT-ATTTTGA
* * *
36593996 ATTTTG-TTTCTAAACAAGAATT
62 ATTTTGTTTTCAAAATAATAATT
* * * * * *
36594018 AAAATTAAATAATTTTGTTTCGAGATTTATTCCCTCCGTTCAACCGATTTAATT-TGATTTT-AA
1 --AATTGAATAATTCTGTTTCGAGATTTATTCTCACCGTTCAACAGATTTTATTCT-ATTTTGAA
* * *
36594081 TTTTGATTTTGTTTCCAAACAATAGTT
63 TTTTG----T-TTTCAAAATAATAATT
* * * * * *
36594108 AATTGAATAATTCTATTTTGGGATATATTTTCACCGTTCAACAGATTTGATT-TGATTTTG-ATT
1 AATTGAATAATTCTGTTTCGAGATTTATTCTCACCGTTCAACAGATTTTATTCT-ATTTTGAATT
* * *
36594171 TTG-TTTCCAAACAAGAATT
65 TTGTTTTCAAAATAATAATT
* ** * *
36594190 AATTGAATAATTCTGTTTC-AGGATTTATTCCCGTCGTTTAACAGATTTGATT-TGATTTT-AAT
1 AATTGAATAATTCTGTTTCGA-GATTTATTCTCACCGTTCAACAGATTTTATTCT-ATTTTGAAT
* * * *
36594252 TTTG-TTTCCAAACAAGAATG
64 TTTGTTTTCAAAATAATAATT
* *
36594272 AATT--A-AATTCTGTTTCAAGATTTAATC-CTACCGTTCAACAGA
1 AATTGAATAATTCTGTTTCGAGATTTATTCTC-ACCGTTCAACAGA
36594314 GTTAATTTGG
Statistics
Matches: 649, Mismatches: 95, Indels: 75
0.79 0.12 0.09
Matches are distributed among these distances:
73 65 0.10
76 1 0.00
77 19 0.03
78 5 0.01
79 66 0.10
80 6 0.01
82 197 0.30
83 14 0.02
84 202 0.31
85 7 0.01
88 54 0.08
90 13 0.02
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (84 bp):
AATTGAATAATTCTGTTTCGAGATTTATTCTCACCGTTCAACAGATTTTATTCTATTTTGAATTT
TGTTTTCAAAATAATAATT
Found at i:36593793 original size:168 final size:165
Alignment explanation
Indices: 36593452--36594259 Score: 484
Period size: 164 Copynumber: 4.9 Consensus size: 165
36593442 TAAAAATTAA
* * * * *
36593452 AATTGAATAAATCTGTTTCGGGATTTATT-TCAGTCGTTCAACATATTTTATTCTATTTTTATTT
1 AATTGAATAAATCTATTTCGAGATTTATTCTCAGCCGTTCAACAGATTTTATTCTATTTTAATTT
* * ** * *
36593516 GGTTTCTAAACAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTTCTGCTGTTTAACAGATT
66 GGTTTCTAAACAAGAATTAAGTAAATAATTCTGTTTCGAGATTTATTCCCACCGTTCAACAGATT
* * *
36593581 TTATTCTATTTTGATTTTGTTTCCAATTAATAATT
131 TTACTCTATTTTGATTTTGTTTCAAAATAATAATT
*
36593616 AATTGAATAAATCTATTTCGAGATTTATTCTCA-CCGTTCAACAGATTTTGTTCTATATTTGAAT
1 AATTGAATAAATCTATTTCGAGATTTATTCTCAGCCGTTCAACAGATTTTATTCTAT-TTT-AAT
* * * * * * * * *
36593680 TTTGTTT-TCAAATAATAATTAATTAAATAATTTTGTTTTGGGATTTGTTCCCACCGTTCAATAG
64 TTGGTTTCT-AAACAAGAATTAAGTAAATAATTCTGTTTCGAGATTTATTCCCACCGTTCAACAG
36593744 ATTTTACTCTATATTTGAATTTTGTTTCAAAATAATAATT
128 ATTTTACTCTAT-TTTG-ATTTTGTTTCAAAATAATAATT
* * * ** * * *
36593784 AATTGAATAATTCTATTTTGAGATTTATTCT-TGTTGTTCAATAGA----ATT-GATTTTGATTT
1 AATTGAATAAATCTATTTCGAGATTTATTCTCAGCCGTTCAACAGATTTTATTCTATTTTAATTT
* * * * * * ****
36593843 TGTTTCCAAAGAAGAATTAAAATTAAATAATTAC-GTTTTGGGATTTATTCTTGTCGTTCAAC--
66 GGTTTCTAAACAAGAATT--AAGTAAATAATT-CTGTTTCGAGATTTATTCCCACCGTTCAACAG
* * *
36593905 -----A----ATTTTGATTTTGTTTCCAAACAAGAATT
128 ATTTTACTCTATTTTGATTTTGTTTCAAAATAATAATT
* * * * * * * * *
36593934 AAAATTAAATAATTATGTTTCGGGATTTATTC-CCGTCGTTCAAGAG-TTTTGATT-TGATTTTG
1 --AATTGAATAAATCTATTTCGAGATTTATTCTCAGCCGTTCAACAGATTTT-ATTCT-ATTTTA
* * * *
36593996 ATTTTGTTTCTAAACAAGAATTAAAATTAAATAATTTTGTTTCGAGATTTATTCCCTCCGTTCAA
62 ATTTGGTTTCTAAACAAGAATT--AAGTAAATAATTCTGTTTCGAGATTTATTCCCACCGTTCAA
* * * * * *
36594061 CCGATTTAATTTGATTTTAATTTTGATTTTGTTTCCAAACAATAGTT
125 CAGA--T--TTT-ACTCT-ATTTTGATTTTGTTTCAAAATAATAATT
* * * * * * *
36594108 AATTGAATAATTCTATTTTGGGATATATTTTCA-CCGTTCAACAGATTTGATT-TGATTTTGATT
1 AATTGAATAAATCTATTTCGAGATTTATTCTCAGCCGTTCAACAGATTTTATTCT-ATTTTAATT
* * * * ** *
36594171 TTGTTTCCAAACAAGAATTAATTGAATAATTCTGTTTC-AGGATTTATTCCCGTCGTTTAACAGA
65 TGGTTTCTAAACAAGAATTAAGTAAATAATTCTGTTTCGA-GATTTATTCCCACCGTTCAACAGA
* * *
36594235 TTTGA-TTTGATTTTAATTTTGTTTC
129 TTTTACTCT-ATTTTGATTTTGTTTC
36594260 CAAACAAGAA
Statistics
Matches: 517, Mismatches: 86, Indels: 82
0.75 0.13 0.12
Matches are distributed among these distances:
150 19 0.04
151 4 0.01
152 37 0.07
156 4 0.01
157 62 0.12
161 18 0.03
162 3 0.01
163 36 0.07
164 67 0.13
165 8 0.02
166 62 0.12
167 4 0.01
168 59 0.11
169 2 0.00
170 37 0.07
172 65 0.13
173 4 0.01
174 26 0.05
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (165 bp):
AATTGAATAAATCTATTTCGAGATTTATTCTCAGCCGTTCAACAGATTTTATTCTATTTTAATTT
GGTTTCTAAACAAGAATTAAGTAAATAATTCTGTTTCGAGATTTATTCCCACCGTTCAACAGATT
TTACTCTATTTTGATTTTGTTTCAAAATAATAATT
Found at i:36594162 original size:172 final size:171
Alignment explanation
Indices: 36593905--36594255 Score: 465
Period size: 172 Copynumber: 2.0 Consensus size: 171
36593895 GTCGTTCAAC
* * **
36593905 AATTTTGATTTTGTTTCCAAACAAGAATTAAAATTAAATAATTATGTTTCGGGATTTATTCCCGT
1 AATTTTGATTTTGTTTCCAAACAAGAATT-AAATTAAATAATTATATTTCGGGATATATTCCCAC
* * * *
36593970 CGTTCAAGAGTTTTGATTTGATTTTGATTTTGTTTCTAAACAAGAATTAAAATTAAATAATTTTG
65 CGTTCAACAGATTTGATTTGATTTTGATTTTGTTTCCAAACAAGAATT--AATTAAATAATTCTG
*
36594035 TTTC-GAGATTTATTCCC-TCCGTTCAACCGATTTAATTTGATTTT
128 TTTCAG-GATTTATTCCCGT-CGTTCAACAGATTTAATTTGATTTT
* * * * * **
36594079 AATTTTGATTTTGTTTCCAAACAATAGTT-AATTGAATAATTCTATTTTGGGATATATTTTCACC
1 AATTTTGATTTTGTTTCCAAACAAGAATTAAATTAAATAATTATATTTCGGGATATATTCCCACC
*
36594143 GTTCAACAGATTTGATTTGATTTTGATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTGTTT
66 GTTCAACAGATTTGATTTGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTGTTT
* *
36594208 CAGGATTTATTCCCGTCGTTTAACAGATTTGATTTGATTTT
131 CAGGATTTATTCCCGTCGTTCAACAGATTTAATTTGATTTT
36594249 AATTTTG
1 AATTTTG
36594256 TTTCCAAACA
Statistics
Matches: 156, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
170 57 0.37
171 2 0.01
172 70 0.45
174 27 0.17
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (171 bp):
AATTTTGATTTTGTTTCCAAACAAGAATTAAATTAAATAATTATATTTCGGGATATATTCCCACC
GTTCAACAGATTTGATTTGATTTTGATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTGTTT
CAGGATTTATTCCCGTCGTTCAACAGATTTAATTTGATTTT
Found at i:36596567 original size:21 final size:21
Alignment explanation
Indices: 36596543--36596600 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
36596533 TAGTGCAGAC
36596543 TTCTACCGATACAAGTGACAA
1 TTCTACCGATACAAGTGACAA
**
36596564 TTCTACCGATACAAGTGACTC
1 TTCTACCGATACAAGTGACAA
*
36596585 TTCTACCGAAACAAGT
1 TTCTACCGATACAAGT
36596601 CTTACTTCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (21 bp):
TTCTACCGATACAAGTGACAA
Found at i:36596608 original size:21 final size:20
Alignment explanation
Indices: 36596541--36596617 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 20
36596531 AATAGTGCAG
36596541 ACTTCTACCGATACAAGTGAC-
1 ACTTCTACCGATACAAGT--CT
*
36596562 AATTCTACCGATACAAGTGACT
1 ACTTCTACCGATACAAGT--CT
*
36596584 -CTTCTACCGAAACAAGTCTT
1 ACTTCTACCGATACAAGTC-T
36596604 ACTTCTACCGATAC
1 ACTTCTACCGATAC
36596618 TTAAAACTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 47 0.96
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (20 bp):
ACTTCTACCGATACAAGTCT
Found at i:36603224 original size:29 final size:29
Alignment explanation
Indices: 36603165--36603354 Score: 95
Period size: 29 Copynumber: 6.5 Consensus size: 29
36603155 CGACTCGAAT
* **
36603165 TTCTCAAAAATTACC-TTTTCACCCCCGAAC
1 TTCT-AAAAATTACCTTTTTGA-CCCTAAAC
*
36603195 TTCTAAAAATTCCCTTTTTGACCCTAAAC
1 TTCTAAAAATTACCTTTTTGACCCTAAAC
* * *
36603224 TTTTAAATATTACCATTTT-ACCCTCAGATA-
1 TTCTAAAAATTACCTTTTTGACCCT-A-A-AC
* * *
36603254 TTC-AAAAATTTCATTTTTGACCCGAAAC
1 TTCTAAAAATTACCTTTTTGACCCTAAAC
* * * ** *
36603282 TTTCCAAAAATCACCATTTTG-CCCCCAAG
1 -TTCTAAAAATTACCTTTTTGACCCTAAAC
* *
36603311 TGTCTAAAAATTACCATTTT-ACCCTCGAAC
1 T-TCTAAAAATTACCTTTTTGACCCT-AAAC
*
36603341 CTCTAAAAATTACC
1 TTCTAAAAATTACC
36603355 AATTTACCCT
Statistics
Matches: 122, Mismatches: 27, Indels: 23
0.71 0.16 0.13
Matches are distributed among these distances:
27 1 0.01
28 7 0.06
29 83 0.68
30 30 0.25
31 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (29 bp):
TTCTAAAAATTACCTTTTTGACCCTAAAC
Found at i:36604431 original size:23 final size:24
Alignment explanation
Indices: 36604390--36604437 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
36604380 GGTGGCGGCT
36604390 CCCATGTTTTGATCATTTAAAATA
1 CCCATGTTTTGATCATTTAAAATA
* *
36604414 CCCATTTTTTGAT-TTTTAAAATA
1 CCCATGTTTTGATCATTTAAAATA
36604437 C
1 C
36604438 TGTTCGAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (24 bp):
CCCATGTTTTGATCATTTAAAATA
Found at i:36616193 original size:208 final size:209
Alignment explanation
Indices: 36615466--36616752 Score: 1413
Period size: 208 Copynumber: 6.2 Consensus size: 209
36615456 TTGCGATTAT
* * * * *
36615466 TCAAAATAA-TGAGGCAGCCATCTTCCTGATGAGATA-TAGAGAAGTAGATCAAATCAATGAAAA
1 TCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACT-GAGAAGTAGACCAAATCAATGAAAC
* * * * * * * *
36615529 AAAGCTCAATGCGAGCAAAACTTCGAACCTCAGCTTCCTGATGAGATGCAGAGAAGCAGGTCGAA
65 CAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAA
* * * * *
36615594 CCAATAAAATGGTCAGCTTCCTGATGAGATACT-GAGAAGTGGACCAAATTCGTCTTCCTAATGA
130 GCAATAAAATGGTTAGCTTCCTGATGAGATA-TAGAGAAGTGAACCAAATCCGTCTTCCTGATGA
36615658 GATACAGAGAAGCGGA
194 GATACAGAGAAGCGGA
** * * * * *
36615674 TTGAAACAAGTGAGGCGATCATCTTGCTGATAAGATACAGAGAAGTATACCAAATC------A--
1 TCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACC
* * *
36615731 AGGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGCCAAAG
66 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
* * * * *
36615796 CAATAAAATGGTTAGCTTCCTAATGAGATACTTATA-AA-TGGACCAAATTCATCTTCCTGATGA
131 CAATAAAATGGTTAGCTTCCTGATGAGATA--TAGAGAAGTGAACCAAATCCGTCTTCCTGATGA
36615859 GATACAGAGAAGCGGA
194 GATACAGAGAAGCGGA
** * * * * * * *
36615875 TTGAAACAAGCGATGTGGTCATCTTCTTGATGAGATACTGAGAAGAAGACTAAATCAATGAAGCC
1 TCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACC
* * * * * *
36615940 AGGCTCAAAGTAAG-AGAATCTTCGAACCCTAGCTTCCTAATGAGATACTAAGACGCAGGTCAAA
66 AGGCTCAAAGTGAGCA-AATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAA
* ** * * * *
36616004 ACAATAAAGCGGTTACCTTTCTAATGAGATATAGAGAAGTGAACCAGATCCGTCTTCCTGATGAG
130 GCAATAAAATGGTTAGCTTCCTGATGAGATATAGAGAAGTGAACCAAATCCGTCTTCCTGATGAG
* *
36616069 ATATAGAGAAGTGGA
195 ATACAGAGAAGCGGA
* * * *
36616084 TCAAAAC-AGTGATGCGGTCATCTTTCTGATGAGATCCTAAGAAGTAGACCAAATCAATGAAACC
1 TCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACC
* *
36616148 AGGCTCAAAGTGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAG
66 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
* ** * * * *
36616213 TAATAAAGCGGTTAACTTCCTGATGAGATACAGAGAAGTGAACTAGATCCGTCTTCCTGATGAGA
131 CAATAAAATGGTTAGCTTCCTGATGAGATATAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGA
* *
36616278 TACAGAGAAGTGAA
196 TACAGAGAAGCGGA
* *
36616292 TCAAAA-TAGTGAGGCGGTCATCTTCCTGACGAGATACTGAGAAGTAGACCAAATCAATGAAACC
1 TCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACC
* * *
36616356 AGGCTCAAAGTGAGCAAATTTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAG
66 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
* * * * * *
36616421 CAATAAAGTGGTTACCTTCCTGATGAGATACAGAGAAGTAAATCAGATCCGTCTTCCTGATGAGA
131 CAATAAAATGGTTAGCTTCCTGATGAGATATAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGA
* *
36616486 CACAGAGAAGTGGA
196 TACAGAGAAGCGGA
* * * * * *
36616500 TCAAAACAA-CGAGACGGTGATCTTCCTGATGTGATATTGAGAAGTAGACAAAATCGAA-GAAAC
1 TCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATC-AATGAAAC
* * ** * *
36616563 CAGGCTGAAGGTGAGCAAATCTTCGAACTGCAGCTTCCTGATGGGATACTGAGAAGTAGGTCGAA
65 CAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAA
* * * * * * *
36616628 GCAATAAAATGGTCAGCTTCCTGATGAGATATTGAGAAGTGGACCAAATTCGTCTTCATAATTAG
130 GCAATAAAATGGTTAGCTTCCTGATGAGATATAGAGAAGTGAACCAAATCCGTCTTCCTGATGAG
* *
36616693 ATACAAAGAAGCAGA
195 ATACAGAGAAGCGGA
** *
36616708 TTGAAACAAGTGAGGCGATCATCTTCCTGATGAGATACTGAGAAG
1 TCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAG
36616753 CAGGTCGAAG
Statistics
Matches: 914, Mismatches: 145, Indels: 39
0.83 0.13 0.04
Matches are distributed among these distances:
201 166 0.18
202 3 0.00
203 2 0.00
207 3 0.00
208 548 0.60
209 192 0.21
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (209 bp):
TCAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACC
AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
CAATAAAATGGTTAGCTTCCTGATGAGATATAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGA
TACAGAGAAGCGGA
Found at i:36616837 original size:134 final size:134
Alignment explanation
Indices: 36616596--36616886 Score: 458
Period size: 134 Copynumber: 2.2 Consensus size: 134
36616586 CGAACTGCAG
* * *
36616596 CTTCCTGATGGGATACTGAGAAGTAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATATT
1 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACT
*
36616661 GAGAAGTGGACCAAATTCGTCTTCATAATTAGATACAAAGAAGCA-GATTGAAACAAGTGAGGCG
66 GAGAAGTGGACCAAATTCGTCTTCATAATGAGATACAAAGAAG-AGGATTGAAACAAGTGAGGCG
36616725 ATCAT
130 ATCAT
36616730 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACT
1 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACT
* ** * * *
36616795 GAGAAGTGGACCAAATTCGTCTTCCTGGTGAGATACAGAGAAGAGGATTGAAACAGGTGAGGCGG
66 GAGAAGTGGACCAAATTCGTCTTCATAATGAGATACAAAGAAGAGGATTGAAACAAGTGAGGCGA
36616860 TCAT
131 TCAT
* *
36616864 CTTGCTGATGAGATACAGAGAAG
1 CTTCCTGATGAGATACTGAGAAG
36616887 TATACCAACT
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
133 1 0.01
134 143 0.99
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.23
Consensus pattern (134 bp):
CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACT
GAGAAGTGGACCAAATTCGTCTTCATAATGAGATACAAAGAAGAGGATTGAAACAAGTGAGGCGA
TCAT
Found at i:36617013 original size:343 final size:342
Alignment explanation
Indices: 36616388--36617095 Score: 943
Period size: 343 Copynumber: 2.1 Consensus size: 342
36616378 CGAACCCTAG
* *
36616388 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGGTTACCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAATGGTCACCTTCCTGATGAGATACA
* * *
36616453 GAGAAGTAAATCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAACGAGACGGT
66 GAGAAGTAAACCAAATCCGTCTTCCTGATGAGACACAGAGAAGAGGATCAAAACAACGAGACGGT
* * ** * * *
36616518 GATCTTCCTGATGTGATATTGAGAAGTAGACAAAATCGAAGAAACCAGGCTGAAGGTGAGCAAAT
131 CATCTTCCTGATGAGATACAGAGAAGTAGACAAAATCGAAGAAACCAAGCTCAAAGTGAGCAAAT
** * ** * *
36616583 CTTCGAACTGCAGCTTCCTGATGGGATACTGAGAAGTAGGTCGAAGCAATAAAATGGTCAGCTTC
196 CTTCGAACCCCAACTTCCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAATAGTCAGCTTC
*
36616648 CTGATGAGATATTGAGAAGTGGACC-AAATTCGTCTTCATAATTAGATACAAAGAAGCAGATTGA
261 CTGATGAGATATTGAGAAGTGGACCAAAATT-GTCTTCATAATGAGATACAAAGAAGCAGATTGA
36616712 AACAAGTGAGGCGATCAT
325 AACAAGTGAGGCGATCAT
* * *
36616730 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACT
1 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAATGGTCACCTTCCTGATGAGATACA
** * * * ** ** *
36616795 GAGAAGTGGACCAAATTCGTCTTCCTGGTGAGATACAGAGAAGAGGATTGAAACAGGTGAGGCGG
66 GAGAAGTAAACCAAATCCGTCTTCCTGATGAGACACAGAGAAGAGGATCAAAACA-ACGAGACGG
* * * *
36616860 TCATCTTGCTGATGAGATACAGAGAAGTATACCAACTCGATA-AAACCAAGCTCAAAGTGAGCAA
130 TCATCTTCCTGATGAGATACAGAGAAGTAGACAAAATCGA-AGAAACCAAGCTCAAAGTGAGCAA
* *
36616924 ATCTTCGAACCCCAACTTCCTGATAAGATACTGAGAAGCAGGTTGAAGCAATAAAATAGTTAGCT
194 ATCTTCGAACCCCAACTTCCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAATAGTCAGCT
* * * * * *
36616989 TTCTGATGAGATATTGAGAAGTGGACCAAAATTTTCTTCCTGATGAGATACAGAGAAGCGGATTG
259 TCCTGATGAGATATTGAGAAGTGGACCAAAATTGTCTTCATAATGAGATACAAAGAAGCAGATTG
* *
36617054 AAACAAGTGATGCGGTCAT
324 AAACAAGTGAGGCGATCAT
*
36617073 CTTCCTGATGAGATACTAAGAAG
1 CTTCCTGATGAGATACTGAGAAG
36617096 TAGACCAAAT
Statistics
Matches: 315, Mismatches: 48, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
342 105 0.33
343 204 0.65
344 6 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (342 bp):
CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAATGGTCACCTTCCTGATGAGATACA
GAGAAGTAAACCAAATCCGTCTTCCTGATGAGACACAGAGAAGAGGATCAAAACAACGAGACGGT
CATCTTCCTGATGAGATACAGAGAAGTAGACAAAATCGAAGAAACCAAGCTCAAAGTGAGCAAAT
CTTCGAACCCCAACTTCCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAATAGTCAGCTTC
CTGATGAGATATTGAGAAGTGGACCAAAATTGTCTTCATAATGAGATACAAAGAAGCAGATTGAA
ACAAGTGAGGCGATCAT
Found at i:36617097 original size:209 final size:209
Alignment explanation
Indices: 36616730--36617316 Score: 773
Period size: 209 Copynumber: 2.8 Consensus size: 209
36616720 AGGCGATCAT
* *
36616730 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACT
1 CTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACT
* * *
36616795 GAGAAGTGGACCAAATTCGTCTTCCTGGTGAGATACAGAGAAGAGGATTGAAACAGGTGAGGCGG
66 GAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGAGGATTGAAACAAGTGATGCGG
* * * *
36616860 TCATCTTGCTGATGAGATAC-AGAGAAGTATACCAACTCGATAAAACCAAGCTCAAAGTGAGCAA
131 TCATCTTCCTGATGAGATACTA-AGAAGTAGACCAAATCCATAAAACCAAGCTCAAAGTGAGCAA
36616924 ATCTTCGAACCCCAA
195 ATCTTCGAACCCCAA
* * * *
36616939 CTTCCTGATAAGATACTGAGAAGCAGGTTGAAGCAATAAAATAGTTAGCTTTCTGATGAGATATT
1 CTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACT
* *
36617004 GAGAAGTGGACCAAAATT-TTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATGCG
66 GAGAAGTGGACC-AAATTCGTCTTCCTGATGAGATACAGAGAAGAGGATTGAAACAAGTGATGCG
* * * *
36617068 GTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCCATGAAACCAGGTTCAAAGTGAGTAA
130 GTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCCATAAAACCAAGCTCAAAGTGAGCAA
*
36617133 ATCTTCGAACCCCAG
195 ATCTTCGAACCCCAA
* ** * * ** * * *
36617148 CTTCTTGATGAGATGTTGAGAACCAAGTTGAAGCAATAAAGCGGTTACCCTCCTGATGAGATACA
1 CTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACT
* * * * * * **
36617213 GAGAAGTGAATCAGATTCGTCTTCCTGATGAGACACAAAGAAGTGGATCAAAAACAAGTGATGCG
66 GAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGAGGAT-TGAAACAAGTGATGCG
* *
36617278 GTCATCTTCCTGATGAGATACTGAGAAGTAGGCCAAATC
130 GTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATC
36617317 AATGACACCA
Statistics
Matches: 329, Mismatches: 45, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
208 4 0.01
209 268 0.81
210 57 0.17
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (209 bp):
CTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACT
GAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGAGGATTGAAACAAGTGATGCGG
TCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCCATAAAACCAAGCTCAAAGTGAGCAAA
TCTTCGAACCCCAA
Found at i:36617660 original size:17 final size:17
Alignment explanation
Indices: 36617622--36617746 Score: 96
Period size: 17 Copynumber: 7.4 Consensus size: 17
36617612 AAACACATTT
*
36617622 TTTAACTTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
36617640 -TTAAGTTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
36617656 TTTAAAATTATTTCAAA
1 TTTAAATTTATTTTAAA
*
36617673 TTTAAA-TT-TGTTAAA
1 TTTAAATTTATTTTAAA
* * * *
36617688 ATTAAATTAAATTTAAG
1 TTTAAATTTATTTTAAA
36617705 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
36617723 TTT-AATCTTACTCTAAA
1 TTTAAAT-TTATTTTAAA
36617740 TTTAAAT
1 TTTAAAT
36617747 AAATAAAAGC
Statistics
Matches: 84, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
15 10 0.12
16 4 0.05
17 56 0.67
18 14 0.17
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:36617746 original size:6 final size:6
Alignment explanation
Indices: 36617650--36617727 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
36617640 TTAAGTTTAT
* *
36617650 TTTAAA TTTAAA ATT--A TTTCAAA TTTAAA TTTGTTAAA ATTAAA -TTAAA
1 TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA --T-TTAAA TTTAAA TTTAAA
* **
36617699 TTTAAG TTTAAA TTTATT TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
36617728 TCTTACTCTA
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
4 3 0.05
5 5 0.09
6 38 0.68
7 4 0.07
8 1 0.02
9 5 0.09
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:36618104 original size:29 final size:31
Alignment explanation
Indices: 36617992--36618303 Score: 255
Period size: 30 Copynumber: 10.5 Consensus size: 31
36617982 CGAACTTCTT
* *
36617992 AAAAATTACA-TTTTGACCCTCGAACTTTTC
1 AAAAATTACATTTTTGACCCTCAAACTTTCC
36618022 AAAAA-T-CATATTTTGACCCTCAAACTTTCC
1 AAAAATTACAT-TTTTGACCCTCAAACTTTCC
36618052 AAAAATTACATTTTTG-CCCTCAAACTTTCC
1 AAAAATTACATTTTTGACCCTCAAACTTTCC
* *
36618082 -AAAATTACATCTTCGACCC-CAAA-TTTCTC
1 AAAAATTACATTTTTGACCCTCAAACTTTC-C
* **
36618111 AAAAATTACCA--TTTCACCCTTGAAC-TTCC
1 AAAAATTA-CATTTTTGACCCTCAAACTTTCC
* * **
36618140 AAAAATTCCCTTTTTGA-CCTTGAACTTTCC
1 AAAAATTACATTTTTGACCCTCAAACTTTCC
* * *
36618170 AAAAATTACCA-TTTT-ACCCCCGAA-TATCC
1 AAAAATTA-CATTTTTGACCCTCAAACTTTCC
*
36618199 AAAAATTACATTTTTGACCC-CAAAATTTCC
1 AAAAATTACATTTTTGACCCTCAAACTTTCC
* * * *
36618229 AAAAATCACAATTTTG-CCCTCAGA-TGTCC
1 AAAAATTACATTTTTGACCCTCAAACTTTCC
* *
36618258 AAAAATTTCATTTTTGACCC-AAAACTTTCC
1 AAAAATTACATTTTTGACCCTCAAACTTTCC
* *
36618288 AAAAATCACAATTTTG
1 AAAAATTACATTTTTG
36618304 CTCCCATGGA
Statistics
Matches: 230, Mismatches: 31, Indels: 42
0.76 0.10 0.14
Matches are distributed among these distances:
28 9 0.04
29 83 0.36
30 126 0.55
31 9 0.04
32 3 0.01
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (31 bp):
AAAAATTACATTTTTGACCCTCAAACTTTCC
Found at i:36618303 original size:59 final size:60
Alignment explanation
Indices: 36617992--36618304 Score: 265
Period size: 59 Copynumber: 5.3 Consensus size: 60
36617982 CGAACTTCTT
* *
36617992 AAAAATTAC-ATTTTGACCCTC-GAACTTTTCAAAAA-T-CATATTTTGACCCTCAAACTTTCC
1 AAAAATTACAATTTTG-CCCTCAGAAC-TTCCAAAAATTACAT-TTTTGACCC-AAAACTTTCC
* * * *
36618052 AAAAATTACATTTTTGCCCTCA-AACTTTCC-AAAATTACATCTTCGACCCCAAA-TTTCTC
1 AAAAATTACAATTTTGCCCTCAGAAC-TTCCAAAAATTACATTTTTGACCCAAAACTTTC-C
* ** * * * ***
36618111 AAAAATTACCATTTCACCCT-TGAACTTCCAAAAATTCCCTTTTTGACCTTGAACTTTCC
1 AAAAATTACAATTTTGCCCTCAGAACTTCCAAAAATTACATTTTTGACCCAAAACTTTCC
* * *
36618170 AAAAATTACCATTTTACCC-CCGAA-TATCCAAAAATTACATTTTTGACCCCAAAA-TTTCC
1 AAAAATTACAATTTTGCCCTCAGAACT-TCCAAAAATTACATTTTTGA-CCCAAAACTTTCC
* *
36618229 AAAAATCACAATTTTGCCCTCAG-A-TGTCCAAAAATTTCATTTTTGACCCAAAACTTTCC
1 AAAAATTACAATTTTGCCCTCAGAACT-TCCAAAAATTACATTTTTGACCCAAAACTTTCC
*
36618288 AAAAATCACAATTTTGC
1 AAAAATTACAATTTTGC
36618305 TCCCATGGAT
Statistics
Matches: 211, Mismatches: 29, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
58 16 0.08
59 148 0.70
60 39 0.18
61 8 0.04
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (60 bp):
AAAAATTACAATTTTGCCCTCAGAACTTCCAAAAATTACATTTTTGACCCAAAACTTTCC
Found at i:36618318 original size:59 final size:57
Alignment explanation
Indices: 36618137--36618323 Score: 191
Period size: 59 Copynumber: 3.2 Consensus size: 57
36618127 CCCTTGAACT
* * *** * * *
36618137 TCCAAAAATTCCCTTTTTGACCTTGAACTTTCCAAAAATTACCATTTTACCCCCGAAT-A
1 TCCAAAAATTACATTTTTGACCCAAAACTTTCCAAAAATCACAATTTT-GCCCC--ATGA
36618196 TCCAAAAATTACATTTTTGACCCCAAAA-TTTCCAAAAATCACAATTTTGCCCTCA-GA
1 TCCAAAAATTACATTTTTGA-CCCAAAACTTTCCAAAAATCACAATTTTGCCC-CATGA
*
36618253 TGTCCAAAAATTTCATTTTTGACCCAAAACTTTCCAAAAATCACAATTTTGCTCCCATGGA
1 --TCCAAAAATTACATTTTTGACCCAAAACTTTCCAAAAATCACAATTTTGC-CCCAT-GA
36618314 TCCAAAAATT
1 TCCAAAAATT
36618324 GAATTTAATC
Statistics
Matches: 110, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
57 2 0.02
58 10 0.09
59 90 0.82
60 6 0.05
61 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (57 bp):
TCCAAAAATTACATTTTTGACCCAAAACTTTCCAAAAATCACAATTTTGCCCCATGA
Found at i:36628433 original size:16 final size:17
Alignment explanation
Indices: 36628412--36628450 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
36628402 ACTGTGGTTT
36628412 GGGATTG-TTTTGCTTC
1 GGGATTGATTTTGCTTC
*
36628428 GGGATTGATTTTTCTTC
1 GGGATTGATTTTGCTTC
36628445 GGGATT
1 GGGATT
36628451 TTTCACACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.10, C:0.10, G:0.31, T:0.49
Consensus pattern (17 bp):
GGGATTGATTTTGCTTC
Found at i:36632009 original size:84 final size:80
Alignment explanation
Indices: 36631820--36632092 Score: 203
Period size: 84 Copynumber: 3.3 Consensus size: 80
36631810 ATGTTAATCG
* * *
36631820 GCGGGAATAAATCCCGAAATAGATTTATTCAACTTAGTTTATTTGGAAACAAAATCAAACTAGAA
1 GCGGGAATAAATCTCGAAATAGATTGATTCAACTTAGTTTATTTAGAAACAAAATCAAACTAGAA
*
36631885 CAAAATCTATTAAAT
66 CAAAATCTATTAAAC
* * * *
36631900 GCTGGGAATAAAT-TCTAATATAGATTGATT-TACTTAATTATTATTTAGAACCAAAATCCAAA-
1 GC-GGGAATAAATCTCGAA-ATAGATTGATTCAACTT-AGT-TTATTTAGAAACAAAAT-CAAAC
* *
36631962 TATGGAATAAAATCTATTGAAC
61 TA--GAACAAAATCTATTAAAC
* * * * * * *
36631984 GACGGGAATAAATCTCGAAACAGATTTATTAAACTTA-TTCTCGTTTTGAAATAAAATCAAAATA
1 G-CGGGAATAAATCTCGAAATAGATTGATTCAACTTAGTT-T-ATTTAGAAACAAAATCAAACTA
* * *
36632048 GAATAAAATCTGTTAAATG
63 GAACAAAATCTATTAAA-C
* * *
36632067 GAGGGAAATAAGTCCCGAAATAGATT
1 GCGGG-AATAAATCTCGAAATAGATT
36632093 ATTTTTCAAT
Statistics
Matches: 153, Mismatches: 25, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
80 9 0.06
81 22 0.14
82 36 0.24
83 28 0.18
84 49 0.32
85 9 0.06
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (80 bp):
GCGGGAATAAATCTCGAAATAGATTGATTCAACTTAGTTTATTTAGAAACAAAATCAAACTAGAA
CAAAATCTATTAAAC
Found at i:36643052 original size:17 final size:18
Alignment explanation
Indices: 36643019--36643058 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
36643009 CCATATTGAA
36643019 TTGA-TGAATGGTATAAG
1 TTGATTGAATGGTATAAG
36643036 -TGATTGAATGGCT-TAAG
1 TTGATTGAATGG-TATAAG
36643053 TTGATT
1 TTGATT
36643059 CATGATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.15
17 11 0.55
18 6 0.30
ACGTcount: A:0.30, C:0.03, G:0.28, T:0.40
Consensus pattern (18 bp):
TTGATTGAATGGTATAAG
Found at i:36646109 original size:48 final size:47
Alignment explanation
Indices: 36645989--36646093 Score: 138
Period size: 47 Copynumber: 2.2 Consensus size: 47
36645979 GTGAAAGATG
* * * *
36645989 TGGCAGTTTATCTGCAAAAATGGTGGCTTGTCCACAATATTATAATG
1 TGGCAATTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATAATA
* * *
36646036 TGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATAATTTTTATA
1 TGGCAATTTATCTACAAAAGTGGTGGCTTGTCCACAAT-ATTATAATA
36646084 TGGCAATTTA
1 TGGCAATTTA
36646094 CTTGTAAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 36 0.71
48 15 0.29
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (47 bp):
TGGCAATTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATAATA
Found at i:36646564 original size:39 final size:39
Alignment explanation
Indices: 36646497--36646719 Score: 176
Period size: 39 Copynumber: 5.7 Consensus size: 39
36646487 TCTAGTAATG
* * * * * * * *
36646497 TTTAAAGTGTCACTACTACTTCAATATAGCGTTGCGGTA
1 TTTACAGTGTCACTGCCAGTTCAGTATAGCATTACAGTA
* *
36646536 TTTACAGTGTCACCGCCAGTTCAGTATAGCATTACAGTG
1 TTTACAGTGTCACTGCCAGTTCAGTATAGCATTACAGTA
* * * ** *
36646575 TTTACATTATCACTGCTAGTTCAGTATATTATTACAGTG
1 TTTACAGTGTCACTGCCAGTTCAGTATAGCATTACAGTA
* * * * *
36646614 TTTACAGTGTCACTGCTAGTCCAGTATAACATTGCAATA
1 TTTACAGTGTCACTGCCAGTTCAGTATAGCATTACAGTA
* * * * *
36646653 TTTACAGTGTCACTGCCGGTTCAGTATAACATTGCAATG
1 TTTACAGTGTCACTGCCAGTTCAGTATAGCATTACAGTA
* * **
36646692 TTCACAGTGTCACTACTGGTTCAGTATA
1 TTTACAGTGTCACTGCCAGTTCAGTATA
36646720 TCTTCGACGT
Statistics
Matches: 153, Mismatches: 31, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 153 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (39 bp):
TTTACAGTGTCACTGCCAGTTCAGTATAGCATTACAGTA
Found at i:36646639 original size:78 final size:78
Alignment explanation
Indices: 36646536--36646719 Score: 206
Period size: 78 Copynumber: 2.4 Consensus size: 78
36646526 CGTTGCGGTA
* * * * * * *
36646536 TTTACAGTGTCACCGCCAGTTCAGTATAGCATTACAGTGTTTACATTATCACTGCTAGTTCAGTA
1 TTTACAGTGTCACTGCTAGTTCAGTATAACATTACAATATTTACAGTATCACTGCCAGTTCAGTA
** *
36646601 TATTATTACAGTG
66 TAACATTACAATG
* * * *
36646614 TTTACAGTGTCACTGCTAGTCCAGTATAACATTGCAATATTTACAGTGTCACTGCCGGTTCAGTA
1 TTTACAGTGTCACTGCTAGTTCAGTATAACATTACAATATTTACAGTATCACTGCCAGTTCAGTA
*
36646679 TAACATTGCAATG
66 TAACATTACAATG
* * *
36646692 TTCACAGTGTCACTACTGGTTCAGTATA
1 TTTACAGTGTCACTGCTAGTTCAGTATA
36646720 TCTTCGACGT
Statistics
Matches: 87, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
78 87 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (78 bp):
TTTACAGTGTCACTGCTAGTTCAGTATAACATTACAATATTTACAGTATCACTGCCAGTTCAGTA
TAACATTACAATG
Done.