Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 37 of 182
Found at i:11959816 original size:18 final size:17
Alignment explanation
Indices: 11959742--11959816 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 17
11959732 TCAGAAAATT
11959742 TTTCGTGTTTTCAAAAA
1 TTTCGTGTTTTCAAAAA
11959759 TTCTCGTGTTTTCAAAAAAA
1 TT-TCGTGTTTTC--AAAAA
* *
11959779 TTT-AT-TTTTCAAAATT
1 TTTCGTGTTTTCAAAA-A
*
11959795 TTTCTTGTTTTCTAAAAA
1 TTTCGTGTTTTC-AAAAA
11959813 TTTC
1 TTTC
11959817 CATATTTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
15 4 0.09
16 3 0.06
17 8 0.17
18 20 0.43
19 5 0.11
20 7 0.15
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (17 bp):
TTTCGTGTTTTCAAAAA
Found at i:11963976 original size:43 final size:41
Alignment explanation
Indices: 11963922--11964041 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 41
11963912 AATTTAACGC
*
11963922 CTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGAA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCG-A
* * * * *
11963964 TCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCCAAGA-TGCGA
1 -CTTAACCCCCTAAGCAGTAG-GGTAACAGGT-CAAAATTGCGA
*
11964006 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTCAAAAT
11964042 ATAGCAGATC
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
40 5 0.08
41 23 0.38
42 1 0.02
43 26 0.43
44 6 0.10
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (41 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGA
Found at i:11964517 original size:207 final size:207
Alignment explanation
Indices: 11964161--11965290 Score: 2003
Period size: 207 Copynumber: 5.5 Consensus size: 207
11964151 CGACGGAGAG
* * *
11964161 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
11964226 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
*
11964291 CATAGCAGATTTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
11964356 GCTTACAAGGAA
196 GCTTACAAGGAA
11964368 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
11964433 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
*
11964498 CATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
11964563 GCTTACAAGGAA
196 GCTTACAAGGAA
11964575 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
*
11964640 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
*
11964705 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTAGCATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
11964770 GCTTACAAGGAA
196 GCTTACAAGGAA
* *
11964782 CAAATCGAAGGCATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
11964847 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
11964912 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
11964977 GCTTACAAGGAA
196 GCTTACAAGGAA
* * *
11964989 CAAATCAAAGACATGGCTGATTTGGCTTTCCCGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
* * *
11965054 GCATCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGACAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
* ** * * *
11965119 TATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
*
11965183 GCTTACAA-GAG
196 GCTTACAAGGAA
* * *
11965194 CAAATCGAAGACATAGCTGATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
* *
11965259 GCATCTCTGTATTGTCAGGGAACAAATTGAAG
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAG
11965291 AAGCAGATTT
Statistics
Matches: 888, Mismatches: 35, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
205 91 0.10
206 34 0.04
207 763 0.86
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (207 bp):
CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
GCTTACAAGGAA
Found at i:11971811 original size:20 final size:20
Alignment explanation
Indices: 11971786--11971828 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
11971776 ATCAATATTC
11971786 TTATCCTGAATTTCAGGATT
1 TTATCCTGAATTTCAGGATT
* *
11971806 TTATCCTGAATTTTAGTATT
1 TTATCCTGAATTTCAGGATT
11971826 TTA
1 TTA
11971829 ATTTGGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (20 bp):
TTATCCTGAATTTCAGGATT
Found at i:11973075 original size:85 final size:85
Alignment explanation
Indices: 11972932--11973101 Score: 286
Period size: 85 Copynumber: 2.0 Consensus size: 85
11972922 TAGCAAGTTT
*
11972932 CATTGGAATCAGAGTTGTGCAGCGATAGCGTGGTAATCAGTGCGAATGAGAAAATTTTAAATTTG
1 CATTGGAATCAGAGTTGTGCAGCGATAGCGTGGTAATCAGTGCGAATGAGAAAATTTTAAATTAG
11972997 GTGTTTAAGTATATGGTGTG
66 GTGTTTAAGTATATGGTGTG
* * * * *
11973017 CATTGTAATTAGAGTTGTGCAGCGATAGCGTGGTGATCAGTGTGAATGAGGAAATTTTAAATTAG
1 CATTGGAATCAGAGTTGTGCAGCGATAGCGTGGTAATCAGTGCGAATGAGAAAATTTTAAATTAG
11973082 GTGTTTAAGTATATGGTGTG
66 GTGTTTAAGTATATGGTGTG
11973102 ACAACGTGAA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.29, C:0.07, G:0.30, T:0.34
Consensus pattern (85 bp):
CATTGGAATCAGAGTTGTGCAGCGATAGCGTGGTAATCAGTGCGAATGAGAAAATTTTAAATTAG
GTGTTTAAGTATATGGTGTG
Found at i:11974357 original size:20 final size:20
Alignment explanation
Indices: 11974324--11974373 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
11974314 TAAAATAATT
* *
11974324 AATATATAAAGTAAT-TTAA
1 AATAAATAATGTAATCTTAA
11974343 AATAAAATAATGTAATCTTAA
1 AAT-AAATAATGTAATCTTAA
11974364 AATAAATAAT
1 AATAAATAAT
11974374 ATATGTAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 17 0.63
21 7 0.26
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
AATAAATAATGTAATCTTAA
Found at i:11974662 original size:27 final size:26
Alignment explanation
Indices: 11974615--11974703 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 26
11974605 ATATATGATA
*
11974615 ATTTAAAATAAAT-ATCGTGTAAAAAT
1 ATTTAAAATAAATAAT-ATGTAAAAAT
* *
11974641 ATTTCAAAATAAATAATATGT-ATAGT
1 ATTT-AAAATAAATAATATGTAAAAAT
* *
11974667 AGTTAAAATAAATAATATATATAAAAT
1 ATTTAAAATAAATAATATGTA-AAAAT
*
11974694 ATTTCAAATA
1 ATTTAAAATA
11974704 GATAGTAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
25 15 0.30
26 10 0.20
27 23 0.46
28 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (26 bp):
ATTTAAAATAAATAATATGTAAAAAT
Found at i:11976247 original size:16 final size:16
Alignment explanation
Indices: 11976226--11976287 Score: 88
Period size: 16 Copynumber: 3.9 Consensus size: 16
11976216 TTTGGTTCAG
*
11976226 TGTAATGGAATAGGGT
1 TGTAATGGAATAGAGT
**
11976242 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAGT
11976258 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
*
11976274 TGTAATAGAATAGA
1 TGTAATGGAATAGA
11976288 ACTGTAATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.40, C:0.02, G:0.29, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:11976262 original size:32 final size:32
Alignment explanation
Indices: 11976226--11976295 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
11976216 TTTGGTTCAG
* *
11976226 TGTAATGGAATAGGGTTGTAATGGAATAGAAC
1 TGTAATGGAATAGAGTTGTAATAGAATAGAAC
11976258 TGTAATGGAATAGAGTTGTAATAGAATAGAAC
1 TGTAATGGAATAGAGTTGTAATAGAATAGAAC
11976290 TGTAAT
1 TGTAAT
11976296 AGCAATTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (32 bp):
TGTAATGGAATAGAGTTGTAATAGAATAGAAC
Found at i:11976293 original size:16 final size:16
Alignment explanation
Indices: 11976242--11976297 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
11976232 GGAATAGGGT
*
11976242 TGTAATGGAATAGAAC
1 TGTAATAGAATAGAAC
* **
11976258 TGTAATGGAATAGAGT
1 TGTAATAGAATAGAAC
11976274 TGTAATAGAATAGAAC
1 TGTAATAGAATAGAAC
11976290 TGTAATAG
1 TGTAATAG
11976298 CAATTCAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.43, C:0.04, G:0.25, T:0.29
Consensus pattern (16 bp):
TGTAATAGAATAGAAC
Found at i:11976562 original size:21 final size:20
Alignment explanation
Indices: 11976534--11976573 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
11976524 AATTTATTAT
11976534 TAATTATAATTTAACAATAA
1 TAATTATAATTTAACAATAA
*
11976554 TAATATATAATTTAATAATA
1 TAAT-TATAATTTAACAATA
11976574 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTATAATTTAACAATAA
Found at i:11976634 original size:22 final size:21
Alignment explanation
Indices: 11976597--11976642 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
11976587 AATTATTAAA
11976597 ATATAAATTAATAAAAATAAT
1 ATATAAATTAATAAAAATAAT
11976618 ATATAATATTACA-AAAAATAAT
1 ATATAA-ATTA-ATAAAAATAAT
11976640 ATA
1 ATA
11976643 CAACCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAAATTAATAAAAATAAT
Found at i:11976775 original size:12 final size:12
Alignment explanation
Indices: 11976745--11976779 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
11976735 TCTATGTTAC
11976745 TTAAAGAATAAT
1 TTAAAGAATAAT
11976757 TTAAAAGAATAAT
1 TT-AAAGAATAAT
11976770 TTAAAGAATA
1 TTAAAGAATA
11976780 TATTGTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:11977551 original size:5 final size:5
Alignment explanation
Indices: 11977543--11977579 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
11977533 GATACAAATC
* *
11977543 AAAAA AAAAA AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
11977580 CATATATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:11988952 original size:5 final size:5
Alignment explanation
Indices: 11988944--11988969 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11988934 GATACAAATC
11988944 AAAGA AAAGA AAAGA AAAGA AAAGA A
1 AAAGA AAAGA AAAGA AAAGA AAAGA A
11988970 CATATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:11993539 original size:36 final size:34
Alignment explanation
Indices: 11993485--11993558 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
11993475 CTGGTCTAAT
*
11993485 ATGACATTCTTATATGATATATATGTTTCTGAAAAC
1 ATGACATTCTTATATG--ATATATGTTTATGAAAAC
* *
11993521 ATGACATTC-TAGTTTGATATATGTTTATGAAAAT
1 ATGACATTCTTA-TATGATATATGTTTATGAAAAC
11993555 ATGA
1 ATGA
11993559 TCTCTGATCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 20 0.59
35 2 0.06
36 12 0.35
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (34 bp):
ATGACATTCTTATATGATATATGTTTATGAAAAC
Found at i:11993608 original size:32 final size:33
Alignment explanation
Indices: 11993535--11993611 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 33
11993525 CATTCTAGTT
*
11993535 TGATATATGTTTATGAAAATATGATCTCTGATC
1 TGATATATGTTTATGAAAATATGATCTATGATC
** * *
11993568 CAAAATATGTTTA-G-AAATATGACTTTATGATC
1 TGATATATGTTTATGAAAATATGA-TCTATGATC
11993600 TGATATATGTTT
1 TGATATATGTTT
11993612 CTGGTAATAC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
31 8 0.23
32 17 0.49
33 10 0.29
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (33 bp):
TGATATATGTTTATGAAAATATGATCTATGATC
Found at i:11995905 original size:13 final size:13
Alignment explanation
Indices: 11995887--11995929 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
11995877 AATAAAAAAT
11995887 ATAAAGCAAATAC
1 ATAAAGCAAATAC
* *
11995900 ATAAAGAAAATGAA
1 ATAAAGCAAAT-AC
11995914 AT-AAGCAAATAC
1 ATAAAGCAAATAC
11995926 ATAA
1 ATAA
11995930 GTATACATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.16
Consensus pattern (13 bp):
ATAAAGCAAATAC
Found at i:11996006 original size:3 final size:3
Alignment explanation
Indices: 11995998--11996228 Score: 52
Period size: 3 Copynumber: 75.7 Consensus size: 3
11995988 AAAACGATAG
* * * *
11995998 TAA TAA TAA TAA AAA GGT-A TAA TAA T-A TAT TAGA TAG TAA -AA AAA
1 TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* *
11996043 TAA TAAA TAAA TAA -AA TAA TAA TAA TAG TAA TAA -AA -AA TGA TAA
1 TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
11996087 TAG TGA TAT TAG TAG TAA TAA TAA TAA T-A TGGAA TAA TAA TATA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--AA TAA TAA TA-A TAA
* * * * * *
11996134 CAA TAA CAA CAA TAA T-A TGAA AAA TAA GAAA TAA CAA TACA GTAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA -TAA TAA TAA TA-A -TAA TAA
* * * *
11996182 GT-T TAG TAA TAGA TCAC TAA TAA TAA TAG TAA -AA -AA TAA TAA TAA
1 -TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11996227 TA
1 TA
11996229 TATTAGTAAG
Statistics
Matches: 168, Mismatches: 37, Indels: 46
0.67 0.15 0.18
Matches are distributed among these distances:
2 20 0.12
3 121 0.72
4 22 0.13
5 5 0.03
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:11996037 original size:37 final size:36
Alignment explanation
Indices: 11995993--11996131 Score: 105
Period size: 37 Copynumber: 3.9 Consensus size: 36
11995983 TAACGAAAAC
11995993 GATAGTAATAATAATAAAAAGGTATAATAATATATTA
1 GATAGTAATAATAATAAAAA-GTATAATAATATATTA
*
11996030 GATAGTAA-AAAAATAATAAA-TA-AATAA-A-A-TA
1 GATAGTAATAATAATAA-AAAGTATAATAATATATTA
* * * *
11996061 -ATAATAATAGTAATAAAAAATGATAATAGTGATATTA
1 GATAGTAATAATAATAAAAAGT-ATAATAAT-ATATTA
** *
11996098 G-TAGTAATAATAATAATATGGAATAATAATATAT
1 GATAGTAATAATAATAA-AAAGTATAATAATATAT
11996132 ACCAATAACA
Statistics
Matches: 79, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
30 9 0.11
31 9 0.11
32 2 0.03
33 5 0.06
34 5 0.06
35 3 0.04
36 12 0.15
37 33 0.42
38 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (36 bp):
GATAGTAATAATAATAAAAAGTATAATAATATATTA
Found at i:11996060 original size:16 final size:15
Alignment explanation
Indices: 11996035--11996064 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11996025 TATTAGATAG
11996035 TAAAAAAATAATAAA
1 TAAAAAAATAATAAA
11996050 TAAATAAAATAATAA
1 TAAA-AAAATAATAA
11996065 TAATAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAAAAATAATAAA
Found at i:11996080 original size:22 final size:19
Alignment explanation
Indices: 11996036--11996088 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 19
11996026 ATTAGATAGT
11996036 AAAAA-AATAATAAATAAA
1 AAAAATAATAATAAATAAA
*
11996054 TAAAATAATAATAATAGTAATA
1 AAAAATAATAATAA-A-TAA-A
*
11996076 AAAAATGATAATA
1 AAAAATAATAATA
11996089 GTGATATTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.14
19 8 0.29
20 1 0.04
21 3 0.11
22 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAAATAATAATAAATAAA
Found at i:11996086 original size:19 final size:20
Alignment explanation
Indices: 11996031--11996090 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
11996021 AATATATTAG
*
11996031 ATAGTAAAAAAATAAT-A-A
1 ATAGTAATAAAATAATAATA
11996049 ATA--AATAAAATAATAATA
1 ATAGTAATAAAATAATAATA
*
11996067 ATAGTAATAAAA-AATGATA
1 ATAGTAATAAAATAATAATA
11996086 ATAGT
1 ATAGT
11996091 GATATTAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 10 0.28
17 1 0.03
18 7 0.19
19 11 0.31
20 7 0.19
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
ATAGTAATAAAATAATAATA
Found at i:11996251 original size:3 final size:3
Alignment explanation
Indices: 11996243--11996298 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
11996233 AGTAAGGGTA
*
11996243 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG GTG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
11996291 ATG ATG AT
1 ATG ATG AT
11996299 AATAATAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:11996303 original size:3 final size:3
Alignment explanation
Indices: 11996297--11996333 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
11996287 GGTGATGATG
* *
11996297 ATA ATA ATA ATA ATA ATA ATA AGA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11996334 CTTATATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:11997858 original size:11 final size:10
Alignment explanation
Indices: 11997832--11997870 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
11997822 TTATGTCTAA
11997832 AAAAGAATGGT
1 AAAA-AATGGT
11997843 AAAAAATTGGCT
1 AAAAAA-TGG-T
11997855 AAAAAATGGT
1 AAAAAATGGT
11997865 AAAAAA
1 AAAAAA
11997871 AAAGGCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.62, C:0.03, G:0.18, T:0.18
Consensus pattern (10 bp):
AAAAAATGGT
Found at i:11997881 original size:22 final size:22
Alignment explanation
Indices: 11997832--11997881 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
11997822 TTATGTCTAA
**
11997832 AAAAGAATGGTAAAAAATTGGCT
1 AAAA-AATGGTAAAAAAAAGGCT
11997855 AAAAAATGGTAAAAAAAAAGGCT
1 AAAAAATGGT-AAAAAAAAGGCT
11997878 AAAA
1 AAAA
11997882 TAACCATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.62, C:0.04, G:0.18, T:0.16
Consensus pattern (22 bp):
AAAAAATGGTAAAAAAAAGGCT
Found at i:12000382 original size:18 final size:17
Alignment explanation
Indices: 12000352--12000394 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
12000342 AATCTGGGCG
12000352 TGTGGGCCACACGAGAA
1 TGTGGGCCACACGAGAA
* *
12000369 TGTGGGCTCACACGGGCA
1 TGTGGGC-CACACGAGAA
12000387 TGTGGGCC
1 TGTGGGCC
12000395 CATATTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.16
Consensus pattern (17 bp):
TGTGGGCCACACGAGAA
Found at i:12000735 original size:30 final size:30
Alignment explanation
Indices: 12000701--12000786 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
12000691 AATCTTAGCT
12000701 TTTTCCACCACCAACTCCACTAGCCACACC
1 TTTTCCACCACCAACTCCACTAGCCACACC
*
12000731 TTTTCCACCACCAACTCCACTAGCCACTCC
1 TTTTCCACCACCAACTCCACTAGCCACACC
12000761 TTTTCCACCACCAACTCCACTAGCCA
1 TTTTCCACCACCAACTCCACTAGCCA
12000787 NNNNNNNNNN
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (30 bp):
TTTTCCACCACCAACTCCACTAGCCACACC
Found at i:12012189 original size:27 final size:27
Alignment explanation
Indices: 12012149--12012298 Score: 96
Period size: 25 Copynumber: 5.6 Consensus size: 27
12012139 ATTTTAAATT
12012149 CTATATTACGTGTATATATATATTTTATA
1 CTATATTA--TGTATATATATATTTTATA
* * *
12012178 CTATTTTATG--TATATATCTTTAATA
1 CTATATTATGTATATATATATTTTATA
* * *
12012203 TTATATTATTTATATATATATTTTTTTA
1 CTATATTATGTATATATATA-TTTTATA
* * * *
12012231 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTAT-GTATATATATATTTTATA
* * *
12012257 CTATATTATGTATGTAT-T-TTTAACA
1 CTATATTATGTATATATATATTTTATA
*
12012282 CTATATTATGTACATAT
1 CTATATTATGTATATAT
12012299 TTTTAATATT
Statistics
Matches: 95, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
24 3 0.03
25 37 0.39
26 9 0.09
27 24 0.25
28 15 0.16
29 7 0.07
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (27 bp):
CTATATTATGTATATATATATTTTATA
Found at i:12012211 original size:25 final size:25
Alignment explanation
Indices: 12012090--12012306 Score: 92
Period size: 25 Copynumber: 8.5 Consensus size: 25
12012080 TTGTTATTAT
*
12012090 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TTAATACTATATTATGTA
* *
12012114 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATACTATATTATGTA
* * *
12012136 TACATTTTAAATTCTATATTACGTGTA
1 TATATTTTTAATACTATATTA--TGTA
* *
12012163 TATATATATTTTATACTATTTTATGTA
1 TATAT-T-TTTAATACTATATTATGTA
* * *
12012190 TATATCTTTAATATTATATTATTTATATA
1 TATATTTTTAATA--CTA-TA-TTATGTA
** *
12012219 TATATTTTTTTACATGTTATCTTATGTA
1 TATA--TTTTTA-ATACTATATTATGTA
*
12012247 TATA-TCTT-A-ACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
* *
12012269 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
12012294 CATATTTTTAATA
1 TATATTTTTAATA
12012307 TTATCACGTA
Statistics
Matches: 142, Mismatches: 31, Indels: 39
0.67 0.15 0.18
Matches are distributed among these distances:
21 2 0.01
22 27 0.19
23 12 0.08
24 9 0.06
25 33 0.23
26 1 0.01
27 15 0.11
28 12 0.08
29 22 0.15
30 2 0.01
31 5 0.04
32 2 0.01
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:12012213 original size:30 final size:30
Alignment explanation
Indices: 12012173--12012254 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 30
12012163 TATATATATT
*
12012173 TTATACTATTTTATGTATATATCTTTAATA
1 TTATATTATTTTATGTATATATCTTTAATA
* **
12012203 TTATATTA-TTTATATATATAT-TTTTTTA
1 TTATATTATTTTATGTATATATCTTTAATA
* * *
12012231 -CATGTTATCTTATGTATATATCTT
1 TTATATTATTTTATGTATATATCTT
12012255 AACTATATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.12
28 16 0.38
29 14 0.33
30 7 0.17
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (30 bp):
TTATATTATTTTATGTATATATCTTTAATA
Found at i:12012483 original size:16 final size:15
Alignment explanation
Indices: 12012459--12012506 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
12012449 TAATTATTAT
*
12012459 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
12012475 TATTTTAATATTTTA
1 TATTTTAATATTTTA
12012490 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
12012506 T
1 T
12012507 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:12012494 original size:7 final size:8
Alignment explanation
Indices: 12012459--12012510 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
12012449 TAATTATTAT
*
12012459 TATTCTAA
1 TATTTTAA
*
12012467 TATTTTGA
1 TATTTTAA
12012475 TATTTTAA
1 TATTTTAA
12012483 TATTTT-A
1 TATTTTAA
12012490 TATTTTATA
1 TATTTTA-A
*
12012499 TATTTTAT
1 TATTTTAA
12012507 TATT
1 TATT
12012511 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:12014820 original size:21 final size:22
Alignment explanation
Indices: 12014782--12014822 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12014772 TAAAATTTTA
12014782 AAATATTTAAAAATTAATTAAT
1 AAATATTTAAAAATTAATTAAT
*
12014804 AAATTTTTAAAAA-TAATTA
1 AAATATTTAAAAATTAATTA
12014823 TTATTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATATTTAAAAATTAATTAAT
Found at i:12024110 original size:18 final size:19
Alignment explanation
Indices: 12024087--12024124 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
12024077 TAATAGTAGT
12024087 AATAATAATA-AAGTAATA
1 AATAATAATATAAGTAATA
* *
12024105 AATAATGATATTAGTAATA
1 AATAATAATATAAGTAATA
12024124 A
1 A
12024125 GTTAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (19 bp):
AATAATAATATAAGTAATA
Found at i:12024219 original size:24 final size:24
Alignment explanation
Indices: 12024154--12024219 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
12024144 AAGTAATAGA
*
12024154 TAAATAA-ATATAAAAAGGAAGGTG
1 TAAATAATA-ATAAAAATGAAGGTG
* * *
12024178 TATAAT-ATAACAATAATGATGGTG
1 TA-AATAATAATAAAAATGAAGGTG
12024202 TAAATAATAATAAAAATG
1 TAAATAATAATAAAAATG
12024220 GCATTAGGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
23 3 0.09
24 26 0.79
25 4 0.12
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (24 bp):
TAAATAATAATAAAAATGAAGGTG
Found at i:12024244 original size:6 final size:6
Alignment explanation
Indices: 12024229--12024260 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
12024219 GGCATTAGGG
12024229 TAAA-A TAAATA TAAATA TAAATA TAAATA TAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAA
12024261 TGATAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:12024494 original size:3 final size:3
Alignment explanation
Indices: 12024488--12024521 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
12024478 ATACCAAGGG
* *
12024488 TAA TAA TAA TAA TAA TAA TAA TAG TAC TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12024522 GATGATAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12024529 original size:18 final size:18
Alignment explanation
Indices: 12024497--12024531 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12024487 GTAATAATAA
12024497 TAATAATAATAATAGTAC
1 TAATAATAATAATAGTAC
* *
12024515 TAATAATGATGATAGTA
1 TAATAATAATAATAGTA
12024532 AATATAATGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
TAATAATAATAATAGTAC
Found at i:12024703 original size:3 final size:3
Alignment explanation
Indices: 12024695--12024810 Score: 71
Period size: 3 Copynumber: 38.7 Consensus size: 3
12024685 AGAAAGAGAG
* *
12024695 ATA ATA ATA ATA ATA ATA ATA ATA ACA TATA TATA A-A ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA
* * * *
12024741 GTTA GA-A ATA A-A A-A ATA ATA GA-A GTA ATA ATA ATA ATG GTA ATA
1 -ATA -ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * *
12024785 AAA ATA AAA ATA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
12024811 GAGTTAAGTT
Statistics
Matches: 88, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
2 7 0.08
3 72 0.82
4 9 0.10
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:12027017 original size:21 final size:21
Alignment explanation
Indices: 12026991--12027035 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
12026981 TTTATGAGAA
*
12026991 TTAAAATA-TAAATTTAAAATT
1 TTAAAAGATTAAA-TTAAAATT
*
12027012 TTAAAAGATTAAATTATAATT
1 TTAAAAGATTAAATTAAAATT
12027033 TTA
1 TTA
12027036 TTATTTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAAAGATTAAATTAAAATT
Found at i:12027955 original size:25 final size:25
Alignment explanation
Indices: 12027921--12027970 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
12027911 AAAGAAAGAA
12027921 AATTTGACTCGCCTTATTTCATTGC
1 AATTTGACTCGCCTTATTTCATTGC
12027946 AATTTGACTCGCCTTATTTCATTGC
1 AATTTGACTCGCCTTATTTCATTGC
12027971 CATTGATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (25 bp):
AATTTGACTCGCCTTATTTCATTGC
Found at i:12028026 original size:21 final size:19
Alignment explanation
Indices: 12027996--12028038 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
12027986 TGAAGATAAA
*
12027996 ATTTTAAAAATTAATTAATAT
1 ATTTTAAAAAATAA-TAAT-T
*
12028017 ATTTTTAAAAATAATAATT
1 ATTTTAAAAAATAATAATT
12028036 ATT
1 ATT
12028039 GATAAAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTAAAAAATAATAATT
Found at i:12028147 original size:25 final size:25
Alignment explanation
Indices: 12028119--12028174 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
12028109 TATTATTTAA
12028119 AAAAATAAGTTCCTAAAAAGATACC
1 AAAAATAAGTTCCTAAAAAGATACC
12028144 AAAAATAAGTTCCTAAAAAGATACC
1 AAAAATAAGTTCCTAAAAAGATACC
12028169 AAAAAT
1 AAAAAT
12028175 CCAGTCATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.20
Consensus pattern (25 bp):
AAAAATAAGTTCCTAAAAAGATACC
Found at i:12028215 original size:8 final size:8
Alignment explanation
Indices: 12028202--12028228 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
12028192 AGCAATATAA
12028202 TAAAGAAG
1 TAAAGAAG
12028210 TAAAGAAG
1 TAAAGAAG
12028218 TAAAGAAG
1 TAAAGAAG
12028226 TAA
1 TAA
12028229 TGGCAAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (8 bp):
TAAAGAAG
Found at i:12031332 original size:43 final size:43
Alignment explanation
Indices: 12031285--12031372 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
12031275 TAAAACCATT
* ** *
12031285 ATAATTTGTAAAAATATTTT-TTTTAAATTCCATTTGGTTTTTA
1 ATAATTCGTAAAAATATTTTAAATAAAATT-CATTTGGTTTTTA
*
12031328 ATAATTCGTAAAATTATTTTAAATAAAATTCATTTGGTTTTTA
1 ATAATTCGTAAAAATATTTTAAATAAAATTCATTTGGTTTTTA
12031371 AT
1 AT
12031373 TTTATAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 33 0.85
44 6 0.15
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (43 bp):
ATAATTCGTAAAAATATTTTAAATAAAATTCATTTGGTTTTTA
Found at i:12033102 original size:13 final size:14
Alignment explanation
Indices: 12033086--12033126 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
12033076 TTTACAGATA
12033086 CAGATA-ACAGAAT
1 CAGATATACAGAAT
12033099 CAGATATACAGAA-
1 CAGATATACAGAAT
* *
12033112 CAGGTATATAGAAT
1 CAGATATACAGAAT
12033126 C
1 C
12033127 CTACCCCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 17 0.71
14 7 0.29
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:12044207 original size:18 final size:18
Alignment explanation
Indices: 12044184--12044229 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
12044174 TAAATTCACA
12044184 CTTTTTGCCTGCAAATTT
1 CTTTTTGCCTGCAAATTT
12044202 CTTTTTGCCTGCAAATTT
1 CTTTTTGCCTGCAAATTT
*
12044220 CCTTTTGCCT
1 CTTTTTGCCT
12044230 TTAATTCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.26, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTTTTGCCTGCAAATTT
Found at i:12046842 original size:62 final size:62
Alignment explanation
Indices: 12046745--12046868 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
12046735 TTGAAAAATC
*
12046745 AAATGTTAGTGTATACAGTTTTGGCATTTTTTATGACACATGGCATAGAAGACTTGGCTATT
1 AAATGTTAGTGTATACAGTGTTGGCATTTTTTATGACACATGGCATAGAAGACTTGGCTATT
* *
12046807 AAATGTTAGTGTATACAGTGTTGGCGTTTTTTATGACACATGGCATAGAAGACTTGGTTATT
1 AAATGTTAGTGTATACAGTGTTGGCATTTTTTATGACACATGGCATAGAAGACTTGGCTATT
12046869 CTCTTCAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (62 bp):
AAATGTTAGTGTATACAGTGTTGGCATTTTTTATGACACATGGCATAGAAGACTTGGCTATT
Found at i:12048886 original size:25 final size:21
Alignment explanation
Indices: 12048839--12048882 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
12048829 TGTGTAGGAG
12048839 TTATTTAGTTTGTTTTTATGA
1 TTATTTAGTTTGTTTTTATGA
*
12048860 TTATTTAGTTTGTTGTTATGA
1 TTATTTAGTTTGTTTTTATGA
12048881 TT
1 TT
12048883 GATTGTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.16, T:0.66
Consensus pattern (21 bp):
TTATTTAGTTTGTTTTTATGA
Found at i:12062859 original size:36 final size:36
Alignment explanation
Indices: 12062830--12062899 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
12062820 TTACTAAACC
*
12062830 CAAGATATCATAATATATTTATATAGTTACAAGACA
1 CAAGATATAATAATATATTTATATAGTTACAAGACA
* * *
12062866 CAAGGTATAATAATATATTTATATAATCACAAGA
1 CAAGATATAATAATATATTTATATAGTTACAAGA
12062900 AACCAAACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.33
Consensus pattern (36 bp):
CAAGATATAATAATATATTTATATAGTTACAAGACA
Found at i:12068200 original size:20 final size:20
Alignment explanation
Indices: 12068175--12068213 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12068165 TTTCCTCCCC
12068175 ATGTTGCTTTCCGACCAAAT
1 ATGTTGCTTTCCGACCAAAT
*
12068195 ATGTTGCTTTCTGACCAAA
1 ATGTTGCTTTCCGACCAAA
12068214 CAATGAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGTTGCTTTCCGACCAAAT
Found at i:12068612 original size:21 final size:21
Alignment explanation
Indices: 12068587--12068628 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
12068577 ACCTGTTTAG
12068587 TGCCTTCAATCTCTAATCTAA
1 TGCCTTCAATCTCTAATCTAA
*
12068608 TGCCTTTAATCTCTAATCTAA
1 TGCCTTCAATCTCTAATCTAA
12068629 CACTTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (21 bp):
TGCCTTCAATCTCTAATCTAA
Found at i:12070548 original size:672 final size:672
Alignment explanation
Indices: 12069265--12070600 Score: 2672
Period size: 672 Copynumber: 2.0 Consensus size: 672
12069255 GATTATTTCT
12069265 CCTTTTTTCATTTCCAACACCTCAAATTCTCTTCTTAAGGTGTTGAGAAGAGACCTTTTTACTCT
1 CCTTTTTTCATTTCCAACACCTCAAATTCTCTTCTTAAGGTGTTGAGAAGAGACCTTTTTACTCT
12069330 CTCATTTCCACCAAACTTGCTCTTCAAAGAATTCCCCAAACAATTTTGGAGGTTCATATGTCCGA
66 CTCATTTCCACCAAACTTGCTCTTCAAAGAATTCCCCAAACAATTTTGGAGGTTCATATGTCCGA
12069395 AATCCACTAAAAAATAACACGATCTATGGCTTGATATAGATAGTGTTTGACCCTGTGATCCTTCA
131 AATCCACTAAAAAATAACACGATCTATGGCTTGATATAGATAGTGTTTGACCCTGTGATCCTTCA
12069460 TCTTTATCTCGTCTGCCTGTGTCTGTTGCGCGACGGTCTGCACAATCATTGTTTCAGGCTCTTCG
196 TCTTTATCTCGTCTGCCTGTGTCTGTTGCGCGACGGTCTGCACAATCATTGTTTCAGGCTCTTCG
12069525 AAGACTTTCTCAACTAGGTTCCATAGTCCTTTGGACCTTAATAGATTCTCCATCAGCTCACTCCA
261 AAGACTTTCTCAACTAGGTTCCATAGTCCTTTGGACCTTAATAGATTCTCCATCAGCTCACTCCA
12069590 ATGGTCGTAATGAAAACCATCAAAAGAGGAATCTTTGTAAAACTACCTTCACTCTTTTCTTCACC
326 ATGGTCGTAATGAAAACCATCAAAAGAGGAATCTTTGTAAAACTACCTTCACTCTTTTCTTCACC
12069655 CATATCCACTTATTTCCTCAACAACCTAATTCAGATACCAAAATGTTAAGTATAAAATCAAGTGG
391 CATATCCACTTATTTCCTCAACAACCTAATTCAGATACCAAAATGTTAAGTATAAAATCAAGTGG
12069720 AAACTGGGCATTAAGTGTCATATTTATTGAAGATAGAAAGCTAGCTTTTATAGCCTTACAAATAA
456 AAACTGGGCATTAAGTGTCATATTTATTGAAGATAGAAAGCTAGCTTTTATAGCCTTACAAATAA
12069785 AAAATATAGAATCACAACTAACACCTATATCACCTATAAACAAGTATCACCACTAGTTTAAACAA
521 AAAATATAGAATCACAACTAACACCTATATCACCTATAAACAAGTATCACCACTAGTTTAAACAA
12069850 ATGTAGAAAGTTGTTCCTAAAGAATAGGACTTATTGAAACAGAAAAACAACTTTGAAAACACTAA
586 ATGTAGAAAGTTGTTCCTAAAGAATAGGACTTATTGAAACAGAAAAACAACTTTGAAAACACTAA
12069915 ATAATTCAAACAATTCCTCCCA
651 ATAATTCAAACAATTCCTCCCA
12069937 CCTTTTTTCATTTCCAACACCTCAAATTCTCTTCTTAAGGTGTTGAGAAGAGACCTTTTTACTCT
1 CCTTTTTTCATTTCCAACACCTCAAATTCTCTTCTTAAGGTGTTGAGAAGAGACCTTTTTACTCT
12070002 CTCATTTCCACCAAACTTGCTCTTCAAAGAATTCCCCAAACAATTTTGGAGGTTCATATGTCCGA
66 CTCATTTCCACCAAACTTGCTCTTCAAAGAATTCCCCAAACAATTTTGGAGGTTCATATGTCCGA
12070067 AATCCACTAAAAAATAACACGATCTATGGCTTGATATAGATAGTGTTTGACCCTGTGATCCTTCA
131 AATCCACTAAAAAATAACACGATCTATGGCTTGATATAGATAGTGTTTGACCCTGTGATCCTTCA
12070132 TCTTTATCTCGTCTGCCTGTGTCTGTTGCGCGACGGTCTGCACAATCATTGTTTCAGGCTCTTCG
196 TCTTTATCTCGTCTGCCTGTGTCTGTTGCGCGACGGTCTGCACAATCATTGTTTCAGGCTCTTCG
12070197 AAGACTTTCTCAACTAGGTTCCATAGTCCTTTGGACCTTAATAGATTCTCCATCAGCTCACTCCA
261 AAGACTTTCTCAACTAGGTTCCATAGTCCTTTGGACCTTAATAGATTCTCCATCAGCTCACTCCA
12070262 ATGGTCGTAATGAAAACCATCAAAAGAGGAATCTTTGTAAAACTACCTTCACTCTTTTCTTCACC
326 ATGGTCGTAATGAAAACCATCAAAAGAGGAATCTTTGTAAAACTACCTTCACTCTTTTCTTCACC
12070327 CATATCCACTTATTTCCTCAACAACCTAATTCAGATACCAAAATGTTAAGTATAAAATCAAGTGG
391 CATATCCACTTATTTCCTCAACAACCTAATTCAGATACCAAAATGTTAAGTATAAAATCAAGTGG
12070392 AAACTGGGCATTAAGTGTCATATTTATTGAAGATAGAAAGCTAGCTTTTATAGCCTTACAAATAA
456 AAACTGGGCATTAAGTGTCATATTTATTGAAGATAGAAAGCTAGCTTTTATAGCCTTACAAATAA
12070457 AAAATATAGAATCACAACTAACACCTATATCACCTATAAACAAGTATCACCACTAGTTTAAACAA
521 AAAATATAGAATCACAACTAACACCTATATCACCTATAAACAAGTATCACCACTAGTTTAAACAA
12070522 ATGTAGAAAGTTGTTCCTAAAGAATAGGACTTATTGAAACAGAAAAACAACTTTGAAAACACTAA
586 ATGTAGAAAGTTGTTCCTAAAGAATAGGACTTATTGAAACAGAAAAACAACTTTGAAAACACTAA
12070587 ATAATTCAAACAAT
651 ATAATTCAAACAAT
12070601 CGGACTCAAT
Statistics
Matches: 664, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
672 664 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (672 bp):
CCTTTTTTCATTTCCAACACCTCAAATTCTCTTCTTAAGGTGTTGAGAAGAGACCTTTTTACTCT
CTCATTTCCACCAAACTTGCTCTTCAAAGAATTCCCCAAACAATTTTGGAGGTTCATATGTCCGA
AATCCACTAAAAAATAACACGATCTATGGCTTGATATAGATAGTGTTTGACCCTGTGATCCTTCA
TCTTTATCTCGTCTGCCTGTGTCTGTTGCGCGACGGTCTGCACAATCATTGTTTCAGGCTCTTCG
AAGACTTTCTCAACTAGGTTCCATAGTCCTTTGGACCTTAATAGATTCTCCATCAGCTCACTCCA
ATGGTCGTAATGAAAACCATCAAAAGAGGAATCTTTGTAAAACTACCTTCACTCTTTTCTTCACC
CATATCCACTTATTTCCTCAACAACCTAATTCAGATACCAAAATGTTAAGTATAAAATCAAGTGG
AAACTGGGCATTAAGTGTCATATTTATTGAAGATAGAAAGCTAGCTTTTATAGCCTTACAAATAA
AAAATATAGAATCACAACTAACACCTATATCACCTATAAACAAGTATCACCACTAGTTTAAACAA
ATGTAGAAAGTTGTTCCTAAAGAATAGGACTTATTGAAACAGAAAAACAACTTTGAAAACACTAA
ATAATTCAAACAATTCCTCCCA
Found at i:12079613 original size:598 final size:598
Alignment explanation
Indices: 12078478--12079674 Score: 2394
Period size: 598 Copynumber: 2.0 Consensus size: 598
12078468 TCAAAAAAAA
12078478 CGAAGAAGAATCCTCTGAACGAAGGCCTGGGGTGAGTTCCCGAAGTGCTATCGTGCCTCCGTCCA
1 CGAAGAAGAATCCTCTGAACGAAGGCCTGGGGTGAGTTCCCGAAGTGCTATCGTGCCTCCGTCCA
12078543 GGGGTTTGTACGCGCTCACTCACCCTCGTCTACACCGCCATATACGGCAATCGGAAACTGGAAAA
66 GGGGTTTGTACGCGCTCACTCACCCTCGTCTACACCGCCATATACGGCAATCGGAAACTGGAAAA
12078608 TTTTCTTTTTGTTCATCTTCTAGCACAGTTATTTCTCTTTTATAAGAGCTACCTTCAAAAATTTG
131 TTTTCTTTTTGTTCATCTTCTAGCACAGTTATTTCTCTTTTATAAGAGCTACCTTCAAAAATTTG
12078673 TAGCTCTTTATTATCTATAAAGCCTTGCACCAAGGCTCTGAATTCTTCACAATTTTGGGTCTCAT
196 TAGCTCTTTATTATCTATAAAGCCTTGCACCAAGGCTCTGAATTCTTCACAATTTTGGGTCTCAT
12078738 GACCCTCTTCTCCATGGAACTCACAGTTGTTCCCCGTTTTTTCTCTTTCTCTCCTAGAGGTTATC
261 GACCCTCTTCTCCATGGAACTCACAGTTGTTCCCCGTTTTTTCTCTTTCTCTCCTAGAGGTTATC
12078803 ATCCCTCTCTTCATCATCTCCTCCCAAATCACTTTCATAGGCATCCTCACCTCCGCAATATTTTC
326 ATCCCTCTCTTCATCATCTCCTCCCAAATCACTTTCATAGGCATCCTCACCTCCGCAATATTTTC
12078868 CTTCATCCTTCTCTCACTAGCTTCGCCAATGGCATTCACTTCTTGATCGTCGTGATTTGGTAAAG
391 CTTCATCCTTCTCTCACTAGCTTCGCCAATGGCATTCACTTCTTGATCGTCGTGATTTGGTAAAG
12078933 GGTTTTCAGTATTTGGGGTACTATCAAATTTCACAACCCCCATCTTGATCAACCACTCCACGGCC
456 GGTTTTCAGTATTTGGGGTACTATCAAATTTCACAACCCCCATCTTGATCAACCACTCCACGGCC
12078998 TTCTTGAATCCAATACAATTTTTAATTGAGTGCCCCGATATTCCAGCGTGGTACTCGCATCTGGC
521 TTCTTGAATCCAATACAATTTTTAATTGAGTGCCCCGATATTCCAGCGTGGTACTCGCATCTGGC
12079063 GTTTGTATCATAC
586 GTTTGTATCATAC
12079076 CGAAGAAGAATCCTCTGAACGAAGGCCTGGGGTGAGTTCCCGAAGTGCTATCGTGCCTCCGTCCA
1 CGAAGAAGAATCCTCTGAACGAAGGCCTGGGGTGAGTTCCCGAAGTGCTATCGTGCCTCCGTCCA
12079141 GGGGTTTGTACGCGCTCACTCACCCTCGTCTACACCGCCATATACGGCAATCGGAAACTGGAAAA
66 GGGGTTTGTACGCGCTCACTCACCCTCGTCTACACCGCCATATACGGCAATCGGAAACTGGAAAA
12079206 TTTTCTTTTTGTTCATCTTCTAGCACAGTTATTTCTCTTTTATAAGAGCTACCTTCAAAAATTTG
131 TTTTCTTTTTGTTCATCTTCTAGCACAGTTATTTCTCTTTTATAAGAGCTACCTTCAAAAATTTG
12079271 TAGCTCTTTATTATCTATAAAGCCTTGCACCAAGGCTCTGAATTCTTCACAATTTTGGGTCTCAT
196 TAGCTCTTTATTATCTATAAAGCCTTGCACCAAGGCTCTGAATTCTTCACAATTTTGGGTCTCAT
12079336 GACCCTCTTCTCCATGGAACTCACAGTTGTTCCCCGTTTTTTCTCTTTCTCTCCTAGAGGTTATC
261 GACCCTCTTCTCCATGGAACTCACAGTTGTTCCCCGTTTTTTCTCTTTCTCTCCTAGAGGTTATC
12079401 ATCCCTCTCTTCATCATCTCCTCCCAAATCACTTTCATAGGCATCCTCACCTCCGCAATATTTTC
326 ATCCCTCTCTTCATCATCTCCTCCCAAATCACTTTCATAGGCATCCTCACCTCCGCAATATTTTC
12079466 CTTCATCCTTCTCTCACTAGCTTCGCCAATGGCATTCACTTCTTGATCGTCGTGATTTGGTAAAG
391 CTTCATCCTTCTCTCACTAGCTTCGCCAATGGCATTCACTTCTTGATCGTCGTGATTTGGTAAAG
12079531 GGTTTTCAGTATTTGGGGTACTATCAAATTTCACAACCCCCATCTTGATCAACCACTCCACGGCC
456 GGTTTTCAGTATTTGGGGTACTATCAAATTTCACAACCCCCATCTTGATCAACCACTCCACGGCC
12079596 TTCTTGAATCCAATACAATTTTTAATTGAGTGCCCCGATATTCCAGCGTGGTACTCGCATCTGGC
521 TTCTTGAATCCAATACAATTTTTAATTGAGTGCCCCGATATTCCAGCGTGGTACTCGCATCTGGC
12079661 GTTTGTATCATAC
586 GTTTGTATCATAC
12079674 C
1 C
12079675 ATTTAGGATA
Statistics
Matches: 599, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
598 599 1.00
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (598 bp):
CGAAGAAGAATCCTCTGAACGAAGGCCTGGGGTGAGTTCCCGAAGTGCTATCGTGCCTCCGTCCA
GGGGTTTGTACGCGCTCACTCACCCTCGTCTACACCGCCATATACGGCAATCGGAAACTGGAAAA
TTTTCTTTTTGTTCATCTTCTAGCACAGTTATTTCTCTTTTATAAGAGCTACCTTCAAAAATTTG
TAGCTCTTTATTATCTATAAAGCCTTGCACCAAGGCTCTGAATTCTTCACAATTTTGGGTCTCAT
GACCCTCTTCTCCATGGAACTCACAGTTGTTCCCCGTTTTTTCTCTTTCTCTCCTAGAGGTTATC
ATCCCTCTCTTCATCATCTCCTCCCAAATCACTTTCATAGGCATCCTCACCTCCGCAATATTTTC
CTTCATCCTTCTCTCACTAGCTTCGCCAATGGCATTCACTTCTTGATCGTCGTGATTTGGTAAAG
GGTTTTCAGTATTTGGGGTACTATCAAATTTCACAACCCCCATCTTGATCAACCACTCCACGGCC
TTCTTGAATCCAATACAATTTTTAATTGAGTGCCCCGATATTCCAGCGTGGTACTCGCATCTGGC
GTTTGTATCATAC
Found at i:12090452 original size:15 final size:16
Alignment explanation
Indices: 12090423--12090459 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
12090413 CGAACGATGC
12090423 GATG-AAATGCAATGA
1 GATGCAAATGCAATGA
12090438 GATGCAAATGC-ATGA
1 GATGCAAATGCAATGA
12090453 -ATGCAAA
1 GATGCAAA
12090460 AAGGACATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (16 bp):
GATGCAAATGCAATGA
Found at i:12094626 original size:26 final size:28
Alignment explanation
Indices: 12094576--12094630 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
12094566 ATAGAAGATG
*
12094576 AAATATATACACAATATAATAATATAAT
1 AAATATATACACAATATAAAAATATAAT
*
12094604 AAATA-ATACA-AATTTAAAAATATAAT
1 AAATATATACACAATATAAAAATATAAT
12094630 A
1 A
12094631 CTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.60
27 5 0.20
28 5 0.20
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (28 bp):
AAATATATACACAATATAAAAATATAAT
Found at i:12096876 original size:22 final size:22
Alignment explanation
Indices: 12096846--12096892 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
12096836 TTCCAAGGTA
12096846 TATCCAATTAATGTCGCCAATG
1 TATCCAATTAATGTCGCCAATG
*
12096868 TATCTAATTAATGTCGCCAATG
1 TATCCAATTAATGTCGCCAATG
12096890 TAT
1 TAT
12096893 ATCTCAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (22 bp):
TATCCAATTAATGTCGCCAATG
Found at i:12097807 original size:24 final size:24
Alignment explanation
Indices: 12097780--12097827 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12097770 GACTATGAAG
*
12097780 ATAAAGTATTTAAAAA-ATTAATTA
1 ATAAA-TATTTAAAAATAATAATTA
*
12097804 ATAAATTTTTAAAAATAATAATTA
1 ATAAATATTTAAAAATAATAATTA
12097828 TTGATAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
ATAAATATTTAAAAATAATAATTA
Found at i:12101094 original size:160 final size:151
Alignment explanation
Indices: 12100824--12101164 Score: 472
Period size: 160 Copynumber: 2.2 Consensus size: 151
12100814 TATATTTTCT
* * *
12100824 AACATTACATTGATATTTTCTAACATTTGAGCAAGGGCAGTTTGACACTCAATCCAAATTTAACG
1 AACATTACATTGATATTTTTTAACATTTAAGCAAGGGCAGTTTGACAATCAATCCAAATTTAACG
12100889 AAACTAAAAATCAAATACAAAAATAATGCTTTTGTTTTTTGAAATGACTGAATATTTGACTTTTC
66 AAACTAAAAATCAAATACAAAAATAATGCTTTTGTTTTTTGAAATGACTGAATATTTGAC--TTC
* *
12100954 TCTTTCTTTTGATGTAATTTTG-
129 TCTTTCCTTTCATGTAATTTTGA
*
12100976 AACAATTACATTGATATTTTTTAACATTTAAGCAAGGG-GGTTTGACAATCAATCCAAATTTAAT
1 AAC-ATTACATTGATATTTTTTAACATTTAAGCAAGGGCAGTTTGACAATCAATCCAAATTT-A-
* *
12101040 GACTAAAAGAAACTAAAAATCAAATACTAAAGTAATGCTTTTGTTTTTTGAAATGACTGAATATT
63 -AC-----GAAACTAAAAATCAAATACAAAAATAATGCTTTTGTTTTTTGAAATGACTGAATATT
*
12101105 TGACTTCTCTTTCCTTTCATGTCATTTTGA
122 TGACTTCTCTTTCCTTTCATGTAATTTTGA
12101135 AACATTACATTGATATTTTCTT-ACATTTAA
1 AACATTACATTGATATTTT-TTAACATTTAA
12101165 TATATATATT
Statistics
Matches: 169, Mismatches: 9, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
152 24 0.14
153 33 0.20
155 2 0.01
158 46 0.27
159 5 0.03
160 59 0.35
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (151 bp):
AACATTACATTGATATTTTTTAACATTTAAGCAAGGGCAGTTTGACAATCAATCCAAATTTAACG
AAACTAAAAATCAAATACAAAAATAATGCTTTTGTTTTTTGAAATGACTGAATATTTGACTTCTC
TTTCCTTTCATGTAATTTTGA
Found at i:12103192 original size:24 final size:24
Alignment explanation
Indices: 12103147--12103193 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12103137 ATTTAGTAGT
*
12103147 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTAATTAGC
12103171 ATAATATATTTTA-CATTAATTAG
1 ATAATATA-TTTAGCATTAATTAG
12103194 AATTAGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAGCATTAATTAGC
Found at i:12103332 original size:27 final size:25
Alignment explanation
Indices: 12103288--12103342 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
12103278 TTCCTCTCCC
12103288 CGTGATTTTTCTCGAAAGAGTTTCAA
1 CGTGATTTTTCTCGAAAG-GTTTCAA
* * *
12103314 CGTGGTTTTTCTTGAAAAGGTTTCCA
1 CGTGATTTTTCTCG-AAAGGTTTCAA
12103340 CGT
1 CGT
12103343 AAAACCTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (25 bp):
CGTGATTTTTCTCGAAAGGTTTCAA
Found at i:12103571 original size:20 final size:21
Alignment explanation
Indices: 12103537--12103586 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
12103527 TGTCACTAAA
*
12103537 TAATCAAATTAAATTTATTTT
1 TAATCAAATTAAATTAATTTT
12103558 TAATCAAA-TAAATTAATTTT
1 TAATCAAATTAAATTAATTTT
*
12103578 TGA-CAAATT
1 TAATCAAATT
12103587 TGGATGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 8 0.31
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (21 bp):
TAATCAAATTAAATTAATTTT
Found at i:12103678 original size:12 final size:12
Alignment explanation
Indices: 12103661--12103693 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
12103651 TTCCCTGTAA
12103661 AATAGTAAAAAT
1 AATAGTAAAAAT
*
12103673 AATAGTAAAAGT
1 AATAGTAAAAAT
12103685 AATAGTAAA
1 AATAGTAAA
12103694 GGCGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:12105115 original size:30 final size:30
Alignment explanation
Indices: 12105076--12105132 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
12105066 TTTTATAAGT
12105076 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
12105106 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
12105133 AACAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:12105363 original size:13 final size:13
Alignment explanation
Indices: 12105306--12105371 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
12105296 TTTAAACCAA
*
12105306 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
**
12105319 ACTCCTCAAAAGC
1 ACTTTTCAAAAGC
* *
12105332 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
* *
12105345 ATTTTTCAAAAAC
1 ACTTTTCAAAAGC
12105358 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
12105371 A
1 A
12105372 TTGCCAAACT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:12111200 original size:14 final size:16
Alignment explanation
Indices: 12111181--12111212 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12111171 CATAAAGTGC
12111181 AATAAA-CC-ACAATT
1 AATAAATCCAACAATT
12111195 AATAAATCCAACAATT
1 AATAAATCCAACAATT
12111211 AA
1 AA
12111213 ATACAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATCCAACAATT
Found at i:12121372 original size:7 final size:7
Alignment explanation
Indices: 12121360--12121399 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
12121350 AAATAGTATT
12121360 TAATATA
1 TAATATA
12121367 TAATATA
1 TAATATA
12121374 TAATATA
1 TAATATA
12121381 TAATATA
1 TAATATA
12121388 TAATATA
1 TAATATA
12121395 TAATA
1 TAATA
12121400 ACAAGAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:12121409 original size:21 final size:21
Alignment explanation
Indices: 12121364--12121409 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
12121354 AGTATTTAAT
* *
12121364 ATATAATATATAATATATAAT
1 ATATAATATATAATATACAAA
12121385 ATATAATATATAATA-ACAAGA
1 ATATAATATATAATATACAA-A
12121406 ATAT
1 ATAT
12121410 TTATAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATAATATATAATATACAAA
Found at i:12121722 original size:12 final size:13
Alignment explanation
Indices: 12121676--12121725 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
12121666 CAAGTAAAAC
12121676 ATAATAAATATTAT
1 ATAATAAATA-TAT
12121690 ATAATAAA-ATAT
1 ATAATAAATATAT
***
12121702 ATGGGAAATA-AT
1 ATAATAAATATAT
12121714 ATAATAAATATA
1 ATAATAAATATA
12121726 GCATATAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
12 17 0.61
13 3 0.11
14 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (13 bp):
ATAATAAATATAT
Found at i:12121802 original size:20 final size:21
Alignment explanation
Indices: 12121755--12121819 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
12121745 TATATGTAAA
* *
12121755 AATAATATGTATAAATA-AAT
1 AATAATATATATAAAAATAAT
* *
12121775 GTATAATATATGTAAAAAT-AT
1 -AATAATATATATAAAAATAAT
*
12121796 AATAATATATATATAAATAAT
1 AATAATATATATAAAAATAAT
12121817 AAT
1 AAT
12121820 TATGAGAGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (21 bp):
AATAATATATATAAAAATAAT
Found at i:12121936 original size:19 final size:19
Alignment explanation
Indices: 12121900--12121949 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
12121890 GAAATAAAAT
*
12121900 TAAAATAAA-ACA-AATAA
1 TAAAATAAATATAGAATAA
*
12121917 TAAAATATATATAGAATAA
1 TAAAATAAATATAGAATAA
12121936 TAAAATAAATATAG
1 TAAAATAAATATAG
12121950 GACTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 8 0.29
18 2 0.07
19 18 0.64
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:12123740 original size:84 final size:83
Alignment explanation
Indices: 12123569--12123793 Score: 319
Period size: 84 Copynumber: 2.7 Consensus size: 83
12123559 CCAAATCAGT
* * * * * * *
12123569 TATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC-TGGAGTTTATTTGAGAAC
1 TATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGGA-TTTGTTTGAGAAC
12123633 ATCTGAGAGTTAAATCTAC
65 ATCTGAGAGTTAAATCTAC
*
12123652 TATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGTCAAATCATCTTGGATTCTGTTTGAGAAC
1 TATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGGATT-TGTTTGAGAAC
*
12123717 ATCTGATA-TTCAAATCTAC
65 ATCTGAGAGTT-AAATCTAC
*
12123736 TATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATTTGTTT
1 TATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGGATTTGTTT
12123794 CAGTATAAAC
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
83 48 0.38
84 80 0.62
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (83 bp):
TATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGGATTTGTTTGAGAACA
TCTGAGAGTTAAATCTAC
Found at i:12123919 original size:119 final size:119
Alignment explanation
Indices: 12123708--12124064 Score: 678
Period size: 119 Copynumber: 3.0 Consensus size: 119
12123698 TTGGATTCTG
* * *
12123708 TTTGAGAACATCTGATATTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
12123773 CAAATCATCTTGGATTTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATTTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
*
12123827 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTTCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
12123892 CAAATCATCTTGGATTTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATTTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
12123946 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
12124011 CAAATCATCTTGGATTTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATTTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
12124065 CTGCGGCCTA
Statistics
Matches: 233, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 233 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATTTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
Found at i:12130454 original size:30 final size:30
Alignment explanation
Indices: 12130420--12130524 Score: 183
Period size: 30 Copynumber: 3.5 Consensus size: 30
12130410 TAAATCTTAG
12130420 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
12130450 CCTTTTCCACCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
12130480 CTTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
12130510 CCTTCTCCACCACCA
1 CCTTTTCCACCACCA
12130525 CTTGTACCTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.25, C:0.50, G:0.03, T:0.22
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:12131045 original size:23 final size:23
Alignment explanation
Indices: 12131008--12131139 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
12130998 CCTTTTTTGT
12131008 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
12131031 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
12131053 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
12131076 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
12131103 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
12131128 TATTATTTATAT
1 TATTATATATAT
12131140 ATATTTTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:12131113 original size:25 final size:25
Alignment explanation
Indices: 12131085--12131225 Score: 83
Period size: 25 Copynumber: 5.5 Consensus size: 25
12131075 ATATTACGTA
*
12131085 TATATATATTTTATACTATTTTATG
1 TATATATATTTTATACTATATTATG
* * * *
12131110 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATG
* * *
12131135 TATATATATTTTTTTTTAC-ATGTTATCT
1 TATATATA---TTTTATACTATATTAT-G
*
12131163 TATGTATATATCTTA-ACTATATTATG
1 TA--TATATATTTTATACTATATTATG
* *
12131189 TATGTAT-TTTTAACACTATATTATG
1 TATATATATTTT-ATACTATATTATG
*
12131214 TACATAT-TTTTA
1 TATATATATTTTA
12131226 ATATTATCAC
Statistics
Matches: 89, Mismatches: 18, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
23 3 0.03
24 6 0.07
25 47 0.53
26 4 0.04
27 15 0.17
28 8 0.09
30 6 0.07
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATG
Found at i:12131403 original size:16 final size:15
Alignment explanation
Indices: 12131379--12131426 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
12131369 TAATTATTAT
*
12131379 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
12131395 TATTTTAATATTTTA
1 TATTTTAATATTTTA
12131410 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
12131426 T
1 T
12131427 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:12131414 original size:7 final size:8
Alignment explanation
Indices: 12131379--12131430 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
12131369 TAATTATTAT
*
12131379 TATTCTAA
1 TATTTTAA
*
12131387 TATTTTGA
1 TATTTTAA
12131395 TATTTTAA
1 TATTTTAA
12131403 TATTTT-A
1 TATTTTAA
12131410 TATTTTATA
1 TATTTTA-A
*
12131419 TATTTTAT
1 TATTTTAA
12131427 TATT
1 TATT
12131431 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:12141945 original size:85 final size:83
Alignment explanation
Indices: 12141820--12142269 Score: 394
Period size: 85 Copynumber: 5.5 Consensus size: 83
12141810 TTAATTCATG
* *
12141820 TTTTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTGT
1 TTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-T
*
12141884 CAATTTTTGTGTTTCAATCTAT
64 CAATTTCTGT-TTTCAAT-TAT
* * ** *
12141906 TTTTCAAAAATCAAATCATATTACGAGAAATGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
12141971 ATTTCTGCTTTTCAATTTATAT
66 ATTTCTG-TTTTCAA--T-TAT
**
12141993 TTTTCAAAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACATTGAGGTAATT
1 TTTTC--AAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
12142058 TCAATTTCTGTTGTCAA--A-
63 TCAATTTCTGTTTTCAATTAT
*** * * * * * *
12142076 --AAAAAAAATCAACTCATAGTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
* *
12142139 ATTTTTGTGTT---TTA-
66 ATTTCTGTTTTCAATTAT
* * * *
12142153 -ATT------TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
12142211 ATTTCTGTTTTCAATTTACGT
66 ATTTCTGTTTTCAA-TTA--T
* * *
12142232 TGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
12142270 ACCTTTTAAT
Statistics
Matches: 299, Mismatches: 41, Indels: 48
0.77 0.11 0.12
Matches are distributed among these distances:
72 58 0.19
76 3 0.01
77 1 0.00
78 54 0.18
79 6 0.02
80 2 0.01
84 1 0.00
85 60 0.20
86 37 0.12
87 9 0.03
89 12 0.04
90 56 0.19
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (83 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTCTGTTTTCAATTAT
Found at i:12142093 original size:78 final size:76
Alignment explanation
Indices: 12141998--12142224 Score: 246
Period size: 72 Copynumber: 3.0 Consensus size: 76
12141988 TATATTTTTC
** *
12141998 AAAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACATTGAGGTAATTTCAAT
1 AAAAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
12142063 TTCTGTTGTCAAAA
65 TTCTGTTGTC--AA
* * * * *
12142077 AAAAAAATCAACTCATAGTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
*
12142142 TTTG-TGT---
66 TCTGTTGTCAA
*** ** * *
12142149 TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
*
12142214 TCTGTTTTCAA
66 TCTGTTGTCAA
12142225 TTTACGTTGT
Statistics
Matches: 122, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
72 57 0.47
73 2 0.02
77 3 0.02
78 52 0.43
79 8 0.07
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
TCTGTTGTCAA
Found at i:12142412 original size:140 final size:140
Alignment explanation
Indices: 12142160--12142930 Score: 1371
Period size: 140 Copynumber: 5.5 Consensus size: 140
12142150 TTAATTTCAA
*
12142160 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
12142225 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
12142290 TCAAAATCAG
131 TCAAAATCAG
* *
12142300 CTCATATTGCGAGAGGTGAGTTGAGCCTCACGTTACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
12142365 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
12142430 TCAAAATCAG
131 TCAAAATCAG
* * *
12142440 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTATATTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
12142505 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
*
12142570 TTAAAATCAG
131 TCAAAATCAG
* * *
12142580 CTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCATGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
12142645 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
12142710 TCAAAATCAG
131 TCAAAATCAG
* *
12142720 CTCATATTGCGAGAGGTGAGTTGAGCCTCACGTTACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
12142785 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
12142850 TCAAAATCAG
131 TCAAAATCAG
* * *
12142860 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACCCTGAGGTATTTTCAATTTTTGTTTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTG--TTTTC
12142925 AATTTA
64 AATTTA
12142931 TGCTTTTCAA
Statistics
Matches: 602, Mismatches: 27, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
140 591 0.98
142 11 0.02
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:12142501 original size:13 final size:13
Alignment explanation
Indices: 12142483--12142508 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12142473 CACGCTAAGG
12142483 TATTTTCAATTTA
1 TATTTTCAATTTA
12142496 TATTTTCAATTTA
1 TATTTTCAATTTA
12142509 CGTTGTTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTTCAATTTA
Found at i:12142643 original size:13 final size:13
Alignment explanation
Indices: 12142625--12142658 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
12142615 TGCTAAGGTA
*
12142625 TTTTCAATTTCTG
1 TTTTCAATTTATG
12142638 TTTTCAATTTATG
1 TTTTCAATTTATG
12142651 TTGTTCAA
1 TT-TTCAA
12142659 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:12142937 original size:15 final size:15
Alignment explanation
Indices: 12142905--12142952 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
12142895 CCCTGAGGTA
* *
12142905 TTTTCAATTTTTGTT
1 TTTTCAATTTATGCT
12142920 TTTTCAATTTATGC-
1 TTTTCAATTTATGCT
* *
12142934 TTTTCAAATTCTGCT
1 TTTTCAATTTATGCT
12142949 TTTT
1 TTTT
12142953 TAAAAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.17, C:0.12, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTCAATTTATGCT
Found at i:12143857 original size:30 final size:30
Alignment explanation
Indices: 12143816--12143980 Score: 199
Period size: 30 Copynumber: 5.5 Consensus size: 30
12143806 TAAATCTTAG
* *
12143816 CCTTTTCCACCACCAACTCCACTAGTCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
*
12143846 CCTTCTCCACCACCAACTCCACTAGCCACT
1 CCTTCTCCACCACCAACTCCACTAGCCACA
* *
12143876 CATTTTCCACCACCAACTCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
* *
12143906 CCTTTTCCACCACCAAATCCACTAGCCACA
1 CCTTCTCCACCACCAACTCCACTAGCCACA
** * *
12143936 -CTTGCTCCATTACCTACTCCACTAACCACA
1 CCTT-CTCCACCACCAACTCCACTAGCCACA
12143966 -CTTGCTCCACCACCA
1 CCTT-CTCCACCACCA
12143981 CTTGTACCTA
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
29 3 0.03
30 114 0.97
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.22
Consensus pattern (30 bp):
CCTTCTCCACCACCAACTCCACTAGCCACA
Found at i:12143975 original size:90 final size:90
Alignment explanation
Indices: 12143816--12143980 Score: 226
Period size: 90 Copynumber: 1.8 Consensus size: 90
12143806 TAAATCTTAG
* * * * *
12143816 CCTTTTCCACCACCAACTCCACTAGTCACACCTTCTCCACCACCAACTCCACTAGCCACTCATTT
1 CCTTTTCCACCACCAAATCCACTAGCCACACCTTCTCCACCACCAACTCCACTAACCACACATTC
12143881 TCCACCACCAACTCCACTAGCCACA
66 TCCACCACCAACTCCACTAGCCACA
** *
12143906 CCTTTTCCACCACCAAATCCACTAGCCACA-CTTGCTCCATTACCTACTCCACTAACCACAC-TT
1 CCTTTTCCACCACCAAATCCACTAGCCACACCTT-CTCCACCACCAACTCCACTAACCACACATT
12143969 GCTCCACCACCA
65 -CTCCACCACCA
12143981 CTTGTACCTA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
89 5 0.08
90 60 0.92
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.22
Consensus pattern (90 bp):
CCTTTTCCACCACCAAATCCACTAGCCACACCTTCTCCACCACCAACTCCACTAACCACACATTC
TCCACCACCAACTCCACTAGCCACA
Found at i:12144563 original size:27 final size:27
Alignment explanation
Indices: 12144533--12144649 Score: 82
Period size: 25 Copynumber: 4.5 Consensus size: 27
12144523 ATTTTAAATT
12144533 CTATATTACGTATATATATATTTTATA
1 CTATATTACGTATATATATATTTTATA
* * * *
12144560 CTATTTTA--TGTATATATCTTTAATA
1 CTATATTACGTATATATATATTTTATA
* **
12144585 TTATATTATTTATATATATATTTT-TA
1 CTATATTACGTATATATATATTTTATA
* * * *
12144611 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTA-CGTATATATATATTTTATA
*
12144637 CTATATTATGTAT
1 CTATATTACGTAT
12144650 GTATTTTTAA
Statistics
Matches: 68, Mismatches: 17, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
25 25 0.37
26 20 0.29
27 23 0.34
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
CTATATTACGTATATATATATTTTATA
Found at i:12144573 original size:25 final size:25
Alignment explanation
Indices: 12144545--12144683 Score: 97
Period size: 25 Copynumber: 5.5 Consensus size: 25
12144535 ATATTACGTA
*
12144545 TATATATATTTTATACTATTTTATG
1 TATATATATTTTATACTATATTATG
* * * *
12144570 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATG
* * *
12144595 TATATATATATTTTTAC-ATGTTATCT
1 TATATATAT-TTTATACTATATTAT-G
*
12144621 TATGTATATATCTTA-ACTATATTATG
1 TA--TATATATTTTATACTATATTATG
* *
12144647 TATGTAT-TTTTAACACTATATTATG
1 TATATATATTTT-ATACTATATTATG
*
12144672 TACATAT-TTTTA
1 TATATATATTTTA
12144684 ATATTATCAC
Statistics
Matches: 89, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
23 3 0.03
24 6 0.07
25 54 0.61
26 11 0.12
27 8 0.09
28 7 0.08
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATG
Found at i:12144595 original size:30 final size:28
Alignment explanation
Indices: 12144542--12144634 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 28
12144532 TCTATATTAC
* * *
12144542 GTATATATATATT-TTATACTATTTTAT
1 GTATATATCTTTTATTATATTATTTTAT
12144569 GTATATATCTTTAATATTATATTA-TTTAT
1 GTATATATCTTT--TATTATATTATTTTAT
* * * *
12144598 ATATATAT-TTTTA-CATGTTATCTTAT
1 GTATATATCTTTTATTATATTATTTTAT
12144624 GTATATATCTT
1 GTATATATCTT
12144635 AACTATATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
25 5 0.09
26 13 0.25
27 12 0.23
28 3 0.06
29 13 0.25
30 7 0.13
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (28 bp):
GTATATATCTTTTATTATATTATTTTAT
Found at i:12144689 original size:20 final size:20
Alignment explanation
Indices: 12144664--12144719 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
12144654 TTTTAACACT
12144664 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
12144684 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
12144703 TTATATATGTACATATT
1 ATAT-TATGTACATATT
12144720 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:12144859 original size:16 final size:15
Alignment explanation
Indices: 12144835--12144882 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
12144825 TAATTATTAT
*
12144835 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
12144851 TATTTTAATATTTTA
1 TATTTTAATATTTTA
12144866 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
12144882 T
1 T
12144883 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:12144870 original size:7 final size:8
Alignment explanation
Indices: 12144835--12144886 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
12144825 TAATTATTAT
*
12144835 TATTCTAA
1 TATTTTAA
*
12144843 TATTTTGA
1 TATTTTAA
12144851 TATTTTAA
1 TATTTTAA
12144859 TATTTT-A
1 TATTTTAA
12144866 TATTTTATA
1 TATTTTA-A
*
12144875 TATTTTAT
1 TATTTTAA
12144883 TATT
1 TATT
12144887 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:12150887 original size:128 final size:128
Alignment explanation
Indices: 12150740--12150994 Score: 474
Period size: 128 Copynumber: 2.0 Consensus size: 128
12150730 AAAATGATAG
*
12150740 CAATAATATGAAGATCGCATTAGATGCATAAAAATTATATATACATGGCAAATATTAACAATATG
1 CAATAATATGAAGATCGCATTAAATGCATAAAAATTATATATACATGGCAAATATTAACAATATG
*
12150805 CATACAAAGATATATATAGCATGTACTGAGAATGAATAAACAAAATATACAAATATACAAGGA
66 CATACAAAGATATATATAGCATATACTGAGAATGAATAAACAAAATATACAAATATACAAGGA
12150868 CAATAATATGAAGATCGCATTAAATGCATAAAAATTATATATACATGGCAAATATTAACAATATG
1 CAATAATATGAAGATCGCATTAAATGCATAAAAATTATATATACATGGCAAATATTAACAATATG
* *
12150933 CATACAAAGATATATATAGCATATATTGAGAATGAATAAAGAAAATATACAAATATACAAGG
66 CATACAAAGATATATATAGCATATACTGAGAATGAATAAACAAAATATACAAATATACAAGG
12150995 TAATAATTAA
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.26
Consensus pattern (128 bp):
CAATAATATGAAGATCGCATTAAATGCATAAAAATTATATATACATGGCAAATATTAACAATATG
CATACAAAGATATATATAGCATATACTGAGAATGAATAAACAAAATATACAAATATACAAGGA
Found at i:12151267 original size:14 final size:14
Alignment explanation
Indices: 12151248--12151274 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12151238 AAATAGTATT
12151248 TAATATATAATAAA
1 TAATATATAATAAA
12151262 TAATATATAATAA
1 TAATATATAATAA
12151275 CAAGAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAATATATAATAAA
Found at i:12151602 original size:12 final size:13
Alignment explanation
Indices: 12151556--12151605 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
12151546 CAAGTAAAAC
12151556 ATAATAAATATTAT
1 ATAATAAATA-TAT
12151570 ATAATAAA-ATAT
1 ATAATAAATATAT
***
12151582 ATGGGAAATA-AT
1 ATAATAAATATAT
12151594 ATAATAAATATA
1 ATAATAAATATA
12151606 GCATATAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
12 17 0.61
13 3 0.11
14 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (13 bp):
ATAATAAATATAT
Found at i:12151653 original size:19 final size:17
Alignment explanation
Indices: 12151631--12151679 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 17
12151621 AATTTATATG
12151631 TAAAAATAATATGTATAAA
1 TAAAAATAATA--TATAAA
*
12151650 TAAATATATAATATATATA
1 TAAA-A-ATAATATATAAA
12151669 TAAAAATAATA
1 TAAAAATAATA
12151680 ATTATGAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.22
18 1 0.04
19 13 0.48
20 1 0.04
21 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAAATAATATATAAA
Found at i:12151662 original size:21 final size:22
Alignment explanation
Indices: 12151636--12151704 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 22
12151626 ATATGTAAAA
12151636 ATAATATGTATA-AATAAATAT
1 ATAATATGTATAGAATAAATAT
* *
12151657 ATAATATATATATAA-AAATA-
1 ATAATATGTATAGAATAAATAT
* *
12151677 ATAATTATG-AGAGAATTAATAT
1 ATAA-TATGTATAGAATAAATAT
12151699 ATAATA
1 ATAATA
12151705 AACAATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
20 8 0.21
21 25 0.64
22 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (22 bp):
ATAATATGTATAGAATAAATAT
Found at i:12151799 original size:19 final size:19
Alignment explanation
Indices: 12151763--12151812 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
12151753 GAAATAAAAT
*
12151763 TAAAATAAA-ACA-AATAA
1 TAAAATAAATATAGAATAA
12151780 TAAAATAAATATAGAATAA
1 TAAAATAAATATAGAATAA
12151799 TAAAATAAATATAG
1 TAAAATAAATATAG
12151813 GACTAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 9 0.30
18 2 0.07
19 19 0.63
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:12154592 original size:24 final size:24
Alignment explanation
Indices: 12154564--12154614 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
12154554 TTTTTAAAAT
*
12154564 ATTTAGTAGTATAATATATTTAAC
1 ATTTAGTAGCATAATATATTTAAC
* *
12154588 ATTTATTAGCATAATATATTTTAC
1 ATTTAGTAGCATAATATATTTAAC
12154612 ATT
1 ATT
12154615 AATTAGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTTAGTAGCATAATATATTTAAC
Found at i:12154619 original size:24 final size:24
Alignment explanation
Indices: 12154574--12154620 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
12154564 ATTTAGTAGT
*
12154574 ATAATATATTTAACATTTATTAGC
1 ATAATATATTTAACATTAATTAGC
*
12154598 ATAATATATTTTACATTAATTAG
1 ATAATATATTTAACATTAATTAG
12154621 AATTAGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAACATTAATTAGC
Found at i:12157930 original size:27 final size:27
Alignment explanation
Indices: 12157899--12158076 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12157889 TAAATTGTAC
12157899 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
12157926 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12157952 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
12157980 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
12158008 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12158035 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12158062 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12158077 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12158013 original size:82 final size:81
Alignment explanation
Indices: 12157900--12158055 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12157890 AAATTGTACA
* *
12157900 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
12157964 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12157981 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
12158046 TGCGAGTTGA
65 TGCGAATTGA
12158056 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12158067 original size:82 final size:81
Alignment explanation
Indices: 12157896--12158076 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
12157886 GATTAAATTG
* *
12157896 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
12157961 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
12157977 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
12158041 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12158059 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12158077 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12166120 original size:27 final size:27
Alignment explanation
Indices: 12166089--12166266 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12166079 TAAATTGTAC
12166089 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
12166116 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12166142 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
12166170 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
12166198 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12166225 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12166252 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12166267 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12166203 original size:82 final size:81
Alignment explanation
Indices: 12166090--12166245 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12166080 AAATTGTACA
* *
12166090 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
12166154 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12166171 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
12166236 TGCGAGTTGA
65 TGCGAATTGA
12166246 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12166257 original size:82 final size:81
Alignment explanation
Indices: 12166086--12166266 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
12166076 GATTAAATTG
* *
12166086 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
12166151 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
12166167 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
12166231 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12166249 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12166267 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12172732 original size:24 final size:24
Alignment explanation
Indices: 12172687--12172733 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12172677 ATTTAGTAGT
*
12172687 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTAATTAGC
12172711 ATAATATATTTTA-CATTAATTAG
1 ATAATATA-TTTAGCATTAATTAG
12172734 AATTAGGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAGCATTAATTAGC
Found at i:12173137 original size:20 final size:20
Alignment explanation
Indices: 12173097--12173136 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
12173087 TGTCACTATA
*
12173097 TAATCAAATTAAATTTATTT
1 TAATCAAATTAAATTCATTT
12173117 TAATCAAA-TAAATTCATTT
1 TAATCAAATTAAATTCATTT
12173136 T
1 T
12173137 TGAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATCAAATTAAATTCATTT
Found at i:12174698 original size:26 final size:26
Alignment explanation
Indices: 12174662--12174715 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
12174652 TTTTATTCTA
*
12174662 TATATATTATTAATTCTATGTTGCTT
1 TATATATTATTAATTCTATGTTACTT
12174688 TATATATTATTAATTCTATGTTACTT
1 TATATATTATTAATTCTATGTTACTT
12174714 TA
1 TA
12174716 CATACATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (26 bp):
TATATATTATTAATTCTATGTTACTT
Found at i:12175694 original size:128 final size:128
Alignment explanation
Indices: 12175463--12175695 Score: 358
Period size: 128 Copynumber: 1.8 Consensus size: 128
12175453 ATTTTGAACC
* *
12175463 AACTTTAAAACAAAGGCGATCTTTGATGTTTGGAAATTCGGAAAATTGTGCCCTAACGTGTTGGG
1 AACTTTAAAACAAAGGCGATATTTGATGTTTGGAAATTCGGAAAATTGTGCCCTAACGTGCTGGG
* * * * **
12175528 TTTCGATTTTCTGTTTATCCAAATAATTAAATGTCCCTTTAAAACTTCGTCCGCATTTTCTAA
66 TTTCAATTTTCCGTTTATACAAATAATCAAATACCCCTTTAAAACTTCGTCCGCATTTTCTAA
*
12175591 AACTTTAAAACAAAGGCGATATTTGATGTTTGGAAATTCGGGAAATTGTGCCCTAACGTGCTGGG
1 AACTTTAAAACAAAGGCGATATTTGATGTTTGGAAATTCGGAAAATTGTGCCCTAACGTGCTGGG
* * *
12175656 TTTCAATTTTCCGTTTGTATAAATAATCGAATACCCCTTT
66 TTTCAATTTTCCGTTTATACAAATAATCAAATACCCCTTT
12175696 TAATTCCGTC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
128 93 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (128 bp):
AACTTTAAAACAAAGGCGATATTTGATGTTTGGAAATTCGGAAAATTGTGCCCTAACGTGCTGGG
TTTCAATTTTCCGTTTATACAAATAATCAAATACCCCTTTAAAACTTCGTCCGCATTTTCTAA
Found at i:12176221 original size:14 final size:15
Alignment explanation
Indices: 12176202--12176258 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
12176192 AATCTTTAAG
12176202 GATATG-CAATCTTA
1 GATATGACAATCTTA
12176216 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
12176233 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
12176252 GATATGA
1 GATATGA
12176259 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:12176243 original size:36 final size:38
Alignment explanation
Indices: 12176202--12176280 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
12176192 AATCTTTAAG
12176202 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
12176238 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
12176278 GAT
1 GAT
12176281 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
40 9 0.23
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:12176249 original size:19 final size:19
Alignment explanation
Indices: 12176202--12176280 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
12176192 AATCTTTAAG
12176202 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12176221 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12176238 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12176257 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
12176278 GAT
1 GAT
12176281 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:12182240 original size:2 final size:2
Alignment explanation
Indices: 12182229--12182261 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
12182219 ATTAAGTTAT
*
12182229 TA TA -A TA TA TA TT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12182262 AAGTAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12182364 original size:17 final size:16
Alignment explanation
Indices: 12182329--12182368 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
12182319 AGAGAGCAGG
* *
12182329 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
12182345 GGAAAAAAAGGAAAGAA
1 GGAAAAAAA-GAAAGAA
12182362 GGAAAAA
1 GGAAAAA
12182369 GGGAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:12184914 original size:19 final size:18
Alignment explanation
Indices: 12184890--12184955 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 18
12184880 TTCTATTTCA
12184890 AAAAAAATAAAAAAAAAGG
1 AAAAAAATAAAAAAAAA-G
* *
12184909 AAAAAATTAAAGAAAAAG
1 AAAAAAATAAAAAAAAAG
*
12184927 AAAAAAAGAAAAAGAAAAAAG
1 -AAAAAA-ATAAA-AAAAAAG
12184948 AAAAAAAT
1 AAAAAAAT
12184956 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 22 0.58
20 9 0.24
21 6 0.16
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAAAAATAAAAAAAAAG
Found at i:12184931 original size:7 final size:7
Alignment explanation
Indices: 12184917--12184953 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
12184907 GGAAAAAATT
12184917 AAAG-AA
1 AAAGAAA
12184923 AAAGAAA
1 AAAGAAA
12184930 AAA-AGAA
1 AAAGA-AA
12184937 AAAGAAA
1 AAAGAAA
12184944 AAAGAAA
1 AAAGAAA
12184951 AAA
1 AAA
12184954 ATGGAGAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.18
7 22 0.79
8 1 0.04
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:12184936 original size:14 final size:13
Alignment explanation
Indices: 12184917--12184952 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
12184907 GGAAAAAATT
12184917 AAAGAAAAAGAAAA
1 AAAGAAAAAG-AAA
12184931 AAAGAAAAAGAAA
1 AAAGAAAAAGAAA
12184944 AAAGAAAAA
1 AAAGAAAAA
12184953 AATGGAGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Done.