Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 43 of 218
Found at i:13321142 original size:46 final size:45
Alignment explanation
Indices: 13321075--13321400 Score: 404
Period size: 46 Copynumber: 7.6 Consensus size: 45
13321065 TTTGAGTACT
* *
13321075 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
13321121 TCTGATCAAGTGAAAAAGTGATAAGT--T--C-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
13321157 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
13321193 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
13321239 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
13321285 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
13321331 TTTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
13321376 TCTGATCAAG-G-ACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
13321401 ATCATACGTA
Statistics
Matches: 257, Mismatches: 10, Indels: 29
0.87 0.03 0.10
Matches are distributed among these distances:
35 1 0.00
36 61 0.24
38 1 0.00
39 2 0.01
40 4 0.02
42 3 0.01
43 13 0.05
44 3 0.01
45 22 0.09
46 146 0.57
47 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:13321157 original size:36 final size:36
Alignment explanation
Indices: 13321111--13321219 Score: 191
Period size: 36 Copynumber: 3.0 Consensus size: 36
13321101 GGTAGCTTTA
*
13321111 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
13321147 TCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
13321183 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
13321219 G
1 G
13321220 GTAGCTTTAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:13325828 original size:41 final size:41
Alignment explanation
Indices: 13325739--13325837 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
13325729 CTATATGATT
* *
13325739 AGCACTAAGTGTGCG-AATGAAATGATGAGGTTGAATAACG
1 AGCACTAAGTGTGCGAAATGAAATAATGAGGTTAAATAACG
* * *
13325779 AGCGCTAAGTGTGCGAAATTAAATAATGATGTTAAATAACG
1 AGCACTAAGTGTGCGAAATGAAATAATGAGGTTAAATAACG
13325820 AGCACTAAGTGTGCGAAA
1 AGCACTAAGTGTGCGAAA
13325838 CCGAGATCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 14 0.27
41 38 0.73
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.23
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAAATGAAATAATGAGGTTAAATAACG
Found at i:13347904 original size:22 final size:21
Alignment explanation
Indices: 13347863--13347905 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13347853 TATTCTATTG
*
13347863 CTTTTTCTTTTATAATAATGA
1 CTTTTTCTTTTATAAGAATGA
13347884 CTTTTT-TTTTATGATAGAATGA
1 CTTTTTCTTTTAT-A-AGAATGA
13347906 TTGCAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 7 0.37
22 6 0.32
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (21 bp):
CTTTTTCTTTTATAAGAATGA
Found at i:13351336 original size:30 final size:30
Alignment explanation
Indices: 13351300--13351382 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
13351290 GTATATGTTT
*
13351300 TATACATTGTCGAATTGATTTGTATGTAGA
1 TATACATTGTCGAATTGATTTGTATATAGA
* * *
13351330 TATACATTGTTGAATTTGATTCGTATATGGA
1 TATACATTGTCGAA-TTGATTTGTATATAGA
** **
13351361 TATATTTTACCGAATTGATTTG
1 TATACATTGTCGAATTGATTTG
13351383 AGCTTTGAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
30 20 0.48
31 22 0.52
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (30 bp):
TATACATTGTCGAATTGATTTGTATATAGA
Found at i:13351558 original size:43 final size:43
Alignment explanation
Indices: 13351497--13351604 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 43
13351487 ACTTCTGAGG
* *
13351497 TGAGATTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATT
1 TGAGATTTCATGTAAGACCATAGCTAGGCTATTGGCATCGATA
*
13351540 TGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGCATCGATA
1 TGAGATTTCATGTAAGACCATAGCTAGGCTATTGGCATCGATA
*
13351583 CGAGATTTCTATGTAAGACCAT
1 TGAGATTTC-ATGTAAGACCAT
13351605 GTCTAGGACA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 48 0.81
44 11 0.19
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGAGATTTCATGTAAGACCATAGCTAGGCTATTGGCATCGATA
Found at i:13355343 original size:29 final size:29
Alignment explanation
Indices: 13355301--13355359 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
13355291 AAATTCACAG
13355301 ATAGTTTTCGGGTTGAATGGAACATCCTT
1 ATAGTTTTCGGGTTGAATGGAACATCCTT
13355330 ATAGTTTTCGGGTTGAATGGAACATCCTT
1 ATAGTTTTCGGGTTGAATGGAACATCCTT
13355359 A
1 A
13355360 CCTCTTACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (29 bp):
ATAGTTTTCGGGTTGAATGGAACATCCTT
Found at i:13363726 original size:40 final size:40
Alignment explanation
Indices: 13363666--13363766 Score: 98
Period size: 41 Copynumber: 2.5 Consensus size: 40
13363656 AGCGGCATTT
* *
13363666 TTAGCGGCGTTTGGATAAAAAAAC-CACTAAAAATCAAGCA
1 TTAGCGGCGTTT-TACAAAAAAACGCACTAAAAATCAAGCA
* * *
13363706 TTAGCGGCGCTTTTAC-AAAAAACGTCGCTAAAGATCGAGCA
1 TTAGCGGCG-TTTTACAAAAAAACG-CACTAAAAATCAAGCA
* *
13363747 TTAGTGGCGTTTTCCAAAAA
1 TTAGCGGCGTTTTACAAAAA
13363767 GCGCCGCAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
39 7 0.14
40 15 0.30
41 28 0.56
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCGGCGTTTTACAAAAAAACGCACTAAAAATCAAGCA
Found at i:13364015 original size:41 final size:41
Alignment explanation
Indices: 13363814--13364015 Score: 266
Period size: 41 Copynumber: 4.9 Consensus size: 41
13363804 AGAGTTTTTG
* * **
13363814 GGGCATTTAGAGGCGTTTTTGAAAAAGCGCTACTAATGA-TC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT-ACTC
*
13363855 GAGG-CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 G-GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATACTC
* * * *
13363896 GAGCCTTTAGCGGCGTTTTTGGAAAAGCGACGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATACTC
*
13363937 GGGCCTTTAGCGGCGTTTTT-AGAAAAGCGACGCTAATACTC
1 GGGCCTTTAGCGGCGTTTTTGA-AAAAGCGCCGCTAATACTC
13363978 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATA
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATA
13364016 ATAAAATCTA
Statistics
Matches: 144, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
40 1 0.01
41 140 0.97
42 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATACTC
Found at i:13365126 original size:6 final size:7
Alignment explanation
Indices: 13365102--13365161 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
13365092 ACAATTTTGA
13365102 GTTTAGG
1 GTTTAGG
13365109 GTTTAGG
1 GTTTAGG
13365116 GTTTA-G
1 GTTTAGG
13365122 GTTTAGG
1 GTTTAGG
*
13365129 GCTT-GAG
1 GTTTAG-G
* *
13365136 GATTGGG
1 GTTTAGG
*
13365143 GTTTAAG
1 GTTTAGG
*
13365150 GTTTAGA
1 GTTTAGG
13365157 GTTTA
1 GTTTA
13365162 CATTTTAGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
6 7 0.16
7 35 0.81
8 1 0.02
ACGTcount: A:0.18, C:0.02, G:0.38, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:13365580 original size:24 final size:25
Alignment explanation
Indices: 13365544--13365591 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
13365534 TTAAAATGAA
13365544 TTTTAAAAGATTT-TAAACTTTTAT
1 TTTTAAAAGATTTATAAACTTTTAT
* * *
13365568 TTTTATAATATTTATATACTTTTA
1 TTTTAAAAGATTTATAAACTTTTA
13365592 AAGAAAAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTAAAAGATTTATAAACTTTTAT
Found at i:13365866 original size:41 final size:41
Alignment explanation
Indices: 13365809--13365895 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
13365799 AAGTTCTATG
13365809 ATTTTGGGCCGACTTTGTTATA-TGGGCATATCCATATAAAA
1 ATTTTGGGCCGACTTTGTTATACT-GGCATATCCATATAAAA
* *
13365850 ATTTTGGGCTGACTTTGTTATACTGGCTTATCCATATAAAA
1 ATTTTGGGCCGACTTTGTTATACTGGCATATCCATATAAAA
13365891 ATTTT
1 ATTTT
13365896 ATCCATATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 42 0.98
42 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (41 bp):
ATTTTGGGCCGACTTTGTTATACTGGCATATCCATATAAAA
Found at i:13369671 original size:43 final size:43
Alignment explanation
Indices: 13369580--13369820 Score: 281
Period size: 43 Copynumber: 5.6 Consensus size: 43
13369570 TAAATTTTTT
* * * * *
13369580 TAAAGGTTAT-GTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * ** *
13369622 TAAAGGT-TTGATCTATAGCGGCGTTTGTGACAAAAAGCGCCAC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTG-GGAAAAGCGCCGC
* * *
13369665 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAGAAGAGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
*
13369708 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGTGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
13369751 TAAAGGTCTTGGTCTTTTGCGGCGTTTGT-GGAAAAGGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAA-GCGCCGC
*
13369794 TTAAGGTCATGGTCTTTAGCGGCGTTT
1 TAAAGGTCATGGTCTTTAGCGGCGTTT
13369821 TTCGTGGTGT
Statistics
Matches: 170, Mismatches: 25, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 28 0.16
43 122 0.72
44 19 0.11
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:13371452 original size:29 final size:31
Alignment explanation
Indices: 13371404--13371462 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
13371394 AAAAATAAAA
* * *
13371404 TAAAATAAAATATAAGATATGTATATATATT
1 TAAAATAAAATATAAAATATATACATATATT
13371435 TAAAA-AAAAT-TAAAATATATACATATAT
1 TAAAATAAAATATAAAATATATACATATAT
13371463 AATAAGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.60
30 5 0.20
31 5 0.20
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (31 bp):
TAAAATAAAATATAAAATATATACATATATT
Found at i:13371536 original size:14 final size:13
Alignment explanation
Indices: 13371502--13371543 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
13371492 TTGAAATAAC
13371502 CATAATAATAAATA
1 CATAATAAT-AATA
13371516 C-TAATAATAATA
1 CATAATAATAATA
13371528 CAGTAATAATAATA
1 CA-TAATAATAATA
13371542 CA
1 CA
13371544 ATTTAACAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.19
13 7 0.27
14 14 0.54
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (13 bp):
CATAATAATAATA
Found at i:13374732 original size:13 final size:13
Alignment explanation
Indices: 13374714--13374739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13374704 CTCAATTTGC
13374714 TTCATTGCTAGTG
1 TTCATTGCTAGTG
13374727 TTCATTGCTAGTG
1 TTCATTGCTAGTG
13374740 CTAACTGGTT
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:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (13 bp):
TTCATTGCTAGTG
Found at i:13377781 original size:11 final size:11
Alignment explanation
Indices: 13377765--13377790 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13377755 TACTAAATAA
13377765 AATAATAAAAT
1 AATAATAAAAT
13377776 AATAATAAAAT
1 AATAATAAAAT
13377787 AATA
1 AATA
13377791 TTTAAAAATC
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:13378473 original size:15 final size:15
Alignment explanation
Indices: 13378422--13378462 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
13378412 CTTCGTCACC
13378422 TCAACCTACTGCTCA
1 TCAACCTACTGCTCA
13378437 TCAACCTACTGCTCA
1 TCAACCTACTGCTCA
13378452 TCAACCTACTG
1 TCAACCTACTG
13378463 TCCCTCAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.27, C:0.39, G:0.07, T:0.27
Consensus pattern (15 bp):
TCAACCTACTGCTCA
Found at i:13383759 original size:19 final size:20
Alignment explanation
Indices: 13383735--13383776 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13383725 ATATTTTTAT
13383735 TTTTTTGTA-ATGTTAAATA
1 TTTTTTGTATATGTTAAATA
* *
13383754 TTTTTTGTATATTTTAATTA
1 TTTTTTGTATATGTTAAATA
13383774 TTT
1 TTT
13383777 AATTAGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTTTGTATATGTTAAATA
Found at i:13386402 original size:18 final size:17
Alignment explanation
Indices: 13386370--13386403 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13386360 ATCCAGAAAG
*
13386370 CAGATCATTCAGTTTAA
1 CAGATCATGCAGTTTAA
13386387 CAGATCATAGCAGTTTA
1 CAGATCAT-GCAGTTTA
13386404 GATAGATGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (17 bp):
CAGATCATGCAGTTTAA
Found at i:13395150 original size:22 final size:22
Alignment explanation
Indices: 13395125--13395167 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13395115 TCCCATTGTT
13395125 TTGCTGCCATTTCACTATTATG
1 TTGCTGCCATTTCACTATTATG
* * *
13395147 TTGCTTCCATTTTATTATTAT
1 TTGCTGCCATTTCACTATTAT
13395168 TGTTTAGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (22 bp):
TTGCTGCCATTTCACTATTATG
Found at i:13396072 original size:21 final size:20
Alignment explanation
Indices: 13396046--13396088 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
13396036 AATTTAAAAT
*
13396046 TTTTATAATTTTTGTTTATAA
1 TTTTATAATTTTT-TTAATAA
13396067 TTTTAT--TTTTTTTAATAA
1 TTTTATAATTTTTTTAATAA
13396085 TTTT
1 TTTT
13396089 TAAATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 5 0.24
21 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTATAATTTTTTTAATAA
Found at i:13396076 original size:18 final size:18
Alignment explanation
Indices: 13396053--13396088 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
13396043 AATTTTTATA
13396053 ATTTTTGTTT-ATAATTTT
1 ATTTTT-TTTAATAATTTT
13396071 ATTTTTTTTAATAATTTT
1 ATTTTTTTTAATAATTTT
13396089 TAAATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
ATTTTTTTTAATAATTTT
Found at i:13399243 original size:14 final size:14
Alignment explanation
Indices: 13399224--13399250 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13399214 AAATTGTACC
13399224 TTTAGTTTGTAATA
1 TTTAGTTTGTAATA
13399238 TTTAGTTTGTAAT
1 TTTAGTTTGTAAT
13399251 CAAAAGGTAC
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:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (14 bp):
TTTAGTTTGTAATA
Found at i:13404470 original size:27 final size:27
Alignment explanation
Indices: 13404446--13404502 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
13404436 TAAAAAAATC
**
13404446 TTCCTAAATTTATCAAAATGTAAAATAA
1 TTCCTAAAACTAT-AAAATGTAAAATAA
13404474 TTCCTAAAACTATAAAATGTAAAATAA
1 TTCCTAAAACTATAAAATGTAAAATAA
13404501 TT
1 TT
13404503 TCTCCTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.35
Consensus pattern (27 bp):
TTCCTAAAACTATAAAATGTAAAATAA
Found at i:13414790 original size:24 final size:25
Alignment explanation
Indices: 13414763--13414814 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
13414753 TGTATCCGCT
*
13414763 TACCG-TTTACAGCTCGTAAGAGCA
1 TACCGATTAACAGCTCGTAAGAGCA
* * *
13414787 TACCGATTAAGAGCTTGTATGAGCA
1 TACCGATTAACAGCTCGTAAGAGCA
13414812 TAC
1 TAC
13414815 TTGTACAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
TACCGATTAACAGCTCGTAAGAGCA
Found at i:13423574 original size:28 final size:28
Alignment explanation
Indices: 13423489--13423577 Score: 124
Period size: 28 Copynumber: 3.2 Consensus size: 28
13423479 ATTTTAATGA
*
13423489 AGACCACTATTACTGAATGTCTCTACGA
1 AGACCACTATTACTGAATGTCTCTACGG
* * *
13423517 AAACCACTATTACTAAATGTCTCTATGG
1 AGACCACTATTACTGAATGTCTCTACGG
* *
13423545 AGACCACTGTTACTGTATGTCTCTACGG
1 AGACCACTATTACTGAATGTCTCTACGG
13423573 AGACC
1 AGACC
13423578 CTGGTGTGGT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
AGACCACTATTACTGAATGTCTCTACGG
Found at i:13423994 original size:20 final size:21
Alignment explanation
Indices: 13423943--13423995 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
13423933 AGTTAAATCA
13423943 ATAGGTATCGATACTAAACTT
1 ATAGGTATCGATACTAAACTT
* ***
13423964 ATA-GTACCGATACTTCTCTT
1 ATAGGTATCGATACTAAACTT
13423984 -TAGGTATCGATA
1 ATAGGTATCGATA
13423996 ACTTACCTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (21 bp):
ATAGGTATCGATACTAAACTT
Found at i:13425103 original size:22 final size:22
Alignment explanation
Indices: 13425075--13425120 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13425065 GAAACCACAC
13425075 CAGAGAGCACT-ATAGTGCTAAG
1 CAGAGAGCACTGA-AGTGCTAAG
*
13425097 CAGAGAGCATTGAAGTGCTAAG
1 CAGAGAGCACTGAAGTGCTAAG
13425119 CA
1 CA
13425121 AAACGCAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (22 bp):
CAGAGAGCACTGAAGTGCTAAG
Found at i:13426848 original size:15 final size:15
Alignment explanation
Indices: 13426828--13426863 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
13426818 TTCCCTTCCC
13426828 TATAGATATCCAACT
1 TATAGATATCCAACT
*
13426843 TATAGATATTCAACT
1 TATAGATATCCAACT
13426858 TATAGA
1 TATAGA
13426864 ACGTGTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (15 bp):
TATAGATATCCAACT
Found at i:13429914 original size:21 final size:20
Alignment explanation
Indices: 13429875--13429914 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13429865 CTCACATGCC
*
13429875 AAAGTGAAAAATTAGTTTTT
1 AAAGTGAAAAATGAGTTTTT
13429895 AAAGTGAAAAACTGA-TTTTT
1 AAAGTGAAAAA-TGAGTTTTT
13429915 GTGGCCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (20 bp):
AAAGTGAAAAATGAGTTTTT
Found at i:13430011 original size:47 final size:47
Alignment explanation
Indices: 13429960--13430073 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 47
13429950 AAAGAGGAAG
* * *
13429960 AAGTGGCATTTTATTTGCAAAAGTGGTGGCTTGTCCA-TAATATTATA
1 AAGTGGCAATTTATCTGCAAAAGTGGTGGCTTGTCCACAAAT-TTATA
* * *
13430007 AAGTGACAATATATCTGCAAAAAGTGGTGGCTTGTCCACAAATTTATT
1 AAGTGGCAATTTATCTGC-AAAAGTGGTGGCTTGTCCACAAATTTATA
*
13430055 AAGTGGCAGTTTATCTGCA
1 AAGTGGCAATTTATCTGCA
13430074 TTACTGTGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 15 0.27
48 38 0.68
49 3 0.05
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (47 bp):
AAGTGGCAATTTATCTGCAAAAGTGGTGGCTTGTCCACAAATTTATA
Found at i:13437103 original size:25 final size:25
Alignment explanation
Indices: 13437075--13437123 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
13437065 ACAAGTAAAC
13437075 ATTTTCAAACTATCATCAACATGCA
1 ATTTTCAAACTATCATCAACATGCA
13437100 ATTTTCAAACTATCATCAACATGC
1 ATTTTCAAACTATCATCAACATGC
13437124 CAAAAGAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (25 bp):
ATTTTCAAACTATCATCAACATGCA
Found at i:13440936 original size:27 final size:26
Alignment explanation
Indices: 13440906--13441481 Score: 364
Period size: 27 Copynumber: 21.3 Consensus size: 26
13440896 GTATAATAGG
*
13440906 CATTTTA-CCTAATAGGGGTATTTTATT
1 CATTTTACCCT-ATGGGGGTATTTT-TT
13440933 CATTTTACCCTATGGGGGTATTTTTGT
1 CATTTTACCCTATGGGGGTATTTTT-T
* * * **
13440960 CATTCTATCTTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTT-TTT
* **
13440987 CATTTTACCCTATTGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTT-TTT
* **
13441014 CATTTTACCCTATGGGGGCATTTCAGT
1 CATTTTACCCTATGGGGGTATTT-TTT
* * *
13441041 CATTTTATCCTATGAGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTT-TT
* * **
13441068 CATTTAAACCTATGGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTT-TTT
* * * **
13441095 CATTCTACCCTTTGGAGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTT-TTT
* * *
13441122 CATTCTACCCTATGGAGGTATTTTAGT
1 CATTTTACCCTATGGGGGTATTTT-TT
* **
13441149 CATTCTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTT-TTT
**
13441176 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTT-TTT
* * * *
13441203 CAATTTATCCTATGGAGGTATTTTGAT
1 CATTTTACCCTATGGGGGTATTTT-TT
* * * *
13441230 CATTCTACCCTTTGGAGGTATTTTAGT
1 CATTTTACCCTATGGGGGTATTTT-TT
* * **
13441257 CATTCTACCCTATGGAGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTT-TTT
* * **
13441284 CATTCTACCTTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTT-TTT
*
13441311 CATTTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTT-TT
* * * **
13441338 CAATTTATCCTATGGGCGTATTTAGAT
1 CATTTTACCCTATGGGGGTATTT-TTT
*
13441365 CATTTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTT-TT
* * **
13441392 CATTTTACCCTATGAGGATATTTCGGT
1 CATTTTACCCTATGGGGGTATTT-TTT
* **
13441419 CATTTTACCCTATTGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTT-TTT
*
13441446 CATTTTACCC-ACTGGGGGTATTTTGGT
1 CATTTTACCCTA-TGGGGGTATTTT-TT
13441473 CATTTTACC
1 CATTTTACC
13441482 TATTTTTGGG
Statistics
Matches: 460, Mismatches: 74, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.00
27 455 0.99
28 3 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (26 bp):
CATTTTACCCTATGGGGGTATTTTTT
Found at i:13440978 original size:54 final size:54
Alignment explanation
Indices: 13440920--13441481 Score: 603
Period size: 54 Copynumber: 10.4 Consensus size: 54
13440910 TTACCTAATA
* * * * *
13440920 GGGGTATTTTATTCATTTTACCCTATGGGGGTATTTTTGTCATTCTATCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTCTACCCTATG
* * * *
13440974 GGGGTATTTCGGTCATTTTACCCTATTGGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTCTACCCTATG
* * * *
13441028 GGGGCATTTCAGTCATTTTATCCTATGAGGGTATTTTGGTCATT-TAAACCTATG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTCT-ACCCTATG
* * * **
13441082 GGGGTATTTC-GATCATTCTACCCTTTGGAGGTATTTCAGTCATTCTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATGGGGGTATTTTGGTCATTCTACCCTATG
* * * * *
13441136 GAGGTATTTTAGTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTCTACCCTATG
* * * * * *
13441190 GGGGTATTTCGGTCAATTTATCCTATGGAGGTATTTTGATCATTCTACCCTTTG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTCTACCCTATG
* * * * * * *
13441244 GAGGTATTTTAGTCATTCTACCCTATGGAGGTATTTCGATCATTCTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTCTACCCTATG
* *
13441298 GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGGTCAATT-TATCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTC-ATTCTACCCTATG
* *
13441352 GGCGTATTT-AGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATGGGGGTATTTTGGTCATTCTACCCTATG
* * * * * * *
13441406 AGGATATTTCGGTCATTTTACCCTATTGGGGTATTTCGATCATTTTACCC-ACTG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTCTACCCTA-TG
**
13441460 GGGGTATTTTGGTCATTTTACC
1 GGGGTATTTCAGTCATTTTACC
13441482 TATTTTTGGG
Statistics
Matches: 426, Mismatches: 73, Indels: 18
0.82 0.14 0.03
Matches are distributed among these distances:
53 7 0.02
54 413 0.97
55 6 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (54 bp):
GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTCTACCCTATG
Found at i:13441017 original size:81 final size:81
Alignment explanation
Indices: 13440906--13441485 Score: 593
Period size: 81 Copynumber: 7.2 Consensus size: 81
13440896 GTATAATAGG
* *** * * *
13440906 CATTTTA-CCTAATAGGGGTATTTTATTCATTTTACCCTATGGGGGTATTTTTGTCATTCTATCT
1 CATTTTACCCT-ATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAGTCATTCTACCC
*
13440970 TATGGGGGTATTTCGGT
65 TATGGGGGTATTTTGGT
* * * *
13440987 CATTTTACCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGCATTTCAGTCATTTTATCCT
1 CATTTTACCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAGTCATTCTACCCT
*
13441052 ATGAGGGTATTTTGGT
66 ATGGGGGTATTTTGGT
* * * * * * * *
13441068 CATTTAAACCTATGGGGGTATTTCGATCATTCTACCCTTTGGAGGTATTTCAGTCATTCTACCCT
1 CATTTTACCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAGTCATTCTACCCT
* *
13441133 ATGGAGGTATTTTAGT
66 ATGGGGGTATTTTGGT
* * ** *
13441149 CATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCAATT-TATCC
1 CATTTTACCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAGTC-ATTCTACCC
* *
13441213 TATGGAGGTATTTTGAT
65 TATGGGGGTATTTTGGT
* ** * * *
13441230 CATTCTACCCT-TTGGAGGTATTTTAGTCATTCTACCCTATGGAGGTA-TTTCGATCATTCTACC
1 CATTTTACCCTATTGG-GGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAG-TCATTCTACC
* *
13441293 TTATGGGGGTATTTCGGT
64 CTATGGGGGTATTTTGGT
* * * * * *
13441311 CATTTTACCCTATGGGGGTATTTTGGTCAATTTATCCTATGGGCGTA-TTTAGATCATTTTACCC
1 CATTTTACCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAG-TCATTCTACCC
13441375 TATGGGGGTATTTTGGT
65 TATGGGGGTATTTTGGT
* * * *
13441392 CATTTTACCCTA-TGAGGATATTTCGGTCATTTTACCCTATTGGGGTA-TTTCGATCATTTTACC
1 CATTTTACCCTATTG-GGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAG-TCATTCTACC
13441455 C-ACTGGGGGTATTTTGGT
64 CTA-TGGGGGTATTTTGGT
13441473 CATTTTA-CCTATT
1 CATTTTACCCTATT
13441486 TTTGGGTCTC
Statistics
Matches: 423, Mismatches: 67, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
80 15 0.04
81 399 0.94
82 9 0.02
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (81 bp):
CATTTTACCCTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAGTCATTCTACCCT
ATGGGGGTATTTTGGT
Found at i:13446521 original size:26 final size:26
Alignment explanation
Indices: 13446492--13446546 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
13446482 AGATACACGA
13446492 AACCGATAGGAGACTCAATCGTGTAT
1 AACCGATAGGAGACTCAATCGTGTAT
*
13446518 AACCGATAGGAGACTCGATCGTGTAT
1 AACCGATAGGAGACTCAATCGTGTAT
13446544 AAC
1 AAC
13446547 TTTGATACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (26 bp):
AACCGATAGGAGACTCAATCGTGTAT
Found at i:13450225 original size:29 final size:29
Alignment explanation
Indices: 13450193--13450258 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
13450183 CATCACCATT
*
13450193 CTTTTCATAACCGATAGCCAAAGCTATTC
1 CTTTTCATAACCGATAGCCAAAGCTATCC
** **
13450222 CTTTTCATAATTGATAGCTGAAGCTATCC
1 CTTTTCATAACCGATAGCCAAAGCTATCC
*
13450251 CATTTCAT
1 CTTTTCAT
13450259 TGGTCGATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (29 bp):
CTTTTCATAACCGATAGCCAAAGCTATCC
Found at i:13451235 original size:21 final size:21
Alignment explanation
Indices: 13451211--13451263 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
13451201 AATTAACTAT
*
13451211 CGAAACGTTAACATTTTTCAA
1 CGAAACGTTAAAATTTTTCAA
13451232 CGAAACGTTAAAATTTTTCAA
1 CGAAACGTTAAAATTTTTCAA
13451253 CGAAACGTTAA
1 CGAAACGTTAA
13451264 TACCACCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (21 bp):
CGAAACGTTAAAATTTTTCAA
Found at i:13456330 original size:30 final size:29
Alignment explanation
Indices: 13456277--13456359 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 29
13456267 GATGGTTGAA
*
13456277 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATAATCGATGGTCGTC
* *
13456306 ACCATCACTTTTCATTAATCGATGGTTGTC
1 ACCATCCCTTTTCA-TAATCGATGGTCGTC
13456336 ACCATCCCTTTTCATAATCGATGG
1 ACCATCCCTTTTCATAATCGATGG
13456360 CTGAAGCTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 23 0.47
30 26 0.53
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATCGATGGTCGTC
Found at i:13456375 original size:29 final size:29
Alignment explanation
Indices: 13456339--13456408 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
13456329 GGTTGTCACC
**
13456339 ATCCCTTTTCATAATCGATGGCTGAAGCT
1 ATCCCTTTTCATAATCGATAACTGAAGCT
* * *
13456368 ATCTCTTTTCATAATTGATAATTGAAGCT
1 ATCCCTTTTCATAATCGATAACTGAAGCT
13456397 ATCCCTTTTCAT
1 ATCCCTTTTCAT
13456409 TGGTTGATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAACTGAAGCT
Found at i:13461347 original size:10 final size:10
Alignment explanation
Indices: 13461332--13461361 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13461322 TTTTGGCATC
13461332 AAATTTTCTT
1 AAATTTTCTT
*
13461342 AAATTTTTTT
1 AAATTTTCTT
13461352 AAATTTTCTT
1 AAATTTTCTT
13461362 TTCCATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (10 bp):
AAATTTTCTT
Found at i:13465264 original size:21 final size:23
Alignment explanation
Indices: 13465210--13465265 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
13465200 GTTTGGGTTG
*
13465210 TATCGGTAGAA--CCCAAAGTTG
1 TATCGGTAGAATTCCCAAAGTTC
*
13465231 TATCGATAGAATTCCC-AA-TTC
1 TATCGGTAGAATTCCCAAAGTTC
13465252 TATCGGTAGAATTC
1 TATCGGTAGAATTC
13465266 TGTAGCCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 25 0.83
22 2 0.07
23 3 0.10
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (23 bp):
TATCGGTAGAATTCCCAAAGTTC
Found at i:13468235 original size:15 final size:15
Alignment explanation
Indices: 13468215--13468244 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13468205 TTCAATACCC
13468215 AATAGGTGGCGAGTG
1 AATAGGTGGCGAGTG
13468230 AATAGGTGGCGAGTG
1 AATAGGTGGCGAGTG
13468245 GCCAGTGCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.47, T:0.20
Consensus pattern (15 bp):
AATAGGTGGCGAGTG
Found at i:13468416 original size:3 final size:3
Alignment explanation
Indices: 13468410--13468435 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13468400 AATAAAGTAG
13468410 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
13468436 GATTTCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:13469138 original size:6 final size:6
Alignment explanation
Indices: 13469127--13469160 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
13469117 TTTTATTTTC
13469127 TTTTAT TTTTA- TTTTAT TTTTATT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTT
13469161 GTAATTCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:13469141 original size:11 final size:11
Alignment explanation
Indices: 13469117--13469152 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
13469107 ATATGAGTAC
*
13469117 TTTTA-TTTTC
1 TTTTATTTTTA
13469127 TTTTATTTTTA
1 TTTTATTTTTA
13469138 TTTTATTTTTA
1 TTTTATTTTTA
13469149 TTTT
1 TTTT
13469153 TTATTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:13471053 original size:20 final size:20
Alignment explanation
Indices: 13471028--13471066 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13471018 CCACAAAATC
13471028 ATTTGAATTATC-AAACTAAA
1 ATTTG-ATTATCAAAACTAAA
*
13471048 ATTTGATTTTCAAAACTAA
1 ATTTGATTATCAAAACTAA
13471067 GACTTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTTGATTATCAAAACTAAA
Found at i:13472597 original size:6 final size:6
Alignment explanation
Indices: 13472586--13472615 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
13472576 TAATATGGGC
13472586 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
13472616 TGAAATTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:13477600 original size:29 final size:28
Alignment explanation
Indices: 13477525--13477600 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 28
13477515 GATATGGAAA
* *
13477525 GCTTAAATGATTTTATATTATTTTACGAG
1 GCTTAATTGATTTT-TATTATTTTACCAG
* *
13477554 GTCTTAATTAATTTTTTATTATTTTACCCG
1 G-CTTAATTGA-TTTTTATTATTTTACCAG
13477584 GCTTAATTGATTATTTA
1 GCTTAATTGATT-TTTA
13477601 AATCAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.05
29 13 0.33
30 20 0.51
31 4 0.10
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.53
Consensus pattern (28 bp):
GCTTAATTGATTTTTATTATTTTACCAG
Found at i:13477929 original size:18 final size:20
Alignment explanation
Indices: 13477896--13477936 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
13477886 ATTTGTAAAC
13477896 TTTTGTTAATTTTTAATCAT
1 TTTTGTTAATTTTTAATCAT
13477916 TTTTGTT-A-TTTTAATCAT
1 TTTTGTTAATTTTTAATCAT
13477934 TTT
1 TTT
13477937 CTATGACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
19 1 0.05
20 7 0.33
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTGTTAATTTTTAATCAT
Found at i:13482715 original size:31 final size:32
Alignment explanation
Indices: 13482651--13482728 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 32
13482641 CCCGCATATT
* *
13482651 CGTGTGGCCCACACGCCTAGATTGGCCTTGCC
1 CGTGTGGCCCACACGCCTAGACTGGCCTAGCC
13482683 CGTGTGGCCCACACG-CTCA-ACTGGCCTAGCC
1 CGTGTGGCCCACACGCCT-AGACTGGCCTAGCC
*
13482714 CGTATGGCCCACACG
1 CGTGTGGCCCACACG
13482729 ACTACACTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 26 0.62
32 16 0.38
ACGTcount: A:0.15, C:0.40, G:0.27, T:0.18
Consensus pattern (32 bp):
CGTGTGGCCCACACGCCTAGACTGGCCTAGCC
Found at i:13488748 original size:123 final size:117
Alignment explanation
Indices: 13488583--13488802 Score: 323
Period size: 123 Copynumber: 1.8 Consensus size: 117
13488573 TAAAAAAAAA
***
13488583 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAATAAAAATTTTTTTTTAAAATTTTTTCT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAATAAAAA---AAATTT-AAATTTTTTC-
13488648 TTTTTTTTCGTGTCAAAATCAGATAGAAATATACGAAAAAAGTAAAAAAAAAAATCTT
61 -TTTTTTTCGTGTCAAAATCAGATAGAAATATACGAAAAAAGTAAAAAAAAAAATCTT
* *
13488706 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAGTAAAAAAAATTTGAATTTTTTCTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAATAAAAAAAATTTAAATTTTTTCTTTTT
* *
13488771 TTCGTGTCAGAATCAGATATAAATATACGAAA
66 TTCGTGTCAAAATCAGATAGAAATATACGAAA
13488803 TACTTTTTTC
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
117 35 0.39
119 9 0.10
120 3 0.03
123 43 0.48
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (117 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAACAATAAAAAAAATTTAAATTTTTTCTTTTT
TTCGTGTCAAAATCAGATAGAAATATACGAAAAAAGTAAAAAAAAAAATCTT
Found at i:13488864 original size:17 final size:16
Alignment explanation
Indices: 13488842--13488873 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
13488832 TGACACGAAA
13488842 AAAAAAAGAAAAAATTC
1 AAAAAAA-AAAAAATTC
13488859 AAAAAAAAAAAAATT
1 AAAAAAAAAAAAATT
13488874 TACTGTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAAAAAAAAAATTC
Found at i:13489060 original size:110 final size:110
Alignment explanation
Indices: 13488872--13489363 Score: 480
Period size: 115 Copynumber: 4.5 Consensus size: 110
13488862 AAAAAAAAAA
* **
13488872 TTTACTGTTGGGTGCCGGCCATTGACAGGCCAACACCC-AAAATTTTTTTTTTACTTTTTTCGTA
1 TTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTACTTTTTTCGTA
*** *
13488936 TATTTATATCTGATTCTGACACGAAAAAAGTTCAAATTTT-TTTT
66 TATTTATATCTGATTCTGACACGAAAAAAGAAAAAATTTTAATTT
13488980 TTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAGATTTTTTTTACTTTTTTCGT
1 TTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA-ATTTTTTTTACTTTTTTCGT
*
13489045 ATATTTATATATGATTCTGACACGAAAAAAAAAGAAAAAATTTTAAAAATTT
65 ATATTTATATCTGATTCTGACACG---AAAAAAGAAAAAATTTT---AATTT
*
13489097 TTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAAAAATTTTTTTTAATTTTTTTCGT
1 TTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTT-ACTTTTTTCGT
* * ** ***
13489161 ATTTTTATATCTGATTCTGACACGAAAAAAATAAAAAAATTCAAAAAAAAA
65 ATATTTATATCTGATTCTGACACG-AAAAAA-GAAAAAATT---TTAATTT
* * * *
13489212 TTTACCGTTGGGTGCTGGCCATTGACAGGCTAGCA-CC---TAAA---TTTTT--TTTTTTCGTA
1 TTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTACTTTTTTCGTA
* * *
13489268 TTTTTATATCTGATCCTGACAC---AAAA-AAATAATTTT--TTT
66 TATTTATATCTGATTCTGACACGAAAAAAGAAAAAATTTTAATTT
* *
13489307 TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTT
1 TTTAC--TGT--TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTT
13489364 TTGTTTTTTT
Statistics
Matches: 325, Mismatches: 34, Indels: 52
0.79 0.08 0.13
Matches are distributed among these distances:
95 4 0.01
97 2 0.01
99 25 0.08
100 9 0.03
102 4 0.01
103 2 0.01
106 36 0.11
108 37 0.11
109 9 0.03
110 42 0.13
112 3 0.01
113 14 0.04
114 7 0.02
115 53 0.16
116 40 0.12
117 38 0.12
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (110 bp):
TTTACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTACTTTTTTCGTA
TATTTATATCTGATTCTGACACGAAAAAAGAAAAAATTTTAATTT
Found at i:13493527 original size:18 final size:19
Alignment explanation
Indices: 13493501--13493549 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
13493491 TGCTTCAATC
13493501 ATTTAAAAAAAT-CATAAA
1 ATTTAAAAAAATACATAAA
*
13493519 ATTTTAAAAAATACATAAA
1 ATTTAAAAAAATACATAAA
*
13493538 A-TAAAAAAAATA
1 ATTTAAAAAAATA
13493550 AGAAGCACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (19 bp):
ATTTAAAAAAATACATAAA
Found at i:13493546 original size:19 final size:18
Alignment explanation
Indices: 13493505--13493547 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
13493495 TCAATCATTT
**
13493505 AAAAAAATCATAAAATTT
1 AAAAAAATCATAAAATAA
*
13493523 TAAAAAATACATAAAATAA
1 AAAAAAAT-CATAAAATAA
13493542 AAAAAA
1 AAAAAA
13493548 TAAGAAGCAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAAATCATAAAATAA
Found at i:13493912 original size:19 final size:16
Alignment explanation
Indices: 13493878--13493911 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
13493868 ATTATTTTTA
13493878 AAATTTTTAATATAAT
1 AAATTTTTAATATAAT
13493894 AAATTATTTAA-ATAAT
1 AAATT-TTTAATATAAT
13493910 AA
1 AA
13493912 TTGAAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTTTTAATATAAT
Found at i:13498481 original size:19 final size:19
Alignment explanation
Indices: 13498417--13498483 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
13498407 AAAATGATAT
* * *
13498417 TTAAAGATAACTAAATTACA
1 TTAAA-ATAAATAAATAAAA
** *
13498437 TTAAAATATTTAAATATAA
1 TTAAAATAAATAAATAAAA
13498456 TGT-AAATAAATAAATAAAA
1 T-TAAAATAAATAAATAAAA
13498475 TTAAAATAA
1 TTAAAATAA
13498484 CCAAAAACTA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.03
19 30 0.81
20 6 0.16
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
TTAAAATAAATAAATAAAA
Found at i:13512358 original size:14 final size:15
Alignment explanation
Indices: 13512335--13512377 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13512325 GTGTGAACTG
13512335 TGATATATGTTTGAA
1 TGATATATGTTTGAA
**
13512350 TGA-ATATGTGTTTTA
1 TGATATATGT-TTGAA
13512365 TGATATATGTTTG
1 TGATATATGTTTG
13512378 TGTGGGTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 6 0.26
15 11 0.48
16 6 0.26
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (15 bp):
TGATATATGTTTGAA
Found at i:13513723 original size:22 final size:22
Alignment explanation
Indices: 13513698--13513751 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
13513688 ACAGTCAGTC
*
13513698 ACGTCGTGATGACGAACACTCA
1 ACGTCGCGATGACGAACACTCA
13513720 ACGTCGCGATGACGAACACTCA
1 ACGTCGCGATGACGAACACTCA
13513742 ACGTCGCGAT
1 ACGTCGCGAT
13513752 AATGTATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.17
Consensus pattern (22 bp):
ACGTCGCGATGACGAACACTCA
Found at i:13515016 original size:16 final size:16
Alignment explanation
Indices: 13514979--13515012 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13514969 AAAAAAAATA
13514979 TTTTAAATAATTATAT
1 TTTTAAATAATTATAT
13514995 TTTTAAA-AATTA-AT
1 TTTTAAATAATTATAT
13515009 TTTT
1 TTTT
13515013 TTAAGTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 5 0.28
16 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAAATAATTATAT
Found at i:13516460 original size:31 final size:31
Alignment explanation
Indices: 13516417--13516475 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
13516407 TGAACTTAGA
13516417 TGTCAAGTTCAGGGGCCACTGTGGACCTACT
1 TGTCAAGTTCAGGGGCCACTGTGGACCTACT
* *
13516448 TGTCTAGTTCAGGGGCCATTGTGGACCT
1 TGTCAAGTTCAGGGGCCACTGTGGACCT
13516476 CCCTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.17, C:0.24, G:0.31, T:0.29
Consensus pattern (31 bp):
TGTCAAGTTCAGGGGCCACTGTGGACCTACT
Found at i:13517935 original size:109 final size:109
Alignment explanation
Indices: 13517744--13517967 Score: 270
Period size: 109 Copynumber: 2.1 Consensus size: 109
13517734 CCCTCGAATA
* * * * * * *
13517744 ATATAACTTATTTTAAATACGAAAAGATATTTTGGTAGTTTCCCTAGTCGAGTTTGTGCCTAGTT
1 ATATAACTTATTTTAAATACGAAAAAACATTTTGGTAATTTCCCTAATCGAGCTAGTGCATAGTT
* * * *
13517809 TACTTGTGACACCAACTCAGTGAGGGGTTTAAATAACAATATAG
66 GACTTGTGACACCAACTCAGTGAAGGATTTAAATAACAACATAG
* ** *
13517853 ATATAACTTATTTTAAATATGAAAAAACATTTTGGTAATTTTTCTAATGGAGCTAGTGTCAT-GT
1 ATATAACTTATTTTAAATACGAAAAAACATTTTGGTAATTTCCCTAATCGAGCTAGTG-CATAGT
* * *
13517917 TGACTTGTGACACCAACTCAGTTAAGGATTTAAATAATAGCATAG
65 TGACTTGTGACACCAACTCAGTGAAGGATTTAAATAACAACATAG
13517962 ATATAA
1 ATATAA
13517968 AAGTATGCAT
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
109 94 0.98
110 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (109 bp):
ATATAACTTATTTTAAATACGAAAAAACATTTTGGTAATTTCCCTAATCGAGCTAGTGCATAGTT
GACTTGTGACACCAACTCAGTGAAGGATTTAAATAACAACATAG
Found at i:13530522 original size:18 final size:19
Alignment explanation
Indices: 13530485--13530522 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
13530475 ACTTGGAATT
*
13530485 TCTTTTAAATGGATATTTTA
1 TCTTTTAAAT-GAAATTTTA
13530505 TCTTTTAAAT-AAATTTTA
1 TCTTTTAAATGAAATTTTA
13530523 AAAGGGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
TCTTTTAAATGAAATTTTA
Found at i:13531836 original size:20 final size:19
Alignment explanation
Indices: 13531794--13531836 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
13531784 TTACAATGAT
* *
13531794 TTTAATATTTAAAATATAG
1 TTTAATATTTAAAATAAAA
13531813 TTTATATATTTAAAATAAAA
1 TTTA-ATATTTAAAATAAAA
13531833 TTTA
1 TTTA
13531837 CAAATAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTAATATTTAAAATAAAA
Found at i:13533878 original size:34 final size:35
Alignment explanation
Indices: 13533834--13533900 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
13533824 CAGTAAAATA
*
13533834 TTTTCCGTAAAATGATTT-CAGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
* *
13533868 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTT
13533901 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
Found at i:13537917 original size:29 final size:29
Alignment explanation
Indices: 13537824--13537916 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
13537814 AAGGCGTTCC
* **
13537824 TTTAACAGAGATGGCCACAAAAACATCCT
1 TTTAACAGAGATAGCCACAAAGGCATCCT
*
13537853 TTTAACAGAGGTAGCCACAAAGGCATCCT
1 TTTAACAGAGATAGCCACAAAGGCATCCT
* * * *
13537882 TTTAACTGAGATCGCCACAAAGGCATTCA
1 TTTAACAGAGATAGCCACAAAGGCATCCT
13537911 TTTAAC
1 TTTAAC
13537917 TAAGAAAACT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (29 bp):
TTTAACAGAGATAGCCACAAAGGCATCCT
Found at i:13537943 original size:29 final size:28
Alignment explanation
Indices: 13537911--13537971 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
13537901 AAGGCATTCA
*
13537911 TTTAACTAAGA-AAACTAAAAAAGCGTTC
1 TTTAACTAAGATAAACAAAAAAAGC-TTC
*
13537939 GTTTAACTAAGATAGACAAAAAAAGCTTC
1 -TTTAACTAAGATAAACAAAAAAAGCTTC
13537968 TTTA
1 TTTA
13537972 TACAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 14 0.48
30 11 0.38
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (28 bp):
TTTAACTAAGATAAACAAAAAAAGCTTC
Found at i:13542269 original size:48 final size:48
Alignment explanation
Indices: 13542195--13542290 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
13542185 TAGGAAATAT
* * *
13542195 TTGAAAAGAGTAAGTTAATATGACTCTGTATGTGATATATGTTATGTA
1 TTGAAAAGAGTAAGTTAATATAACTCTGTAGGTGATAAATGTTATGTA
* *
13542243 TTGAAAATAGTAAGTTAATATAACTCTGTAGGTGTTAAATGTTATGTA
1 TTGAAAAGAGTAAGTTAATATAACTCTGTAGGTGATAAATGTTATGTA
13542291 CAATTGTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (48 bp):
TTGAAAAGAGTAAGTTAATATAACTCTGTAGGTGATAAATGTTATGTA
Found at i:13553655 original size:30 final size:30
Alignment explanation
Indices: 13553600--13553661 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
13553590 CACTAAGCAA
13553600 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
13553629 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
13553660 GT
1 GT
13553662 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:13556342 original size:32 final size:32
Alignment explanation
Indices: 13556301--13556372 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
13556291 ACTTGTGTGA
* *
13556301 GCCCACACACTCGGATTGGCCTTACCCGTATG
1 GCCCACACACCCGGATTGGCCTTACCCATATG
* *
13556333 GCCCACACACCCGGATTGGTCTTGCCCATATG
1 GCCCACACACCCGGATTGGCCTTACCCATATG
13556365 GCCCACAC
1 GCCCACAC
13556373 GACTTGGCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.19, C:0.40, G:0.21, T:0.19
Consensus pattern (32 bp):
GCCCACACACCCGGATTGGCCTTACCCATATG
Found at i:13557834 original size:13 final size:12
Alignment explanation
Indices: 13557794--13557835 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
13557784 TTTTTAATCA
13557794 AATATATAT-TT
1 AATATATATATT
*
13557805 TATATATATATT
1 AATATATATATT
13557817 AAATATATATATGT
1 -AATATATATAT-T
13557831 AATAT
1 AATAT
13557836 GGGTCGGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 15 0.58
14 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
AATATATATATT
Found at i:13558721 original size:37 final size:37
Alignment explanation
Indices: 13558677--13558752 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
13558667 AAAATTTGTG
*
13558677 TCCTATCCTTCCTCTCCTTAAGCTTATATACAAATTA
1 TCCTATCCTCCCTCTCCTTAAGCTTATATACAAATTA
* *
13558714 TCCTATCCTCCCTCTCCTTTAGCTTATATTCAAATTA
1 TCCTATCCTCCCTCTCCTTAAGCTTATATACAAATTA
13558751 TC
1 TC
13558753 TAGTCTAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.32, G:0.03, T:0.42
Consensus pattern (37 bp):
TCCTATCCTCCCTCTCCTTAAGCTTATATACAAATTA
Found at i:13561308 original size:39 final size:40
Alignment explanation
Indices: 13561257--13561346 Score: 137
Period size: 39 Copynumber: 2.2 Consensus size: 40
13561247 AAATTATATA
* *
13561257 TTTAATACAATAAAATATTTATTATATTTAT-TTGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTATGTAGTGTTT
13561296 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTAT-GTAGTGTTT
*
13561337 TTTACTATAA
1 TTTAATATAA
13561347 ATATTTTTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 30 0.65
41 16 0.35
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (40 bp):
TTTAATATAATAAAATATTTATTATATTTATGTAGTGTTT
Found at i:13562687 original size:3 final size:3
Alignment explanation
Indices: 13562679--13562706 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13562669 CTCTTAGGTT
13562679 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13562707 GAAATTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13569640 original size:8 final size:8
Alignment explanation
Indices: 13569629--13569665 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
13569619 CATTTTTAGT
*
13569629 TTTTATAA
1 TTTTAAAA
13569637 TTTTAAAA
1 TTTTAAAA
13569645 TTTTAAAA
1 TTTTAAAA
13569653 TTTTAAAA
1 TTTTAAAA
13569661 TTTTA
1 TTTTA
13569666 GTCCTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TTTTAAAA
Found at i:13575599 original size:18 final size:18
Alignment explanation
Indices: 13575572--13575611 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
13575562 TACATGAAAC
*
13575572 AAAAATAG-AAAAGGCTG
1 AAAAATAGAAAAAAGCTG
13575589 AAAAATGAGAAAAAAGCTG
1 AAAAAT-AGAAAAAAGCTG
13575608 AAAA
1 AAAA
13575612 TATTTTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 2 0.10
19 12 0.60
ACGTcount: A:0.65, C:0.05, G:0.20, T:0.10
Consensus pattern (18 bp):
AAAAATAGAAAAAAGCTG
Found at i:13587281 original size:7 final size:7
Alignment explanation
Indices: 13587266--13587299 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
13587256 ATTAAATAAT
13587266 TATTATA
1 TATTATA
*
13587273 TACTATA
1 TATTATA
13587280 TATTATA
1 TATTATA
13587287 TATTATA
1 TATTATA
13587294 TATTAT
1 TATTAT
13587300 GAAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (7 bp):
TATTATA
Found at i:13588772 original size:2 final size:2
Alignment explanation
Indices: 13588767--13588793 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13588757 GAACATTGTA
13588767 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13588794 GGAAAAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13597447 original size:43 final size:43
Alignment explanation
Indices: 13597383--13597468 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
13597373 TTTGTGATTG
*
13597383 ATATTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
* *
13597426 ATATTGAAATGAAAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
13597469 TGAGATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:13597450 original size:16 final size:16
Alignment explanation
Indices: 13597388--13597453 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
13597378 GATTGATATT
* *
13597388 GAAATGGAAAAGATGA
1 GAAATGAAAAATATGA
13597404 GAAATG---AATATGA
1 GAAATGAAAAATATGA
*
13597417 G--ATGAGAAAATAT-T
1 GAAATGA-AAAATATGA
13597431 GAAATGAAAAATATGA
1 GAAATGAAAAATATGA
13597447 GAAATGA
1 GAAATGA
13597454 TTATGAGATG
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 3 0.08
13 7 0.17
14 1 0.03
15 12 0.30
16 17 0.43
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.20
Consensus pattern (16 bp):
GAAATGAAAAATATGA
Found at i:13598035 original size:23 final size:25
Alignment explanation
Indices: 13597985--13598038 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
13597975 TGAGGCTATG
13597985 TTGGTATGCTAGCCTAGTTTATATT
1 TTGGTATGCTAGCCTAGTTTATATT
*
13598010 TTGGTATG-T-GCTTAGTTTCATA-T
1 TTGGTATGCTAGCCTAGTTT-ATATT
13598033 TTGGTA
1 TTGGTA
13598039 ACTTTAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 15 0.56
24 4 0.15
25 8 0.30
ACGTcount: A:0.19, C:0.09, G:0.22, T:0.50
Consensus pattern (25 bp):
TTGGTATGCTAGCCTAGTTTATATT
Found at i:13598789 original size:49 final size:49
Alignment explanation
Indices: 13598717--13598813 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
13598707 TCTAGAAGGG
* *
13598717 ATAAATAGTAATAAGAGTGTAGACAGTGAAAGACTAAATTTAGCAATGT
1 ATAAATAGTAATAAGAGTGTAGACAGTGAAAGACCAAATTTAGAAATGT
* * *
13598766 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGTAATAAGAGTGTAGACAGTGAAAGACCAAATTTAGAAATG
13598814 CATAGCATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.25
Consensus pattern (49 bp):
ATAAATAGTAATAAGAGTGTAGACAGTGAAAGACCAAATTTAGAAATGT
Found at i:13608194 original size:25 final size:25
Alignment explanation
Indices: 13608166--13608275 Score: 102
Period size: 24 Copynumber: 4.5 Consensus size: 25
13608156 TAGCTCTTAT
*
13608166 GAGCATCCC-ATTACATGGCTCTCAC
1 GAGCTTCCCGATTA-ATGGCTCTCAC
* * *
13608191 GAGCTTCCCGA-TATTGGCTCGCAT
1 GAGCTTCCCGATTAATGGCTCTCAC
13608215 GAGCTTCCCGATTAATGGCTCTC-C
1 GAGCTTCCCGATTAATGGCTCTCAC
* * *
13608239 GGAGCTTCCCGA-TATTGGCTCGCAT
1 -GAGCTTCCCGATTAATGGCTCTCAC
*
13608264 GAGCTTCTCGAT
1 GAGCTTCCCGAT
13608276 ATTTGGCTTG
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
24 38 0.55
25 30 0.43
26 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.28
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTCAC
Found at i:13608218 original size:24 final size:24
Alignment explanation
Indices: 13608181--13608296 Score: 133
Period size: 24 Copynumber: 4.8 Consensus size: 24
13608171 TCCCATTACA
* *
13608181 TGGCTCTCACGAGCTTCCCGATAT
1 TGGCTCGCATGAGCTTCCCGATAT
*
13608205 TGGCTCGCATGAGCTTCCCGATTAA
1 TGGCTCGCATGAGCTTCCCGA-TAT
* **
13608230 TGGCTCTCCGGAGCTTCCCGATAT
1 TGGCTCGCATGAGCTTCCCGATAT
*
13608254 TGGCTCGCATGAGCTTCTCGATATT
1 TGGCTCGCATGAGCTTCCCGATA-T
* *
13608279 TGGCTTGCAAGAGCTTCC
1 TGGCTCGCATGAGCTTCC
13608297 TGTTAGATAG
Statistics
Matches: 76, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
24 40 0.53
25 36 0.47
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.30
Consensus pattern (24 bp):
TGGCTCGCATGAGCTTCCCGATAT
Found at i:13608233 original size:49 final size:50
Alignment explanation
Indices: 13608164--13608275 Score: 176
Period size: 49 Copynumber: 2.3 Consensus size: 50
13608154 TTTAGCTCTT
*
13608164 ATGAGCATCCC-ATTACATGGCTCTCAC-GAGCTTCCCGATATTGGCTCGC
1 ATGAGCTTCCCGATTACATGGCTCTC-CGGAGCTTCCCGATATTGGCTCGC
13608213 ATGAGCTTCCCGATTA-ATGGCTCTCCGGAGCTTCCCGATATTGGCTCGC
1 ATGAGCTTCCCGATTACATGGCTCTCCGGAGCTTCCCGATATTGGCTCGC
*
13608262 ATGAGCTTCTCGAT
1 ATGAGCTTCCCGAT
13608276 ATTTGGCTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
48 1 0.02
49 54 0.92
50 4 0.07
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.29
Consensus pattern (50 bp):
ATGAGCTTCCCGATTACATGGCTCTCCGGAGCTTCCCGATATTGGCTCGC
Found at i:13608293 original size:49 final size:49
Alignment explanation
Indices: 13608164--13608296 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 49
13608154 TTTAGCTCTT
* *
13608164 ATGAGCATCCC-ATTACATGGCTCTCACGAGCTTCCCGATATTGGCTCGC
1 ATGAGCTTCCCGATTA-ATGGCTCTCAAGAGCTTCCCGATATTGGCTCGC
**
13608213 ATGAGCTTCCCGATTAATGGCTCTCCGGAGCTTCCCGATATTGGCTCGC
1 ATGAGCTTCCCGATTAATGGCTCTCAAGAGCTTCCCGATATTGGCTCGC
* *
13608262 ATGAGCTTCTCGA-TATTTGGCT-TGCAAGAGCTTCC
1 ATGAGCTTCCCGATTA-ATGGCTCT-CAAGAGCTTCC
13608297 TGTTAGATAG
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
48 3 0.04
49 67 0.91
50 4 0.05
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (49 bp):
ATGAGCTTCCCGATTAATGGCTCTCAAGAGCTTCCCGATATTGGCTCGC
Found at i:13610519 original size:42 final size:42
Alignment explanation
Indices: 13610451--13610558 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
13610441 GTGCTAAACA
* * * *
13610451 GAAACCCATATGGGTTGAAC-GAAAGCTCGTAAGAGCTGAA-T
1 GAAACCCAAAAGGGTTAAACTG-AAGCTCGAAAGAGCTGAACT
13610492 GGAAACCCAAAAGGGTTAAACTGAAGCTCGAAAGAGCTGAACT
1 -GAAACCCAAAAGGGTTAAACTGAAGCTCGAAAGAGCTGAACT
* *
13610535 AAAACCCAGAAGGGTTAAACTGAA
1 GAAACCCAAAAGGGTTAAACTGAA
13610559 ACTCAAATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 56 0.97
43 2 0.03
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.16
Consensus pattern (42 bp):
GAAACCCAAAAGGGTTAAACTGAAGCTCGAAAGAGCTGAACT
Found at i:13610560 original size:21 final size:21
Alignment explanation
Indices: 13610493--13610560 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
13610483 GAGCTGAATG
*
13610493 GAAACCCAAAAGGGTTAAACT
1 GAAACCCAGAAGGGTTAAACT
* * * * *
13610514 GAAGCTC-GAAAGAGCTGAACT
1 GAAACCCAG-AAGGGTTAAACT
*
13610535 AAAACCCAGAAGGGTTAAACT
1 GAAACCCAGAAGGGTTAAACT
13610556 GAAAC
1 GAAAC
13610561 TCAAATGAGT
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (21 bp):
GAAACCCAGAAGGGTTAAACT
Found at i:13616941 original size:35 final size:35
Alignment explanation
Indices: 13616895--13616965 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
13616885 GAATAATTAC
13616895 ATAATACCATTCATTAATCTAGCATTTAACCTTAA
1 ATAATACCATTCATTAATCTAGCATTTAACCTTAA
13616930 ATAATACCATTCATTAATCTAGCATTTAACCTTAA
1 ATAATACCATTCATTAATCTAGCATTTAACCTTAA
13616965 A
1 A
13616966 GTTTAACCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.37
Consensus pattern (35 bp):
ATAATACCATTCATTAATCTAGCATTTAACCTTAA
Found at i:13623696 original size:20 final size:19
Alignment explanation
Indices: 13623673--13623725 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
13623663 AAATAAATAA
* *
13623673 AAAATTTAAAAAAATTCGTT
1 AAAATTTAAAAAAAAT-ATT
*
13623693 AAAATATCAAAAAAAATATT
1 AAAAT-TTAAAAAAAATATT
*
13623713 AAAACTTAAAAAA
1 AAAATTTAAAAAA
13623726 TCATAAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.26
20 11 0.41
21 9 0.33
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAATTTAAAAAAAATATT
Found at i:13623725 original size:17 final size:17
Alignment explanation
Indices: 13623702--13623748 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
13623692 TAAAATATCA
13623702 AAAAAAATATTAAAACT
1 AAAAAAATATTAAAACT
* *
13623719 TAAAAAATCATAAAAACT
1 AAAAAAAT-ATTAAAACT
*
13623737 AAAAAAAAATTA
1 AAAAAAATATTA
13623749 TTATCTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAAATATTAAAACT
Found at i:13628282 original size:24 final size:20
Alignment explanation
Indices: 13628231--13628270 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13628221 CATTTCATTT
13628231 ATGCAATTGCTTTATCCATA
1 ATGCAATTGCTTTATCCATA
13628251 ATGCAATTGCTTTATCCATA
1 ATGCAATTGCTTTATCCATA
13628271 CCATATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGCAATTGCTTTATCCATA
Found at i:13628539 original size:41 final size:41
Alignment explanation
Indices: 13628414--13628546 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 41
13628404 ACCAGTTTGG
* *
13628414 CACCCAGTGTCTCATCAGA-TAATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATTAGATTAATCCGAAGTAATAAATTGA
* * * * * *
13628454 CACTCAATGTCTCA-TCGGTTAAACCGAAG---TAAATTGG
1 CACCCAGTGTCTCATTAGATTAATCCGAAGTAATAAATTGA
* * *
13628491 CATCCAGTGCCTCATTAAATTAATCCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATTAGATTAATCCGAAGTAATAAATTGA
13628532 CACCCAGTGTCTCAT
1 CACCCAGTGTCTCAT
13628547 CGACTTGAAG
Statistics
Matches: 69, Mismatches: 19, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
37 17 0.25
38 11 0.16
39 1 0.01
40 20 0.29
41 20 0.29
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (41 bp):
CACCCAGTGTCTCATTAGATTAATCCGAAGTAATAAATTGA
Found at i:13631727 original size:31 final size:29
Alignment explanation
Indices: 13631692--13631811 Score: 99
Period size: 31 Copynumber: 4.1 Consensus size: 29
13631682 AACCCTAACA
13631692 TTTCTCTTCCTTTCTTTATT-TTTTTCTTTTC
1 TTTCT-TTCCTTTCTTT-TTGTTTTT-TTTTC
13631723 TTTCTTTCCTTCTCTGTTTTGTTTTTTTTTC
1 TTTCTTTCCTT-TCT-TTTTGTTTTTTTTTC
**
13631754 TTTCTTTCC-TTC--TTTGTTTCGTTTT-
1 TTTCTTTCCTTTCTTTTTGTTTTTTTTTC
* *
13631779 TTTCTCTCC-TTCTTTTTCTATTTCTTTTTC
1 TTTCTTTCCTTTCTTTTTGT-TTT-TTTTTC
13631809 TTT
1 TTT
13631812 TACTTTATCA
Statistics
Matches: 75, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
25 11 0.15
26 11 0.15
27 4 0.05
28 2 0.03
29 6 0.08
30 10 0.13
31 24 0.32
32 7 0.09
ACGTcount: A:0.02, C:0.22, G:0.03, T:0.73
Consensus pattern (29 bp):
TTTCTTTCCTTTCTTTTTGTTTTTTTTTC
Found at i:13631788 original size:25 final size:26
Alignment explanation
Indices: 13631740--13631793 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
13631730 CCTTCTCTGT
** *
13631740 TTTGTTTTTTTTTCTTTCTTTCCTTC
1 TTTGTTTCGTTTTCTTTCTCTCCTTC
13631766 TTTGTTTCGTTTT-TTTCTCTCCTTC
1 TTTGTTTCGTTTTCTTTCTCTCCTTC
13631791 TTT
1 TTT
13631794 TTCTATTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (26 bp):
TTTGTTTCGTTTTCTTTCTCTCCTTC
Found at i:13631807 original size:56 final size:55
Alignment explanation
Indices: 13631696--13631811 Score: 121
Period size: 56 Copynumber: 2.1 Consensus size: 55
13631686 CTAACATTTC
* * * * *
13631696 TCTTCCTTTCTTTATTTTTTTCTTTTCTTTCTTTCCTTCTCTGTTTTGTTTTTTTT
1 TCTTTCTTTCCTTATTTGTTTCTTTTCTTTCTCTCCTTCTCTGTTTT-ATTTTTTT
*
13631752 TCTTTCTTTCCTTCTTTGTTTCGTTTT-TTTCTCTCCTTCT-T-TTTCTATTTCTTTT
1 TCTTTCTTTCCTTATTTGTTTC-TTTTCTTTCTCTCCTTCTCTGTTT-TATTT-TTTT
13631807 TCTTT
1 TCTTT
13631812 TACTTTATCA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
54 6 0.12
55 11 0.22
56 30 0.59
57 4 0.08
ACGTcount: A:0.02, C:0.22, G:0.03, T:0.73
Consensus pattern (55 bp):
TCTTTCTTTCCTTATTTGTTTCTTTTCTTTCTCTCCTTCTCTGTTTTATTTTTTT
Found at i:13632586 original size:17 final size:17
Alignment explanation
Indices: 13632538--13632578 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
13632528 TTTTAATATT
*
13632538 TTTTATGATTTTTTTAC
1 TTTTATGATTTTTTTAA
13632555 TTTTAATGATTTTTTTAA
1 TTTT-ATGATTTTTTTAA
13632573 TTTTAT
1 TTTTAT
13632579 TATATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTATGATTTTTTTAA
Found at i:13634431 original size:76 final size:78
Alignment explanation
Indices: 13634111--13634442 Score: 515
Period size: 78 Copynumber: 4.3 Consensus size: 78
13634101 AAAGTATATA
*
13634111 AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
1 AATTGAATTAAAGGTATGAATTATATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
13634176 GTATAAGTTCTTG
66 GTATAAGTTCTTG
13634189 AATTGAATTAAAGGTATGAATTATATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
1 AATTGAATTAAAGGTATGAATTATATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
13634254 GTATAAGTTCTTG
66 GTATAAGTTCTTG
13634267 AATTGAATTAAAGGTATGAATTATATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
1 AATTGAATTAAAGGTATGAATTATATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
*
13634332 GTATAAGTTCCTG
66 GTATAAGTTCTTG
* * * * * * *
13634345 AATTGAATTAAAGGTATGAATTTTACATATGTATGTGTGTGATTTG-A-ATAGATGTATATACAT
1 AATTGAATTAAAGGTATGAATTATATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
* * *
13634408 ATACAAGTACTTG
66 GTATAAGTTCTTG
* **
13634421 AGTTGAATTAAAATTATGAATT
1 AATTGAATTAAAGGTATGAATT
13634443 GTAAATACTC
Statistics
Matches: 238, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
76 43 0.18
77 1 0.00
78 194 0.82
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (78 bp):
AATTGAATTAAAGGTATGAATTATATATATGTATATGTGAGGTTCGAATATATATGTATATACAT
GTATAAGTTCTTG
Found at i:13634668 original size:40 final size:41
Alignment explanation
Indices: 13634598--13634688 Score: 166
Period size: 40 Copynumber: 2.2 Consensus size: 41
13634588 TGCCTAGTAT
*
13634598 GCTTAATGCCGGTGAAATTTTTTAGACTTAATGTCTAGCAG
1 GCTTAATGCCGGTGAAATTTTTCAGACTTAATGTCTAGCAG
13634639 GCTTAATGCCGGTG-AATTTTTCAGACTTAATGTCTAGCAG
1 GCTTAATGCCGGTGAAATTTTTCAGACTTAATGTCTAGCAG
13634679 GCTTAATGCC
1 GCTTAATGCC
13634689 AGTGTTCTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 35 0.71
41 14 0.29
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (41 bp):
GCTTAATGCCGGTGAAATTTTTCAGACTTAATGTCTAGCAG
Found at i:13634877 original size:35 final size:35
Alignment explanation
Indices: 13634838--13634944 Score: 102
Period size: 35 Copynumber: 3.2 Consensus size: 35
13634828 TATTTGATAA
13634838 GTATATATATGCATTCGGTTATATACCTTTGAAGT
1 GTATATATATGCATTCGGTTATATACCTTTGAAGT
* *
13634873 G----TATATGCTTTCGATTATAAGTA--TTTGATAG-
1 GTATATATATGCATTCGGTTAT-A-TACCTTTGA-AGT
* *
13634904 GTATATATATGCATTTGGTTATATACCTTTGATGT
1 GTATATATATGCATTCGGTTATATACCTTTGAAGT
13634939 GTATAT
1 GTATAT
13634945 GCAGTCGATT
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
31 21 0.38
32 3 0.05
33 4 0.07
34 2 0.04
35 26 0.46
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (35 bp):
GTATATATATGCATTCGGTTATATACCTTTGAAGT
Found at i:13634891 original size:31 final size:31
Alignment explanation
Indices: 13634843--13635087 Score: 124
Period size: 31 Copynumber: 7.6 Consensus size: 31
13634833 GATAAGTATA
*
13634843 TATATGCATTCGGTTATATACCTTTGAAGTG
1 TATATGCATTCGATTATATACCTTTGAAGTG
* *
13634874 TATATGCTTTCGATTATAAGTA--TTTGATAGGTATA
1 TATATGCATTCGATTAT-A-TACCTTTGA-A-G--TG
* * *
13634909 TATATGCATTTGGTTATATACCTTTGATGTG
1 TATATGCATTCGATTATATACCTTTGAAGTG
* *
13634940 TATATGCAGTCGATTATAAGTA--TTTGATAGGTA
1 TATATGCATTCGATTAT-A-TACCTTTGA-A-GTG
* * * * *
13634973 TATATGCATTCGGTTGTATGCATTTGATGTG
1 TATATGCATTCGATTATATACCTTTGAAGTG
* *
13635004 TATATGCATTTGATTATAAGTA--TTTGATAGGTA
1 TATATGCATTCGATTAT-A-TACCTTTGA-A-GTG
* * * *
13635037 TATATTTGCATTCGGTTGTATACATTTGATGTG
1 TATA--TGCATTCGATTATATACCTTTGAAGTG
*
13635070 TATATGCATTCGGTTATA
1 TATATGCATTCGATTATA
13635088 AGTAGTTGAT
Statistics
Matches: 161, Mismatches: 31, Indels: 44
0.68 0.13 0.19
Matches are distributed among these distances:
31 75 0.47
32 5 0.03
33 44 0.27
34 2 0.01
35 35 0.22
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (31 bp):
TATATGCATTCGATTATATACCTTTGAAGTG
Found at i:13634934 original size:66 final size:66
Alignment explanation
Indices: 13634828--13635138 Score: 425
Period size: 66 Copynumber: 4.8 Consensus size: 66
13634818 ATTTATATCT
* * * *
13634828 TATTTGATAAGTATATATATGCATTCGGTTATATACCTTTGAAGTGTATATGCTTTCGATTATAA
1 TATTTGATAGGTATATATATGCATTCGGTTATATACATTTGATGTGTATATGCATTCGATTATAA
13634893 G
66 G
* * *
13634894 TATTTGATAGGTATATATATGCATTTGGTTATATACCTTTGATGTGTATATGCAGTCGATTATAA
1 TATTTGATAGGTATATATATGCATTCGGTTATATACATTTGATGTGTATATGCATTCGATTATAA
13634959 G
66 G
* * *
13634960 TATTTGATAGG--TATATATGCATTCGGTTGTATGCATTTGATGTGTATATGCATTTGATTATAA
1 TATTTGATAGGTATATATATGCATTCGGTTATATACATTTGATGTGTATATGCATTCGATTATAA
13635023 G
66 G
* * *
13635024 TATTTGATAGGTATATATTTGCATTCGGTTGTATACATTTGATGTGTATATGCATTCGGTTATAA
1 TATTTGATAGGTATATATATGCATTCGGTTATATACATTTGATGTGTATATGCATTCGATTATAA
13635089 G
66 G
* * * *
13635090 TAGTTGATAAG--TATATATGCATTCGGTTATA-AGTATTTGATGAGTATAT
1 TATTTGATAGGTATATATATGCATTCGGTTATATA-CATTTGATGTGTATAT
13635139 ACATACATTT
Statistics
Matches: 221, Mismatches: 21, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
63 1 0.00
64 90 0.41
66 130 0.59
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (66 bp):
TATTTGATAGGTATATATATGCATTCGGTTATATACATTTGATGTGTATATGCATTCGATTATAA
G
Found at i:13634982 original size:130 final size:130
Alignment explanation
Indices: 13634831--13635120 Score: 438
Period size: 130 Copynumber: 2.2 Consensus size: 130
13634821 TATATCTTAT
*
13634831 TTGATAAGTATATATATGCATTCGGTTATATACCTTTGAAGTGTATATGC-TTTCGATTATAAGT
1 TTGATAAG--TATATATGCATTCGGTTATATACATTTGAAGTGTATATGCATTT-GATTATAAGT
* *
13634895 ATTTGATAGGTATATATATGCATTTGGTTATATACCTTTGATGTGTATATGCAGTCGATTATAAG
63 ATTTGATAGGTATATATATGCATTCGGTTATATACATTTGATGTGTATATGCAGTCGATTATAAG
*
13634960 TAT
128 TAG
* * * *
13634963 TTGATAGGTATATATGCATTCGGTTGTATGCATTTGATGTGTATATGCATTTGATTATAAGTATT
1 TTGATAAGTATATATGCATTCGGTTATATACATTTGAAGTGTATATGCATTTGATTATAAGTATT
* * * *
13635028 TGATAGGTATATATTTGCATTCGGTTGTATACATTTGATGTGTATATGCATTCGGTTATAAGTAG
66 TGATAGGTATATATATGCATTCGGTTATATACATTTGATGTGTATATGCAGTCGATTATAAGTAG
13635093 TTGATAAGTATATATGCATTCGGTTATA
1 TTGATAAGTATATATGCATTCGGTTATA
13635121 AGTATTTGAT
Statistics
Matches: 143, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
130 133 0.93
131 3 0.02
132 7 0.05
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (130 bp):
TTGATAAGTATATATGCATTCGGTTATATACATTTGAAGTGTATATGCATTTGATTATAAGTATT
TGATAGGTATATATATGCATTCGGTTATATACATTTGATGTGTATATGCAGTCGATTATAAGTAG
Found at i:13638208 original size:27 final size:27
Alignment explanation
Indices: 13638138--13638208 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
13638128 TGCCATATCA
* *
13638138 ATAGGCGACACTAGTGACCCTTACTTG
1 ATAGGCGGCACTAGTGACCCCTACTTG
*
13638165 ATAGGCGGTACTAGTGACCCCTATCTT-
1 ATAGGCGGCACTAGTGACCCCTA-CTTG
* *
13638192 ATAGGTGGCACTGGTGA
1 ATAGGCGGCACTAGTGA
13638209 AGTAAATTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 34 0.92
28 3 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (27 bp):
ATAGGCGGCACTAGTGACCCCTACTTG
Found at i:13642344 original size:21 final size:21
Alignment explanation
Indices: 13642315--13642356 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13642305 GCATGCGAAT
* *
13642315 TAAAAGAAAAAGAATAAAGAA
1 TAAAAGAAAAAAAAGAAAGAA
*
13642336 TAAAGGAAAAAAAAGAAAGAA
1 TAAAAGAAAAAAAAGAAAGAA
13642357 AGAACAGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (21 bp):
TAAAAGAAAAAAAAGAAAGAA
Found at i:13648403 original size:35 final size:35
Alignment explanation
Indices: 13648357--13648426 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
13648347 CACTCTCGTG
*
13648357 ACTTTTATTTTAGGAAGGAGATAATTTTTTTTTAC
1 ACTTTTATTTTAGGAAGGAGATAATTTGTTTTTAC
13648392 ACTTTTATTTTAGGAAGGAGATAATTTGTTTTTAC
1 ACTTTTATTTTAGGAAGGAGATAATTTGTTTTTAC
13648427 TTATTTTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.50
Consensus pattern (35 bp):
ACTTTTATTTTAGGAAGGAGATAATTTGTTTTTAC
Found at i:13666820 original size:11 final size:11
Alignment explanation
Indices: 13666785--13666826 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
13666775 AAATCCTTTA
13666785 TCTC-AATTTC
1 TCTCAAATTTC
*
13666795 TCTCTAATATTC
1 TCTCAAAT-TTC
13666807 TCTCAAATTTC
1 TCTCAAATTTC
13666818 TCTCAAATT
1 TCTCAAATT
13666827 CCTATTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 4 0.14
11 15 0.52
12 10 0.34
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (11 bp):
TCTCAAATTTC
Found at i:13668683 original size:18 final size:18
Alignment explanation
Indices: 13668660--13668702 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
13668650 TGCCAAGTGC
*
13668660 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTTTAT
13668678 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTTTAT
*
13668696 GTTTCCT
1 GTATCCT
13668703 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTTTAT
Found at i:13669177 original size:49 final size:49
Alignment explanation
Indices: 13669122--13669242 Score: 224
Period size: 49 Copynumber: 2.5 Consensus size: 49
13669112 ATTTTTATTA
13669122 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
13669171 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTT
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
13669220 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
13669243 AATATTCTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.45
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:13672568 original size:125 final size:125
Alignment explanation
Indices: 13672342--13672753 Score: 662
Period size: 125 Copynumber: 3.3 Consensus size: 125
13672332 ACCAAACATG
* * * *
13672342 CTACTGTAGCAAAAGCGCGTCCACGTTGGAGTGATTTCAAAAATTCTTTTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTTAAAAATTCTTCTGATAAAGCATCCTGC
* * *
13672407 TTGAAACGTTTTTTATACTATTTGGTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
13672467 CTATTGTAGCAAAAGCGAGTCCACGTGGGAGCGATTTTAAAAATTCTTCTGATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTTAAAAATTCTTCTGATAAAGCATCCTGC
13672532 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
13672592 CTACTATAGCAAAAGCGCGTCCACGTGGGAGCGATTTTAGAAATTATTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTTAAAAATTCTTCTGATAAAGCATCCTGC
* *
13672657 TTGAAGCGTTTTTTATTCTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
13672717 CTACTGTATCAAAAACGCGTCCAAGTGGGAGCGATTT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTT
13672754 CCTTAATAAA
Statistics
Matches: 265, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 265 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTTAAAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:13676226 original size:3 final size:3
Alignment explanation
Indices: 13676218--13676254 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
13676208 TTGGGTTAGG
* *
13676218 GAA GAA GAA GAA GAG GAG GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
13676255 GGGGAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13678307 original size:23 final size:23
Alignment explanation
Indices: 13678275--13678325 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
13678265 ATTGTTCCAA
13678275 CTTTG-GATAATAAGCTTATAGG
1 CTTTGTGATAATAAGCTTATAGG
13678297 CTTTGTGATAATAAGCTTATAGG
1 CTTTGTGATAATAAGCTTATAGG
13678320 CTTTGT
1 CTTTGT
13678326 TTTCATTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
CTTTGTGATAATAAGCTTATAGG
Found at i:13679624 original size:43 final size:42
Alignment explanation
Indices: 13679480--13679634 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 42
13679470 GGCGCTTGTA
*
13679480 AAGAACATGGTT-TTTAGCGGCG-TTTTTTT-CTAAGCGCCGCT
1 AAGAACAT-GTTCTTTAGCGGCGCTTTTTTTAC-AAACGCCGCT
* * * * * *
13679521 GAAGAACATGTTCTTTAACGGCGCTTTGTATAAAAACACCGTT
1 -AAGAACATGTTCTTTAGCGGCGCTTTTTTTACAAACGCCGCT
* ** *
13679564 AGAGATCATAATATTTAGCGGCGCTTTTTTTACAAACGCCGCT
1 A-AGAACATGTTCTTTAGCGGCGCTTTTTTTACAAACGCCGCT
13679607 ACAGAACATGTTCTTTAGCGGCGCTTTT
1 A-AGAACATGTTCTTTAGCGGCGCTTTT
13679635 GTACAAAAAC
Statistics
Matches: 87, Mismatches: 22, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
41 3 0.03
42 18 0.21
43 66 0.76
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (42 bp):
AAGAACATGTTCTTTAGCGGCGCTTTTTTTACAAACGCCGCT
Found at i:13680039 original size:21 final size:21
Alignment explanation
Indices: 13680015--13680065 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
13680005 TTCTTTTGAA
*
13680015 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
13680036 CCTCTGCTTCCCTCGCTGCTG
1 CCTCTGCTTCCCTCGCTGCAG
*
13680057 CGTCTGCTT
1 CCTCTGCTT
13680066 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.43, G:0.20, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:13683933 original size:16 final size:16
Alignment explanation
Indices: 13683886--13683927 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
13683876 TGTATGCCCC
*
13683886 ATGTAAGTAATGTAAGCT
1 ATGTAAGTAATGT-A-TT
13683904 ATGTAAGTAATGTATT
1 ATGTAAGTAATGTATT
13683920 ATGTAAGT
1 ATGTAAGT
13683928 TGTGTACTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.39
17 1 0.04
18 13 0.57
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (16 bp):
ATGTAAGTAATGTATT
Found at i:13684018 original size:27 final size:27
Alignment explanation
Indices: 13683985--13684521 Score: 666
Period size: 27 Copynumber: 20.6 Consensus size: 27
13683975 GTTATGTATA
**
13683985 ATGTAAGTTATGCCAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* *
13684012 ACGTAAGTTATGTAAGTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* * *
13684039 ATGTAAGTTACT-TAATTTATGTAAGTT
1 ATGTAAGTTA-TGTAAGTTATTTAATTT
* *
13684066 ATTTAATTTATGTAAG----TT-ATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
13684088 A-G---GTTATGTAAGTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* *
13684111 ATGTAAGTTATATAAGATATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
13684138 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
13684165 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
13684192 ACT-TAATTTATGTAAG---------TT
1 A-TGTAAGTTATGTAAGTTATTTAATTT
* * *
13684210 ATGTAAGTTACT-TAATTTATGTAAGTT
1 ATGTAAGTTA-TGTAAGTTATTTAATTT
* *
13684237 ATGTAAGTTGTGTAAGTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
13684264 ATGTAAGTTATGTAAGATATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
13684291 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
13684318 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
13684345 ATGTAAGTTATGTAAGTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
13684372 ATGTAAGTTATGTAAGTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
13684399 ATGTAAGTTATGTAAGATATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
13684426 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* * *
13684453 TTCTAAGTTATGTAAGTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
13684480 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
13684507 TTGTAAGTTATGTAA
1 ATGTAAGTTATGTAA
13684522 TTAATGTAAG
Statistics
Matches: 442, Mismatches: 44, Indels: 48
0.83 0.08 0.09
Matches are distributed among these distances:
17 1 0.00
18 21 0.05
19 1 0.00
22 6 0.01
23 6 0.01
24 1 0.00
26 2 0.00
27 402 0.91
28 2 0.00
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (27 bp):
ATGTAAGTTATGTAAGTTATTTAATTT
Found at i:13684059 original size:36 final size:36
Alignment explanation
Indices: 13684014--13684535 Score: 497
Period size: 36 Copynumber: 14.2 Consensus size: 36
13684004 TTTAATTTAC
13684014 GTAAGTTATGTAAGTTACTTAATTTATGTAAGTTACT
1 GTAAGTTATGTAAGTTACTTAATTTATGTAAGTTA-T
* *
13684051 -TAATTTATGTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTACTTAATTTATGTAAGTTAT
* *
13684086 TTAGGTTATGTAAGTTACTTAATTTATGTAAGTTATAT
1 GTAAGTTATGTAAGTTACTTAATTTATGTAAG-T-TAT
* * * *
13684124 AAGATATTTAATTTATGTAAGTTA-TGTAAGTTATTTAATTTAT
1 --G-----TAAGTTATGTAAGTTACT-TAATTTATGTAAGTTAT
* *
13684167 GTAAGTTATGTAAGTTATTTAATTTACT-TAATTTAT
1 GTAAGTTATGTAAGTTACTTAATTTA-TGTAAGTTAT
13684203 GTAAGTTATGTAAGTTACTTAATTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTACTTAATTTATGTAAGTTAT
*
13684239 GTAAGTTGTGTAAGTTACTTAATTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTACTTAATTTATGTAAGTTAT
* * * *
13684275 GTAAGATATTTAATTTA-TGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTAT
* * * * *
13684311 TTAATTTATGTAAGTTA-TGTAAGTTATTTAATTTAT
1 GTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTAT
13684347 GTAAGTTATGTAAGTTACTTAATTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTACTTAATTTATGTAAGTTAT
* * *
13684383 GTAAGTTACT-TAATTTA-TGTAAGTTATGTAAGATAT
1 GTAAGTTA-TGTAAGTTACT-TAATTTATGTAAGTTAT
* * * * * *
13684419 TTAATTTATGTAAGTTA-TGTAAGTTATTTAATTTTT
1 GTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTAT
*
13684455 CTAAGTTATGTAAGTTACTTAATTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTACTTAATTTATGTAAGTTAT
* ** *
13684491 GTAAGTTATTTAA-TTTTTGTAAGTTATGTAA-TTAAT
1 GTAAGTTATGTAAGTTACT-TAATTTATGTAAGTT-AT
13684527 GTAAGTTAT
1 GTAAGTTAT
13684536 TTAATTTGTG
Statistics
Matches: 409, Mismatches: 54, Indels: 45
0.81 0.11 0.09
Matches are distributed among these distances:
35 10 0.02
36 360 0.88
37 6 0.01
38 3 0.01
41 1 0.00
43 3 0.01
44 2 0.00
45 24 0.06
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.50
Consensus pattern (36 bp):
GTAAGTTATGTAAGTTACTTAATTTATGTAAGTTAT
Found at i:13687740 original size:41 final size:40
Alignment explanation
Indices: 13687672--13687751 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 40
13687662 TTTAAGTCAC
13687672 TTTTGCGGCGTTTCTTGTACAAACGCCGCT-ATTGCTTAAT
1 TTTTGCGGCGTTTCTTGTACAAACGCCGCTAATTG-TTAAT
13687712 TTTTAGCGGCGTTT-TTAGTA-AAATCGCCGCTAATTGTTAA
1 TTTT-GCGGCGTTTCTT-GTACAAA-CGCCGCTAATTGTTAA
13687752 AGTTGTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
40 9 0.25
41 23 0.64
42 4 0.11
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (40 bp):
TTTTGCGGCGTTTCTTGTACAAACGCCGCTAATTGTTAAT
Done.