Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 26 of 410
Found at i:6626242 original size:28 final size:28
Alignment explanation
Indices: 6626187--6626242 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
6626177 ATGTATTTGA
* *
6626187 ACTAACAATTTCAGCCAAAATTACTAAT
1 ACTAACAATCTCAGCCAAAATTAATAAT
*
6626215 ACTAACTAATCTCAGCCAACA-TAATAAT
1 ACTAAC-AATCTCAGCCAAAATTAATAAT
6626243 TTTGATAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.46, C:0.23, G:0.04, T:0.27
Consensus pattern (28 bp):
ACTAACAATCTCAGCCAAAATTAATAAT
Found at i:6630010 original size:10 final size:10
Alignment explanation
Indices: 6629974--6630002 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
6629964 AAAAGTAAAT
6629974 TAATAAATAA
1 TAATAAATAA
6629984 TAAT-AATAA
1 TAATAAATAA
6629993 TAATAAATAA
1 TAATAAATAA
6630003 AATCAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TAATAAATAA
Found at i:6634798 original size:23 final size:23
Alignment explanation
Indices: 6634749--6634816 Score: 91
Period size: 23 Copynumber: 2.8 Consensus size: 23
6634739 CAGCTCGTAT
*
6634749 GAGCTTACTGATATATCAACTCTTTA
1 GAGCTTACT-AT-T-TCAACTCGTTA
*
6634775 GAGCTTACTATTTTAACTCGTTA
1 GAGCTTACTATTTCAACTCGTTA
6634798 GAGCTTACTATTTCAACTC
1 GAGCTTACTATTTCAACTC
6634817 AATGGAGCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
23 27 0.69
24 1 0.03
25 2 0.05
26 9 0.23
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (23 bp):
GAGCTTACTATTTCAACTCGTTA
Found at i:6634824 original size:23 final size:23
Alignment explanation
Indices: 6634749--6634829 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
6634739 CAGCTCGTAT
**
6634749 GAGCTTACTGATATATCAACTCTTTA
1 GAGCTTACT-AT-T-TCAACTCAATA
* **
6634775 GAGCTTACTATTTTAACTCGTTA
1 GAGCTTACTATTTCAACTCAATA
*
6634798 GAGCTTACTATTTCAACTCAATG
1 GAGCTTACTATTTCAACTCAATA
6634821 GAGCTTACT
1 GAGCTTACT
6634830 GTCCATCAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
23 37 0.76
24 1 0.02
25 2 0.04
26 9 0.18
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (23 bp):
GAGCTTACTATTTCAACTCAATA
Found at i:6636144 original size:3 final size:3
Alignment explanation
Indices: 6636136--6636216 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
6636126 TATTATGTTA
6636136 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6636184 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6636217 ATTTTAAGTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6636240 original size:12 final size:11
Alignment explanation
Indices: 6636136--6636248 Score: 66
Period size: 12 Copynumber: 9.5 Consensus size: 11
6636126 TATTATGTTA
*
6636136 TATTATTATTAT
1 TATTTTTATT-T
*
6636148 TATTATTATTAT
1 TATTTTTATT-T
*
6636160 TATTATTATTAT
1 TATTTTTATT-T
*
6636172 TATTATTATTAT
1 TATTTTTATT-T
*
6636184 TATTATTATTAT
1 TATTTTTATT-T
*
6636196 TATTATTATTAT
1 TATTTTTATT-T
6636208 TATTATTATATTT
1 TATT-TT-TATTT
**
6636221 TA-AGTTATTT
1 TATTTTTATTT
6636231 TGATTTTTATTT
1 T-ATTTTTATTT
6636243 TATTTT
1 TATTTT
6636249 GCTTATTCTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
10 6 0.07
11 7 0.08
12 71 0.77
13 4 0.04
14 4 0.04
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:6654819 original size:17 final size:17
Alignment explanation
Indices: 6654780--6654811 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6654770 AGAATTTATG
6654780 ATAATTATACATTTAAA
1 ATAATTATACATTTAAA
6654797 ATAATTATA-ATTTAA
1 ATAATTATACATTTAA
6654812 TAGAAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAATTATACATTTAAA
Found at i:6654850 original size:18 final size:18
Alignment explanation
Indices: 6654827--6654865 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6654817 ATTGTTATAA
6654827 TTATATATTTAAAAATAT
1 TTATATATTTAAAAATAT
*
6654845 TTATATTTTTAAAAATAT
1 TTATATATTTAAAAATAT
6654863 TTA
1 TTA
6654866 ATAGAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATATATTTAAAAATAT
Found at i:6657779 original size:29 final size:28
Alignment explanation
Indices: 6657732--6657816 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 28
6657722 CAATTAATTA
6657732 ATTTTAAAATTTCAAAAAATTATTTAAAAT
1 ATTTT-AAATTT-AAAAAATTATTTAAAAT
* *
6657762 -TTATTAAATTTAATAAAAATATTAAAAAT
1 ATT-TTAAATTTAA-AAAATTATTTAAAAT
* *
6657791 ATTTTAATTTTTAAAAAATTAATTAA
1 ATTTTAA-ATTTAAAAAATTATTTAA
6657817 TTGTCAACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.04
29 34 0.76
30 9 0.20
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTTAAATTTAAAAAATTATTTAAAAT
Found at i:6658627 original size:2 final size:2
Alignment explanation
Indices: 6658622--6658657 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6658612 TTTTTTAGTA
6658622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6658658 ACATATCCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6661041 original size:17 final size:18
Alignment explanation
Indices: 6661016--6661053 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
6661006 TTTAGTTTTA
*
6661016 TTTATTTTTCA-AATAAT
1 TTTAATTTTCATAATAAT
*
6661033 TTTAATTTTCATAATACT
1 TTTAATTTTCATAATAAT
6661051 TTT
1 TTT
6661054 TAAGCTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATTTTCATAATAAT
Found at i:6669470 original size:5 final size:5
Alignment explanation
Indices: 6669460--6669487 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6669450 ATATCAAAGT
6669460 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
6669488 ACCCCAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:6672092 original size:46 final size:44
Alignment explanation
Indices: 6671988--6672095 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
6671978 TGTCTTTGAC
** * * *
6671988 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
6672032 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
6672078 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
6672096 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:6678233 original size:46 final size:44
Alignment explanation
Indices: 6678129--6678236 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
6678119 TGTCTTTGAC
** * * *
6678129 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
6678173 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
6678219 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
6678237 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:6679710 original size:34 final size:34
Alignment explanation
Indices: 6679667--6679734 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
6679657 GCATATCTGA
*
6679667 TACTGAAACTGAAATTGGCTAAGGCCCGAACTGC
1 TACTGAAACTGAAATGGGCTAAGGCCCGAACTGC
* *
6679701 TACTGAAACTGAAATGGGCTTAGGCCCGGACTGC
1 TACTGAAACTGAAATGGGCTAAGGCCCGAACTGC
6679735 ATTTAACTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
TACTGAAACTGAAATGGGCTAAGGCCCGAACTGC
Found at i:6684155 original size:145 final size:144
Alignment explanation
Indices: 6683886--6684179 Score: 527
Period size: 145 Copynumber: 2.0 Consensus size: 144
6683876 TTTTTCAAAG
*
6683886 ATATTGTGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCAGGGAAGCTTAATGTTGTTGCTTTCT
1 ATATTGTGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCAGGGAAGCTTAATGCTGTTGCTTTCT
6683951 CTTTGGATGACTGCTGCAACTACAACCCCTCCGTGATATGATTCTAGGCTGAGATCCTGCATCAG
66 CTTTGGATGACTGCTGCAACTACAACCCCTCCGTGATATGATTCTAGGCTGAGATCCTGCATCAG
6684016 CAATAACTTATATT
131 CAATAACTTATATT
* *
6684030 ATATTGTTGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCATGGAAGCTTTATGCTGTTGCTTTC
1 ATATTG-TGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCAGGGAAGCTTAATGCTGTTGCTTTC
*
6684095 TCTTTGGATGACTGCTGCAACTACAACCCCTCTGTGATATGATTC-AGGGCTGAGATCCTGCATC
65 TCTTTGGATGACTGCTGCAACTACAACCCCTCCGTGATATGATTCTA-GGCTGAGATCCTGCATC
6684159 AGCAATAACTTATATT
129 AGCAATAACTTATATT
6684175 ATATT
1 ATATT
6684180 ATATATTATG
Statistics
Matches: 144, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
144 7 0.05
145 137 0.95
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (144 bp):
ATATTGTGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCAGGGAAGCTTAATGCTGTTGCTTTCT
CTTTGGATGACTGCTGCAACTACAACCCCTCCGTGATATGATTCTAGGCTGAGATCCTGCATCAG
CAATAACTTATATT
Found at i:6688636 original size:20 final size:20
Alignment explanation
Indices: 6688587--6688638 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
6688577 GTAACATTCA
* * *
6688587 AACATAAGTAACTAAAATTT
1 AACAAAAGTGACTAAAATGT
6688607 AACAAAAGTGACTAAAATGT
1 AACAAAAGTGACTAAAATGT
6688627 AACAAAAGTGAC
1 AACAAAAGTGAC
6688639 AATTTTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (20 bp):
AACAAAAGTGACTAAAATGT
Found at i:6690448 original size:65 final size:65
Alignment explanation
Indices: 6690325--6690448 Score: 162
Period size: 65 Copynumber: 1.9 Consensus size: 65
6690315 CCTATTATTT
* * * * *
6690325 TAAATTGATTGTCACTTAATTAATGTTACGGTTATATTATGAATTAAGACAAATATTTAACATTA
1 TAAATAGATTATCACTTAATTAATGTTACAGTTATATTATAAATTAAGACAAAGATTTAACATTA
*
6690390 TAAATAGATTATCACTTAATTAGTGTTACAGTTATA-TATAAATTCAA-ACTAAAGATTTA
1 TAAATAGATTATCACTTAATTAATGTTACAGTTATATTATAAATT-AAGAC-AAAGATTTA
6690449 GTTAACCGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
64 9 0.18
65 42 0.82
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (65 bp):
TAAATAGATTATCACTTAATTAATGTTACAGTTATATTATAAATTAAGACAAAGATTTAACATTA
Found at i:6691882 original size:18 final size:18
Alignment explanation
Indices: 6691861--6691897 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6691851 AGTAGTTATC
6691861 TTTTTTACTATTTATAAT
1 TTTTTTACTATTTATAAT
6691879 TTTTTTACTATTTATAAT
1 TTTTTTACTATTTATAAT
6691897 T
1 T
6691898 AAAAATGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTACTATTTATAAT
Found at i:6693491 original size:18 final size:18
Alignment explanation
Indices: 6693468--6693510 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6693458 GAGTAAGTTT
6693468 TTAATTAAATAATTTT-AA
1 TTAATTAAA-AATTTTAAA
6693486 TTAATTAAAAATTTTAAA
1 TTAATTAAAAATTTTAAA
6693504 TTAATTA
1 TTAATTA
6693511 CACATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTAAAAATTTTAAA
Found at i:6700729 original size:12 final size:12
Alignment explanation
Indices: 6700714--6700739 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6700704 TTCATCCATA
6700714 TCCTCATCTTCT
1 TCCTCATCTTCT
6700726 TCCTCATCTTCT
1 TCCTCATCTTCT
6700738 TC
1 TC
6700740 AATACCAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.42, G:0.00, T:0.50
Consensus pattern (12 bp):
TCCTCATCTTCT
Found at i:6700934 original size:19 final size:19
Alignment explanation
Indices: 6700910--6700948 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6700900 CCAAATAAAG
6700910 TAAGAAAAATGAAAAAACA
1 TAAGAAAAATGAAAAAACA
6700929 TAAGAAAAATGAAAAAACA
1 TAAGAAAAATGAAAAAACA
6700948 T
1 T
6700949 CTGAGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.13
Consensus pattern (19 bp):
TAAGAAAAATGAAAAAACA
Found at i:6707706 original size:21 final size:21
Alignment explanation
Indices: 6707681--6707724 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6707671 GAGAGCACTA
*
6707681 TAGTGCTATACAGAGGCATCG
1 TAGTGCTATACAGAGGCACCG
* *
6707702 TAGTGTTTTACAGAGGCACCG
1 TAGTGCTATACAGAGGCACCG
6707723 TA
1 TA
6707725 ATGCAAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (21 bp):
TAGTGCTATACAGAGGCACCG
Found at i:6711857 original size:21 final size:21
Alignment explanation
Indices: 6711841--6711881 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6711831 TGTGAATATG
*
6711841 TATG-GAAATTCTATGAAATA
1 TATGTGAAATGCTATGAAATA
6711861 TATGTGAAATGCTATTGAAAT
1 TATGTGAAATGCTA-TGAAAT
6711882 GGATTGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (21 bp):
TATGTGAAATGCTATGAAATA
Found at i:6712099 original size:38 final size:38
Alignment explanation
Indices: 6712020--6712099 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
6712010 AGTATGGGAT
* *
6712020 TATGTGCTTATACGCCAGTATGCATTTCGTGTGCTAGG
1 TATGTGCTTATACGCCAGTATGCATTTCGTGTGCCACG
*
6712058 TATGTGCTTATGCGCCAGTATGCACTTT-GTGTGCCACG
1 TATGTGCTTATACGCCAGTATGCA-TTTCGTGTGCCACG
6712096 TATG
1 TATG
6712100 CGTTTTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 35 0.92
39 3 0.08
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.36
Consensus pattern (38 bp):
TATGTGCTTATACGCCAGTATGCATTTCGTGTGCCACG
Found at i:6717828 original size:9 final size:9
Alignment explanation
Indices: 6717814--6717840 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6717804 TTATGTTTTT
6717814 CACTTATAA
1 CACTTATAA
6717823 CACTTATAA
1 CACTTATAA
6717832 CACTTATAA
1 CACTTATAA
6717841 ATTAATGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
CACTTATAA
Found at i:6723359 original size:23 final size:24
Alignment explanation
Indices: 6723304--6723359 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 24
6723294 AATAAAAATA
6723304 TCTCATAAATTCCAACCCAATGGT
1 TCTCATAAATTCCAACCCAATGGT
*
6723328 TCCATTCATAAATTCCAACTCAATGG-
1 T-C--TCATAAATTCCAACCCAATGGT
6723354 TCTCAT
1 TCTCAT
6723360 CTTTTACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 1 0.04
25 2 0.07
26 1 0.04
27 20 0.71
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (24 bp):
TCTCATAAATTCCAACCCAATGGT
Found at i:6724778 original size:22 final size:22
Alignment explanation
Indices: 6724747--6724792 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
6724737 GAACTAAGTC
*
6724747 AACAGAACAGCTCA-AGGCCGTA
1 AACAGAACAGCACATA-GCCGTA
*
6724769 AACAGGACAGCACATAGCCGTA
1 AACAGAACAGCACATAGCCGTA
6724791 AA
1 AA
6724793 TATCGCAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.43, C:0.26, G:0.22, T:0.09
Consensus pattern (22 bp):
AACAGAACAGCACATAGCCGTA
Found at i:6725247 original size:22 final size:22
Alignment explanation
Indices: 6725217--6725276 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
6725207 ATACGTTTGG
*
6725217 CACACAGCCATAATCAGGTTGC
1 CACAAAGCCATAATCAGGTTGC
* * *
6725239 CACAGAGCCAT-ATGTAGGTTGG
1 CACAAAGCCATAAT-CAGGTTGC
*
6725261 CGCAAAGCCATAATCA
1 CACAAAGCCATAATCA
6725277 AAATAATTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 2 0.07
22 26 0.87
23 2 0.07
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (22 bp):
CACAAAGCCATAATCAGGTTGC
Found at i:6725264 original size:216 final size:216
Alignment explanation
Indices: 6724879--6725405 Score: 808
Period size: 216 Copynumber: 2.4 Consensus size: 216
6724869 TAACTGCATT
* * ** * *
6724879 ATGTTAGGCACATAGCCATCAACT-A-GAGTAACATAACCGGCACACAGCC-CTAGGTAAATGTG
1 ATGTTACGCACATAGCCATCAA-TGACG-GTAATATAGTCGGAACACAGCCTC-AGGTAAATATG
* *
6724941 ATCGACACAGAGTCCTCAATAACCATATATTGGCACATAGCCTTAGGCAAATACGTTTGGCACAC
63 ATCGACACAGAGTCATCAATAATCATATATTGGCACATAGCCTTAGGCAAATACGTTTGGCACAC
** * *
6725006 AGTTATAATCAGGTTGGCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAGAATAATTGG
128 AGCCATAATCAGGTTGCCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAAAATAATTGG
6725071 CTTTAACCCATCGGTAGTTGTATC
193 CTTTAACCCATCGGTAGTTGTATC
*
6725095 ATGTTACGCATATAGCCATCAATGACGGTAATATAGTCGGAACACAGCCTCAGGTAAATATGATC
1 ATGTTACGCACATAGCCATCAATGACGGTAATATAGTCGGAACACAGCCTCAGGTAAATATGATC
* *
6725160 AACACAGAGTCGTCAATAATCATATATTGGCACATAGCCTTAGGCAAATACGTTTGGCACACAGC
66 GACACAGAGTCATCAATAATCATATATTGGCACATAGCCTTAGGCAAATACGTTTGGCACACAGC
6725225 CATAATCAGGTTGCCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAAAATAATTGGCTT
131 CATAATCAGGTTGCCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAAAATAATTGGCTT
* *
6725290 TAAGCCATTGGTAGTTGTATC
196 TAACCCATCGGTAGTTGTATC
* * * * *
6725311 ATGTTAGGTACATAGCCATCAGTGACGGTAATATAGTCGGCACATAGCCTCAGGTAAATATGATC
1 ATGTTACGCACATAGCCATCAATGACGGTAATATAGTCGGAACACAGCCTCAGGTAAATATGATC
6725376 GACACAGAGTCATCAATAATCATATATTGG
66 GACACAGAGTCATCAATAATCATATATTGG
6725406 GCTTAAAAGC
Statistics
Matches: 284, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
215 1 0.00
216 281 0.99
217 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (216 bp):
ATGTTACGCACATAGCCATCAATGACGGTAATATAGTCGGAACACAGCCTCAGGTAAATATGATC
GACACAGAGTCATCAATAATCATATATTGGCACATAGCCTTAGGCAAATACGTTTGGCACACAGC
CATAATCAGGTTGCCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAAAATAATTGGCTT
TAACCCATCGGTAGTTGTATC
Found at i:6725482 original size:41 final size:41
Alignment explanation
Indices: 6725420--6725541 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
6725410 AAAAGCCACT
*
6725420 GGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTTAATC
1 GGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAATC
* * *
6725461 GGTGGATCCACGGTC-TCCAAGCAACTATACGATCCTCAATC
1 GGTGGATCCATGGTCGT-CAAGCAACCATGCGATCCTCAATC
6725502 GGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAAT
1 GGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAAT
6725542 TTCTTCTTCC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.01
41 70 0.97
42 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (41 bp):
GGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAATC
Found at i:6725809 original size:27 final size:27
Alignment explanation
Indices: 6725779--6725849 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
6725769 TTTCACCCTA
* *
6725779 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAAATCTACAAAC
* *
6725806 CAAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAAATCTACAAAC
* * *
6725833 TAATGGTATTTCTGTAA
1 CAAGGGTATTTCGGTAA
6725850 TTTTTTAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAAATCTACAAAC
Found at i:6725850 original size:27 final size:27
Alignment explanation
Indices: 6725807--6726034 Score: 187
Period size: 27 Copynumber: 8.4 Consensus size: 27
6725797 TCTACAAACC
* *
6725807 AAGGGTATTTCGGTAATTTTACAAACT
1 AAGGGTATTTCTGTAATTTTACAAATT
* *
6725834 AATGGTATTTCTGTAATTTTTTA-AAAGTC
1 AAGGGTATTTCTGTAA--TTTTACAAA-TT
* ** *
6725863 AAGGGTATTTTTGTAATTTTGTAAATC
1 AAGGGTATTTCTGTAATTTTACAAATT
*
6725890 AAGGGTATTTCTGTAATTTTCCAAATT
1 AAGGGTATTTCTGTAATTTTACAAATT
*
6725917 AAGGGTATTTC-GATAATTTTCCAAATT
1 AAGGGTATTTCTG-TAATTTTACAAATT
* *
6725944 AGGGGTATTT-TGGTACTTTTACAAATT
1 AAGGGTATTTCT-GTAATTTTACAAATT
* * *
6725971 AGGGGTATTTC-GATAATTTTACAAGTC
1 AAGGGTATTTCTG-TAATTTTACAAATT
* * *
6725998 GAGGGTATTTC-GATAATTTCACAAATC
1 AAGGGTATTTCTG-TAATTTTACAAATT
*
6726025 AGGGGTATTT
1 AAGGGTATTT
6726035 TGGTAGTTTT
Statistics
Matches: 169, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.01
27 141 0.83
28 7 0.04
29 19 0.11
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTCTGTAATTTTACAAATT
Found at i:6725988 original size:81 final size:80
Alignment explanation
Indices: 6725782--6726061 Score: 267
Period size: 81 Copynumber: 3.4 Consensus size: 80
6725772 CACCCTACAA
* * * * * *
6725782 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGGTAATTTTACAAACTAATGGTATTTCTG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTC-GTAATTTTACAAATTAAGGGTATTTC-G
** *
6725847 -TAATTTTTTAAAAGTCAA
64 ATAA-TTTTCCAAA-TCAG
* ** *
6725865 GGGTATTTTTGTAATTTTGTAAATCAAGGGTATTTCTGTAATTTTCCAAATTAAGGGTATTTCGA
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTC-GTAATTTTACAAATTAAGGGTATTTCGA
*
6725930 TAATTTTCCAAATTAG
65 TAATTTTCCAAATCAG
* * * * **
6725946 GGGTATTTTGGTACTTTTACAAATTAGGGGTATTTCGATAATTTTACAAGTCGAGGGTATTTCGA
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCG-TAATTTTACAAATTAAGGGTATTTCGA
6726011 TAA-TTTCACAAATCAG
65 TAATTTTC-CAAATCAG
* * * *
6726027 GGGTATTTTGGTAGTTTTATAAACCAAGGATATTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTT
6726062 TAGCAATTCT
Statistics
Matches: 162, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
80 5 0.03
81 94 0.58
82 8 0.05
83 55 0.34
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGTAATTTTACAAATTAAGGGTATTTCGAT
AATTTTCCAAATCAG
Found at i:6728700 original size:42 final size:42
Alignment explanation
Indices: 6728637--6728719 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
6728627 GCTATTAAGG
**
6728637 TGGAACCACTATAAATAGAATTGTCAAAACTTTTCTTTTCTC
1 TGGAACCACTATAAATAGAATTGTCAAAACTTCCCTTTTCTC
*
6728679 TGGAACCACTATAAATGGAATTGTCAAAACTTCCCTTTTCT
1 TGGAACCACTATAAATAGAATTGTCAAAACTTCCCTTTTCT
6728720 TTAATTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (42 bp):
TGGAACCACTATAAATAGAATTGTCAAAACTTCCCTTTTCTC
Found at i:6736125 original size:105 final size:109
Alignment explanation
Indices: 6735886--6736152 Score: 310
Period size: 115 Copynumber: 2.4 Consensus size: 109
6735876 AACTAATAAT
* * *
6735886 TAATTTATAATAGTTACTAACAAAATAACTTTCAAATAAATTAAAAAATATTAAAAGATTACATT
1 TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAATTACATT
* * *
6735951 CATAATCTAACAAATCATAGTAAACCCTAAACCCTAAACAAACAG
66 CATAATCTAACAAATCACAATAAACACTAAA-CCTAAACAAACAG
* * * * **
6735996 TTAACCTAATCACAAAATTTACTAACAAAATAACTTTAAAATAAATTAAAATTTAATAAAAAATT
1 -TAA--T--TTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAATT
*
6736061 ACATTCATAA-CTTAACAAATCACAATAAACATTAAA-CTAAAC-AA-A-
61 ACATTCATAATC-TAACAAATCACAATAAACACTAAACCTAAACAAACAG
*
6736106 TAATTTATAATAGTAACTAACAAAATAACTTTAAAATAAATTAAAAA
1 TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAA
6736153 CAATGTAAAA
Statistics
Matches: 132, Mismatches: 19, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
105 37 0.28
107 1 0.01
109 3 0.02
111 4 0.03
112 2 0.02
113 7 0.05
114 1 0.01
115 77 0.58
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (109 bp):
TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAATTACATT
CATAATCTAACAAATCACAATAAACACTAAACCTAAACAAACAG
Found at i:6736131 original size:25 final size:26
Alignment explanation
Indices: 6736095--6736143 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
6736085 ATAAACATTA
*
6736095 AACTAAACAAATAA-TTTATAATAGT
1 AACTAAACAAATAACTTTAAAATAGT
6736120 AACT-AACAAAATAACTTTAAAATA
1 AACTAAAC-AAATAACTTTAAAATA
6736144 AATTAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 10 0.48
26 8 0.38
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (26 bp):
AACTAAACAAATAACTTTAAAATAGT
Found at i:6736277 original size:4 final size:4
Alignment explanation
Indices: 6736253--6736298 Score: 67
Period size: 4 Copynumber: 11.2 Consensus size: 4
6736243 TACTTTATCC
6736253 TTCT TT-T TTCT TCTCCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
1 TTCT TTCT TTCT T-T-CT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
6736299 CTCCCTCCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.08
4 31 0.79
5 2 0.05
6 3 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:6736427 original size:27 final size:27
Alignment explanation
Indices: 6736383--6736434 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
6736373 CAAAATTGCT
* *
6736383 TCACTGGTGCCTCCTATCAGATAGGGG
1 TCACTGGTGCCACCTATCAAATAGGGG
*
6736410 TCACTGGTGCCACTTATCAAATAGG
1 TCACTGGTGCCACCTATCAAATAGG
6736435 CACCACCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (27 bp):
TCACTGGTGCCACCTATCAAATAGGGG
Found at i:6741370 original size:21 final size:20
Alignment explanation
Indices: 6741346--6741390 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
6741336 AAACTATGTT
*
6741346 AAAAGAAATGGAGAAGGGAGG
1 AAAAGAAAGGGAGAA-GGAGG
* *
6741367 AAAATAGAGGGAGAAGGAGG
1 AAAAGAAAGGGAGAAGGAGG
6741387 AAAA
1 AAAA
6741391 TGGAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.40, T:0.04
Consensus pattern (20 bp):
AAAAGAAAGGGAGAAGGAGG
Found at i:6742711 original size:21 final size:22
Alignment explanation
Indices: 6742677--6742722 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
6742667 TAAAATTAAT
*
6742677 AAACATATTTAAAATTTTATAA
1 AAACATATTTAAAATTCTATAA
6742699 AAACATA-TTAAAATTCTATAA
1 AAACATATTTAAAATTCTATAA
6742720 AAA
1 AAA
6742723 ATCATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (22 bp):
AAACATATTTAAAATTCTATAA
Found at i:6742723 original size:22 final size:22
Alignment explanation
Indices: 6742677--6742767 Score: 73
Period size: 22 Copynumber: 4.1 Consensus size: 22
6742667 TAAAATTAAT
*
6742677 AAACATATTTAAAATTTTAT-AA
1 AAACATA-TTAAAATTATATAAA
*
6742699 AAACATATTAAAATTCTATAAA
1 AAACATATTAAAATTATATAAA
**
6742721 AAATCATA--AAAAAAAGTATAAA
1 AAA-CATATTAAAATTA-TATAAA
*
6742743 AAA-GTATTAAAATTGATATAAA
1 AAACATATTAAAATT-ATATAAA
6742765 AAA
1 AAA
6742768 TAAAAATTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
20 2 0.04
21 15 0.27
22 34 0.61
23 5 0.09
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (22 bp):
AAACATATTAAAATTATATAAA
Found at i:6742732 original size:21 final size:21
Alignment explanation
Indices: 6742677--6742732 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
6742667 TAAAATTAAT
* *
6742677 AAACATATTTAAAATTTTATAA
1 AAACATA-TAAAAATTCTATAA
*
6742699 AAACATATTAAAATTCTATAA
1 AAACATATAAAAATTCTATAA
6742720 AAA-ATCATAAAAA
1 AAACAT-ATAAAAA
6742733 AAAGTATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 2 0.06
21 22 0.71
22 7 0.23
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (21 bp):
AAACATATAAAAATTCTATAA
Found at i:6743222 original size:6 final size:6
Alignment explanation
Indices: 6743177--6743226 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
6743167 GGGCTAAAAT
* *
6743177 AAACCA AAA-C- AAACCC AAACCA ACAACCA AAATACA AAACCA AAACCA
1 AAACCA AAACCA AAACCA AAACCA A-AACCA AAA-CCA AAACCA AAACCA
6743225 AA
1 AA
6743227 CCAGACCCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
4 3 0.08
5 2 0.05
6 21 0.57
7 11 0.30
ACGTcount: A:0.66, C:0.32, G:0.00, T:0.02
Consensus pattern (6 bp):
AAACCA
Found at i:6744359 original size:4 final size:4
Alignment explanation
Indices: 6744350--6744378 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
6744340 TTTATTAGTA
6744350 TAAT TAAT TAAT TAAT TAAT T-AT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
6744379 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:6744381 original size:3 final size:3
Alignment explanation
Indices: 6744337--6744541 Score: 223
Period size: 3 Copynumber: 66.0 Consensus size: 3
6744327 TTATTTTTGC
* *
6744337 TAT T-T TAT TAG TAT AAT TAAT TAAT TAAT TAAT TAT TAAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT T-AT T-AT T-AT TAT T-AT TAT TAT
* * *
6744383 TAT TAT TAT TAT TAT TAA TCT TAT TAAT GTAT TAT TAT TAC TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TA-T TAT
* * * * *
6744431 TAT TAT TAT TAC CAT TAT TAT TAC TAT TAT TTT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
6744479 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
6744527 TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
6744542 ATTTTCTTTT
Statistics
Matches: 172, Mismatches: 24, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
2 2 0.01
3 145 0.84
4 24 0.14
5 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:6744384 original size:38 final size:40
Alignment explanation
Indices: 6744337--6744422 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 40
6744327 TTATTTTTGC
6744337 TATT-TTATTAGTATAATTA-ATTAAT-TAATTAAT-TAT
1 TATTATTATTAGTATAATTATATTAATCTAATTAATGTAT
* * *
6744373 TAATTATTATTATTATTATTATTATTAATCTTATTAATGTAT
1 T-ATTATTATTAGTATAATTA-TATTAATCTAATTAATGTAT
6744415 TATTATTA
1 TATTATTA
6744423 CTATTTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
36 1 0.02
37 3 0.07
38 13 0.32
40 6 0.15
41 14 0.34
42 4 0.10
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (40 bp):
TATTATTATTAGTATAATTATATTAATCTAATTAATGTAT
Found at i:6744740 original size:15 final size:16
Alignment explanation
Indices: 6744720--6744759 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
6744710 TATTTACCTA
6744720 ATTTTTTATA-CATTT
1 ATTTTTTATATCATTT
*
6744735 ATTTTTTATATCGTTT
1 ATTTTTTATATCATTT
*
6744751 ATTATTTAT
1 ATTTTTTAT
6744760 TTATTTCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (16 bp):
ATTTTTTATATCATTT
Found at i:6745024 original size:22 final size:22
Alignment explanation
Indices: 6744964--6745031 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
6744954 TATTATTGTC
*
6744964 ATTCATATTAATGCC-TTTATT
1 ATTCATATTAATGCCATTTTTT
* **
6744985 ATT-ATTATTATTATCATTTTTT
1 ATTCA-TATTAATGCCATTTTTT
* *
6745007 ATTCATATTAGTGCCATTGTTT
1 ATTCATATTAATGCCATTTTTT
6745029 ATT
1 ATT
6745032 TTTTTACATT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
20 1 0.03
21 10 0.28
22 24 0.67
23 1 0.03
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.57
Consensus pattern (22 bp):
ATTCATATTAATGCCATTTTTT
Found at i:6759995 original size:45 final size:44
Alignment explanation
Indices: 6759931--6760050 Score: 141
Period size: 45 Copynumber: 2.7 Consensus size: 44
6759921 AGTTACGAAT
*
6759931 CTTATCTCTCTGAAGTTGCAGTGGAGTAGATCAAAGATAGAAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGATA-AAAAC
* * * ** * * **
6759976 CTTATCCCCCTGAAGTTGCAGTGGGGTAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGATAAAAAC
6760020 CTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
6760051 TACAGCCACT
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
44 30 0.48
45 32 0.52
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGATAAAAAC
Found at i:6760035 original size:44 final size:43
Alignment explanation
Indices: 6759914--6760175 Score: 204
Period size: 44 Copynumber: 6.0 Consensus size: 43
6759904 GTAATGGACC
*
6759914 AGATTGAAGTTACGAATCTTATCTCTCTGAAGTTGCAGTGGAGT
1 AGATTGAAGTTAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGT
** * * * * *
6759958 AGATCAAAGATAGAAAACCTTATCCCCCTGAAGTTGCAGTGGGGT
1 AGATTGAAG-T-TACAATCTTATCTCCCTGAAGTTGCAGTGGAGT
*
6760003 AGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGT
1 AGATTGAAGTTACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGT
** * * * * *
6760047 AGATT-ACAGCCACTAACCTTATCTCTCTGAAGTTGTAGTAGAGC
1 AGATTGA-AGTTAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGT
* * * *
6760091 AGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCACTGGAGC
1 AGATTGAAGTTACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGT
* * * * * *
6760135 AGACTGAAATTACAAATCCTATC-CCCCGAAATTGTAGTGGA
1 AGATTGAAGTTAC-AATCTTATCTCCCTGAAGTTGCAGTGGA
6760176 TCAGATTAAA
Statistics
Matches: 170, Mismatches: 40, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
43 20 0.12
44 111 0.65
45 38 0.22
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
AGATTGAAGTTACAATCTTATCTCCCTGAAGTTGCAGTGGAGT
Found at i:6760104 original size:88 final size:89
Alignment explanation
Indices: 6759917--6760133 Score: 276
Period size: 88 Copynumber: 2.4 Consensus size: 89
6759907 ATGGACCAGA
* *
6759917 TTGAAGTTACGAA-TCTTATCTCTCTGAAGTTGCAGTGGAGTAGATCAAAGATAGAAAACCTTAT
1 TTGAAGTTAC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGACAGAAAACCTTAT
* * *
6759981 CCCCCTGAAGTTGCAGTGGGGTAGG
65 CCCCCTGAAGTTGCAGTAGAGCAGG
* * * **
6760006 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTACAGCCA-CTAACCTTATC
1 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGACAGAAAACCTTATC
* * *
6760070 TCTCTGAAGTTGTAGTAGAGCAGG
66 CCCCTGAAGTTGCAGTAGAGCAGG
* *
6760094 TTGAAATTACAAGTCTTATCTCCCTGAAGTTGCACTGGAG
1 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
6760134 CAGACTGAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
88 67 0.60
89 45 0.40
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (89 bp):
TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGACAGAAAACCTTATC
CCCCTGAAGTTGCAGTAGAGCAGG
Found at i:6760452 original size:44 final size:44
Alignment explanation
Indices: 6760339--6760455 Score: 107
Period size: 44 Copynumber: 2.7 Consensus size: 44
6760329 AACCTTATCT
* ** *
6760339 CTCTGAAGTTGCAGTAGAGT-AGGTTGAAATTACAAGTCCTATCTC
1 CTCTGAAGTTGCAGTAG-GTCAGATT-AAACGACAAGTCCTATCAC
* * *
6760384 CT-TGAAGTTGCAAT-GGAGCGGATTAAAGCGACAAGTCCTAT-AC
1 CTCTGAAGTTGCAGTAGG-TCAGATTAAA-CGACAAGTCCTATCAC
6760427 CTCTGAAGTTGCAGTAGGTCAGATTAAAC
1 CTCTGAAGTTGCAGTAGGTCAGATTAAAC
6760456 TTAAAACCAC
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.02
43 8 0.14
44 44 0.77
45 4 0.07
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
CTCTGAAGTTGCAGTAGGTCAGATTAAACGACAAGTCCTATCAC
Found at i:6760514 original size:225 final size:224
Alignment explanation
Indices: 6760108--6760516 Score: 489
Period size: 225 Copynumber: 1.8 Consensus size: 224
6760098 AATTACAAGT
* * *
6760108 CTTATCTCCCTGAAGTTGCACTGGAGCAGACTGAAATTACAAATCCTATCCCCCGAAATTGTAGT
1 CTTATCTCCCTGAAGTTGCACTAGAGCAGACTGAAATTACAAATCCTATCCCCCGAAATTGCAAT
* * ** *
6760173 GGATCAGATTAAAGCGACAAGTCCTAAACCTCTGAAGTTGCAGTAGGCCGGATCAAATCTACCAT
66 GGAGCAGATTAAAGCGACAAGTCCTAAACCTCTGAAGTTGCAGTAGGCCAGATCAAATCTAAAAC
** ** * *
6760238 GGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACAAGTCTTCTCCCTAAAAT
131 CACAAATCTTATCTCCCTGAAGTTGCAGCAGAGCAAATTAAAACCACAAGTCTTCTCCCTAAAAT
6760303 TGCAACGGGGCAGACTGAAGATAGCTAAC
196 TGCAACGGGGCAGACTGAAGATAGCTAAC
* * * ** * ** *
6760332 CTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAATTACAAGTCCTATCTCCTTGAAGTTGCAA
1 CTTATCTCCCTGAAGTTGCACTAGAGCAGACTGAAATTACAAATCCTATC-CCCCGAAATTGCAA
* * * *
6760397 TGGAGCGGATTAAAGCGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCAGATTAAA-CTTAAA
65 TGGAGCAGATTAAAGCGACAAGTCCTAAACCTCTGAAGTTGCAGTAGGCCAGATCAAATC-TAAA
* * * * *
6760461 ACCACAAATCTTA-CATCCCTGAATTTGTAGCAGAGTAGATTAAAACTACAAGTCTT
129 ACCACAAATCTTATC-TCCCTGAAGTTGCAGCAGAGCAAATTAAAACCACAAGTCTT
6760517 ATTTCTATGA
Statistics
Matches: 150, Mismatches: 32, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
224 45 0.30
225 105 0.70
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (224 bp):
CTTATCTCCCTGAAGTTGCACTAGAGCAGACTGAAATTACAAATCCTATCCCCCGAAATTGCAAT
GGAGCAGATTAAAGCGACAAGTCCTAAACCTCTGAAGTTGCAGTAGGCCAGATCAAATCTAAAAC
CACAAATCTTATCTCCCTGAAGTTGCAGCAGAGCAAATTAAAACCACAAGTCTTCTCCCTAAAAT
TGCAACGGGGCAGACTGAAGATAGCTAAC
Found at i:6760738 original size:11 final size:11
Alignment explanation
Indices: 6760722--6760779 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
6760712 GGCCCCGGCT
6760722 AAAACAAACCC
1 AAAACAAACCC
*
6760733 AAAACAAACCT
1 AAAACAAACCC
*
6760744 AAACCAACACCC
1 AAAACAA-ACCC
*
6760756 AAAATACAAAACC
1 -AAA-ACAAACCC
6760769 AAAACCAAACC
1 AAAA-CAAACC
6760780 AATAACCCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
11 17 0.46
12 11 0.30
13 6 0.16
14 3 0.08
ACGTcount: A:0.62, C:0.34, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAACAAACCC
Found at i:6760806 original size:20 final size:19
Alignment explanation
Indices: 6760783--6760825 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
6760773 CCAAACCAAT
*
6760783 AACCCAAAGCCCAATTACAA
1 AACCCAAAGCCCAACTA-AA
6760803 AACCCAAAGCCCAACTAAA
1 AACCCAAAGCCCAACTAAA
6760822 AACC
1 AACC
6760826 AATCAGCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.51, C:0.37, G:0.05, T:0.07
Consensus pattern (19 bp):
AACCCAAAGCCCAACTAAA
Found at i:6761929 original size:6 final size:6
Alignment explanation
Indices: 6761918--6762184 Score: 209
Period size: 6 Copynumber: 44.2 Consensus size: 6
6761908 TAATTAATTA
** * *
6761918 ATTATT ATTATT AACA-T ATCATT ATTATT AATGTATT ATTACT ATTTATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT -AT-TATT ATTATT A-TTATT
* ** * * * *
6761968 ATTGTT ACCATT ATTATT ACTATT ATTTTT ATTTTT ATTACT ATTATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * * * *
6762016 ATTACTA ATT-TT ATTATT GTTATT ATTTTT ATTTTT ATTACT ATTATT
1 ATTA-TT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * * * *
6762064 ATTACTA ATT-TT ATTATT TTTATT ATTTTT ATTTTT ATTACT ATTATT
1 ATTA-TT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * * * * *
6762112 ATTACTA ATT-TT ATTATT GTTATT ATTTTT ATTTTT ATAACT ATTATT
1 ATTA-TT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
6762160 ATTATT ATTATT ATTATT ATTATT A
1 ATTATT ATTATT ATTATT ATTATT A
6762185 CCACTATTAT
Statistics
Matches: 207, Mismatches: 44, Indels: 20
0.76 0.16 0.07
Matches are distributed among these distances:
5 16 0.08
6 166 0.80
7 21 0.10
8 4 0.02
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (6 bp):
ATTATT
Found at i:6762015 original size:48 final size:48
Alignment explanation
Indices: 6761978--6762184 Score: 344
Period size: 48 Copynumber: 4.3 Consensus size: 48
6761968 ATTGTTACCA
*
6761978 TTATTATTACTATTATTTTTATTTTTATTACTATTATTATTACTAATT
1 TTATTATTATTATTATTTTTATTTTTATTACTATTATTATTACTAATT
*
6762026 TTATTATTGTTATTATTTTTATTTTTATTACTATTATTATTACTAATT
1 TTATTATTATTATTATTTTTATTTTTATTACTATTATTATTACTAATT
*
6762074 TTATTATTTTTATTATTTTTATTTTTATTACTATTATTATTACTAATT
1 TTATTATTATTATTATTTTTATTTTTATTACTATTATTATTACTAATT
* * *
6762122 TTATTATTGTTATTATTTTTATTTTTATAACTATTATTATTA-TTATT
1 TTATTATTATTATTATTTTTATTTTTATTACTATTATTATTACTAATT
6762169 ATTATTATTATTATTA
1 -TTATTATTATTATTA
6762185 CCACTATTAT
Statistics
Matches: 151, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
47 4 0.03
48 147 0.97
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.67
Consensus pattern (48 bp):
TTATTATTATTATTATTTTTATTTTTATTACTATTATTATTACTAATT
Found at i:6762579 original size:3 final size:3
Alignment explanation
Indices: 6762571--6762616 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6762561 ATGCTTTTAC
6762571 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6762617 CATATTAGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6763443 original size:28 final size:28
Alignment explanation
Indices: 6763407--6763461 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6763397 AGTTTATATC
* * * *
6763407 AATTTTAATATTTTTTATTATTTTTAAG
1 AATTCTAATATGTTTTTTTAATTTTAAG
6763435 AATTCTAATATGTTTTTTTAATTTTAA
1 AATTCTAATATGTTTTTTTAATTTTAA
6763462 ATATGTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (28 bp):
AATTCTAATATGTTTTTTTAATTTTAAG
Found at i:6763457 original size:19 final size:20
Alignment explanation
Indices: 6763435--6763477 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6763425 TATTTTTAAG
*
6763435 AATTCT-AATATGTTTTTTT
1 AATTCTAAATATGTTTTATT
*
6763454 AATTTTAAATATGTTTTATT
1 AATTCTAAATATGTTTTATT
6763474 AATT
1 AATT
6763478 TTATAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (20 bp):
AATTCTAAATATGTTTTATT
Found at i:6763464 original size:20 final size:21
Alignment explanation
Indices: 6763440--6763498 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
6763430 TTAAGAATTC
6763440 TAATATGTTTTTTTAATTTTA
1 TAATATGTTTTTTTAATTTTA
*
6763461 -AATATGTTTTATTAATTTTA
1 TAATATGTTTTTTTAATTTTA
6763481 TAA-AT-TTTTTTGTAATTT
1 TAATATGTTTTTT-TAATTT
6763499 ATTTCAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 5 0.15
20 27 0.79
21 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TAATATGTTTTTTTAATTTTA
Found at i:6763489 original size:19 final size:19
Alignment explanation
Indices: 6763447--6763556 Score: 63
Period size: 19 Copynumber: 5.8 Consensus size: 19
6763437 TTCTAATATG
6763447 TTTTT-TTAATTTTA-AATA
1 TTTTTATTAATTTTATAA-A
6763465 TGTTTTATTAATTTTATAAA
1 T-TTTTATTAATTTTATAAA
* * *
6763485 TTTTTTTGTAATTTATTTCAA
1 TTTTTAT-TAATTT-TATAAA
*
6763506 --TTTATTAGATTTT-TATA
1 TTTTTATTA-ATTTTATAAA
* *
6763523 TTTTTA-TAATTTTTGTAAG
1 TTTTTATTAA-TTTTATAAA
6763542 TTTTTA-TAATTTTAT
1 TTTTTATTAATTTTAT
6763557 TGCAATATTA
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
17 3 0.04
18 15 0.21
19 32 0.44
20 17 0.23
21 6 0.08
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTATTAATTTTATAAA
Found at i:6763556 original size:8 final size:9
Alignment explanation
Indices: 6763514--6763554 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
6763504 AATTTATTAG
6763514 ATTTTTAT-
1 ATTTTTATA
6763522 ATTTTTATA
1 ATTTTTATA
*
6763531 ATTTTTGTA
1 ATTTTTATA
6763540 AGTTTTTATA
1 A-TTTTTATA
6763550 ATTTT
1 ATTTT
6763555 ATTGCAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 8 0.28
9 13 0.45
10 8 0.28
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (9 bp):
ATTTTTATA
Found at i:6763609 original size:19 final size:18
Alignment explanation
Indices: 6763574--6763608 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6763564 TTAATATTTG
6763574 TAATACTTTTAGTTTTTA
1 TAATACTTTTAGTTTTTA
6763592 TAATATCTTTTA-TTTTT
1 TAATA-CTTTTAGTTTTT
6763609 TCCTGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (18 bp):
TAATACTTTTAGTTTTTA
Found at i:6764045 original size:24 final size:25
Alignment explanation
Indices: 6764017--6764065 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6764007 TTATATTATT
*
6764017 ATTTTGAAAT-AAAAAATATATAAA
1 ATTTTAAAATCAAAAAATATATAAA
* *
6764041 ATTTTAAAATCATAAGATATATAAA
1 ATTTTAAAATCAAAAAATATATAAA
6764066 TTAATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATTTTAAAATCAAAAAATATATAAA
Found at i:6764073 original size:25 final size:25
Alignment explanation
Indices: 6764032--6764080 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6764022 GAAATAAAAA
* *
6764032 ATATATAAAATTTTAAAATCATAAG
1 ATATATAAAATTATAAAAACATAAG
6764057 ATATAT-AAATTAATAAAAACATAA
1 ATATATAAAATT-ATAAAAACATAA
6764081 AGTTTTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (25 bp):
ATATATAAAATTATAAAAACATAAG
Found at i:6764217 original size:17 final size:17
Alignment explanation
Indices: 6764197--6764229 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6764187 TGTTTATGTA
6764197 TTTTTATAAATTTATAG
1 TTTTTATAAATTTATAG
*
6764214 TTTTTATTAATTTATA
1 TTTTTATAAATTTATA
6764230 TATTATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTTATAAATTTATAG
Found at i:6767351 original size:24 final size:22
Alignment explanation
Indices: 6767301--6767351 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
6767291 GTTTGTTTAT
6767301 CTTTTATTATTTATATTGAACC
1 CTTTTATTATTTATATTGAACC
*
6767323 ATTTTATTA-TTAGTCATTTGAACC
1 CTTTTATTATTTA-T-A-TTGAACC
6767347 CTTTT
1 CTTTT
6767352 TTGTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 3 0.12
22 9 0.38
23 1 0.04
24 11 0.46
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.55
Consensus pattern (22 bp):
CTTTTATTATTTATATTGAACC
Found at i:6767489 original size:27 final size:25
Alignment explanation
Indices: 6767400--6767489 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 25
6767390 TTATTATAGA
*
6767400 TTTAAATATTTTACTTATATTATTTAT
1 TTTAAATATTTT-CATA-ATTATTTAT
* * *
6767427 TTTAACTACTATACAT-ATTATTTAT
1 TTTAAATA-TTTTCATAATTATTTAT
*
6767452 TCTGAAATATTTTCATACATTATTTAT
1 T-TTAAATATTTTCATA-ATTATTTAT
6767479 TTTAAACTATT
1 TTTAAA-TATT
6767490 ATTTATGTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
25 15 0.31
26 9 0.18
27 23 0.47
28 2 0.04
ACGTcount: A:0.34, C:0.09, G:0.01, T:0.56
Consensus pattern (25 bp):
TTTAAATATTTTCATAATTATTTAT
Found at i:6768497 original size:26 final size:25
Alignment explanation
Indices: 6768458--6768565 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 25
6768448 TGATACAAAT
6768458 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
6768484 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
6768510 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
6768536 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
6768562 TGAT
1 TGAT
6768566 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
25 4 0.05
26 71 0.92
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:6768515 original size:52 final size:52
Alignment explanation
Indices: 6768458--6768565 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
6768448 TGATACAAAT
6768458 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
6768510 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
6768562 TGAT
1 TGAT
6768566 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:6775545 original size:26 final size:25
Alignment explanation
Indices: 6775502--6775608 Score: 178
Period size: 26 Copynumber: 4.2 Consensus size: 25
6775492 TGATACAAAT
6775502 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
6775527 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
6775553 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
6775579 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
6775605 TGAT
1 TGAT
6775609 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
25 11 0.14
26 64 0.83
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:6783349 original size:35 final size:35
Alignment explanation
Indices: 6783279--6783349 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
6783269 TGAGTTAAAA
* * *
6783279 TTAGGATTAATATGTAGTTTATTTCCTGAATTTGT
1 TTAGGATTAATATGTAGTTTATCTCCTAAACTTGT
*
6783314 TTAGGATTAATATGTAGTTTATCTCTTAAACTTGT
1 TTAGGATTAATATGTAGTTTATCTCCTAAACTTGT
6783349 T
1 T
6783350 CAAAAGTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (35 bp):
TTAGGATTAATATGTAGTTTATCTCCTAAACTTGT
Found at i:6784972 original size:3 final size:3
Alignment explanation
Indices: 6784955--6784986 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
6784945 TTGATAATGA
6784955 AAT AAT -AT AAT -AT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6784987 TTATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:6789021 original size:22 final size:24
Alignment explanation
Indices: 6788965--6789031 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 24
6788955 TTTTAAAAAC
*
6788965 TTTTATATAAGAGATAAGTAGTTT
1 TTTTATATAAGAGATAAGTAGGTT
6788989 TTTTATTATAAGAGATAAGT-GGTT
1 TTTTA-TATAAGAGATAAGTAGGTT
6789013 TTTTA-ATAAGAGATAAGTA
1 TTTTATATAAGAGATAAGTA
6789032 CAAATTAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
22 13 0.32
24 13 0.32
25 14 0.35
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (24 bp):
TTTTATATAAGAGATAAGTAGGTT
Found at i:6794458 original size:21 final size:22
Alignment explanation
Indices: 6794432--6794472 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6794422 AAATTAACTC
*
6794432 ATTTAAT-CACCAACACATTCA
1 ATTTAATACACAAACACATTCA
6794453 ATTTAATACACAAACACATT
1 ATTTAATACACAAACACATT
6794473 TTTTGGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.29
Consensus pattern (22 bp):
ATTTAATACACAAACACATTCA
Found at i:6795096 original size:21 final size:21
Alignment explanation
Indices: 6795050--6795097 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6795040 GAAACAAAAT
6795050 AGAAAACGAAAGAACAGAGAA
1 AGAAAACGAAAGAACAGAGAA
*
6795071 TGAAAACGAAATAGAA-AG-GAA
1 AGAAAACG-AA-AGAACAGAGAA
6795092 AGAAAA
1 AGAAAA
6795098 AAGGAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.65
22 4 0.17
23 4 0.17
ACGTcount: A:0.67, C:0.06, G:0.23, T:0.04
Consensus pattern (21 bp):
AGAAAACGAAAGAACAGAGAA
Found at i:6795099 original size:23 final size:23
Alignment explanation
Indices: 6795073--6795122 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
6795063 ACAGAGAATG
*
6795073 AAAACG-AAATAGAAAGGAAAGAA
1 AAAACGAAAATA-AAAAGAAAGAA
* *
6795096 AAAAGGAAAATAAAAAGAAAGGA
1 AAAACGAAAATAAAAAGAAAGAA
6795119 AAAA
1 AAAA
6795123 TAGGGTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (23 bp):
AAAACGAAAATAAAAAGAAAGAA
Found at i:6795985 original size:6 final size:6
Alignment explanation
Indices: 6795970--6796003 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6795960 TGTGTACCGA
* *
6795970 TACTGC TACTGT TACTGT TATTGT TACTGT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACT
6796004 ATTATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:6795999 original size:18 final size:18
Alignment explanation
Indices: 6795976--6796014 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
6795966 CCGATACTGC
* *
6795976 TACTGTTACTGTTATTGT
1 TACTGTTACTATTATTAT
6795994 TACTGTTACTATTATTAT
1 TACTGTTACTATTATTAT
6796012 TAC
1 TAC
6796015 GGTATATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.54
Consensus pattern (18 bp):
TACTGTTACTATTATTAT
Found at i:6796128 original size:17 final size:17
Alignment explanation
Indices: 6796083--6796138 Score: 85
Period size: 17 Copynumber: 3.2 Consensus size: 17
6796073 TCCGTGTATC
6796083 TGTCTAGGTCCAAGTTA
1 TGTCTAGGTCCAAGTTA
*
6796100 TGTTAATAGGTCCAAGTTA
1 TG-T-CTAGGTCCAAGTTA
6796119 TGTCTAGGTCCAAGTTA
1 TGTCTAGGTCCAAGTTA
6796136 TGT
1 TGT
6796139 ACCTATCCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 18 0.51
18 2 0.06
19 15 0.43
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (17 bp):
TGTCTAGGTCCAAGTTA
Found at i:6800793 original size:5 final size:5
Alignment explanation
Indices: 6800756--6800803 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
6800746 ATAAGATATT
*
6800756 TAATA T-ATA TAATA T-AT- TATTA TAATAA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAAT-A TAATA TAATA TAATA TAATA
6800804 GTTAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 1 0.03
4 7 0.19
5 24 0.65
6 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TAATA
Found at i:6800812 original size:24 final size:24
Alignment explanation
Indices: 6800756--6800803 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6800746 ATAAGATATT
* *
6800756 TAATATATATAATATATTATTATAA
1 TAATA-ATATAATATAATATAATAA
6800781 TAATAATATAATATAATATAATA
1 TAATAATATAATATAATATAATA
6800804 GTTAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATAATATAATATAATATAATAA
Found at i:6800828 original size:18 final size:17
Alignment explanation
Indices: 6800807--6800840 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6800797 TATAATAGTT
6800807 AAAATAAATAAAAGAAAC
1 AAAATAAA-AAAAGAAAC
*
6800825 AAAATAGAAAAAGAAA
1 AAAATAAAAAAAGAAA
6800841 GAACAGAGAA
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:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAAAGAAAC
Found at i:6800843 original size:21 final size:22
Alignment explanation
Indices: 6800817--6800883 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
6800807 AAAATAAATA
6800817 AAAGAAACAA-AATAGAAAAAG
1 AAAGAAACAAGAATAGAAAAAG
*
6800838 AAAG-AACAGAGAAT-GAAAACG
1 AAAGAAACA-AGAATAGAAAAAG
* *
6800859 AAATAAA-AAGAAAAGAAAAAG
1 AAAGAAACAAGAATAGAAAAAG
6800880 AAAG
1 AAAG
6800884 GAAAAATAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 8 0.22
21 24 0.65
22 5 0.14
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.04
Consensus pattern (22 bp):
AAAGAAACAAGAATAGAAAAAG
Found at i:6801774 original size:6 final size:6
Alignment explanation
Indices: 6801759--6801809 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
6801749 TGTGTACCGA
* * * *
6801759 TACTGC TACTGT TACTGT TACTAT TATTGT TACTGT TACTAT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT
6801807 TAC
1 TAC
6801810 GGTGTATTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:6801789 original size:18 final size:18
Alignment explanation
Indices: 6801765--6801809 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
6801755 CCGATACTGC
6801765 TACTGTTACTGTTACTAT
1 TACTGTTACTGTTACTAT
*
6801783 TATTGTTACTGTTACTAT
1 TACTGTTACTGTTACTAT
6801801 TACTGTTAC
1 TACTGTTAC
6801810 GGTGTATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (18 bp):
TACTGTTACTGTTACTAT
Found at i:6804170 original size:15 final size:15
Alignment explanation
Indices: 6804152--6804189 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6804142 TTAAATTTAA
6804152 ATTAAAAATAAAAAT
1 ATTAAAAATAAAAAT
* *
6804167 ATTAAATATATAAAT
1 ATTAAAAATAAAAAT
6804182 ATTAAAAA
1 ATTAAAAA
6804190 ATGCTTTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAAATAAAAAT
Found at i:6804579 original size:21 final size:22
Alignment explanation
Indices: 6804540--6804590 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
6804530 CTTTATAAAA
6804540 AATTATTTTTAAAACTTTTTAC
1 AATTATTTTTAAAACTTTTTAC
*
6804562 AATTATTTTTATAA-TTTTTAC
1 AATTATTTTTAAAACTTTTTAC
6804583 AATT-TTTT
1 AATTATTTT
6804591 ACATTTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 11 0.39
22 13 0.46
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (22 bp):
AATTATTTTTAAAACTTTTTAC
Found at i:6804599 original size:9 final size:10
Alignment explanation
Indices: 6804545--6804599 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 10
6804535 TAAAAAATTA
* *
6804545 TTTTTAAAAC
1 TTTTTACAAT
6804555 TTTTTACAATT
1 TTTTTACAA-T
*
6804566 ATTTTTATAA-
1 -TTTTTACAAT
6804576 TTTTTACAAT
1 TTTTTACAAT
6804586 TTTTTAC-AT
1 TTTTTACAAT
6804595 TTTTT
1 TTTTT
6804600 GTAATAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 15 0.39
10 15 0.39
12 8 0.21
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTACAAT
Found at i:6804669 original size:14 final size:16
Alignment explanation
Indices: 6804641--6804678 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
6804631 TTCAATTATC
*
6804641 ATATTTTTGTAAATTT
1 ATATTTTTATAAATTT
6804657 -TATTTTTAT-AATTT
1 ATATTTTTATAAATTT
6804671 ATATTTTT
1 ATATTTTT
6804679 TTCTAGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
ATATTTTTATAAATTT
Found at i:6804711 original size:22 final size:22
Alignment explanation
Indices: 6804668--6804728 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
6804658 ATTTTTATAA
*
6804668 TTTATA-TTTTTTTCTAGGTTT
1 TTTATATTTTTTTTCTAGATTT
6804689 TTTATATTTTTTTTCT-GAATTT
1 TTTATATTTTTTTTCTAG-ATTT
*
6804711 TCTATATATTTATTTTCT
1 T-T-TATATTTTTTTTCT
6804729 TTTTATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 7 0.21
22 13 0.38
23 1 0.03
24 13 0.38
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTATATTTTTTTTCTAGATTT
Found at i:6806014 original size:5 final size:5
Alignment explanation
Indices: 6806006--6806043 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
6805996 AAAAATAAAA
* *
6806006 ATTAT ATTAT ATTAA ATTAT ATTAT ATTAA ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
6806044 TTTATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:6806024 original size:15 final size:15
Alignment explanation
Indices: 6806004--6806043 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
6805994 ATAAAAATAA
6806004 AAATTATATTATATT
1 AAATTATATTATATT
6806019 AAATTATATTATATT
1 AAATTATATTATATT
6806034 AAATTATATT
1 AAATTATATT
6806044 TTTATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATTATATTATATT
Found at i:6807127 original size:15 final size:15
Alignment explanation
Indices: 6807109--6807159 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
6807099 AATATATTTT
6807109 TTATTTTATTTTTAA
1 TTATTTTATTTTTAA
6807124 TTATTTTAAATTTTTAA
1 TTATTTT--ATTTTTAA
* *
6807141 -TATAATTATTTTTTA
1 TTAT-TTTATTTTTAA
6807156 TTAT
1 TTAT
6807160 ATTGTCAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 14 0.47
16 6 0.20
17 10 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTTTATTTTTAA
Found at i:6807129 original size:22 final size:22
Alignment explanation
Indices: 6807097--6807162 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
6807087 AAATTATATA
6807097 TTAATATATTTTTTATTTTATTT
1 TTAAT-TATTTTTTATTTTATTT
** *
6807120 TTAATTATTTTAAATTTT-TAAT
1 TTAATTATTTTTTATTTTAT-TT
* *
6807142 ATAATTATTTTTTATTATATT
1 TTAATTATTTTTTATTTTATT
6807163 GTCAATTTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
21 1 0.03
22 26 0.79
23 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTAATTATTTTTTATTTTATTT
Found at i:6807244 original size:24 final size:26
Alignment explanation
Indices: 6807217--6807265 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
6807207 ATTTGTTTTA
6807217 ATATTTG-TGT-TTATATTTTTAAAT
1 ATATTTGATGTATTATATTTTTAAAT
*
6807241 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATGTATTATATTTTTAAA
6807266 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 2 0.09
26 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (26 bp):
ATATTTGATGTATTATATTTTTAAAT
Found at i:6807734 original size:61 final size:59
Alignment explanation
Indices: 6807595--6807755 Score: 162
Period size: 61 Copynumber: 2.6 Consensus size: 59
6807585 GTAACTATGT
* * *
6807595 TAATTGCAAAATCTTAGTATTGTAATGAAATCACCCTTCATTTACAAAATTTTAATATTATAC
1 TAATTGCAAAATCTTAGTATTGTATTGAAATCA--C--CATTTACAAAATCTTAATATTACAC
* * *
6807658 TAATTGTAAAATCTTAGTATTGTATTGGAATCACCATTTCACCAAAATCTTAAT-TTACAT
1 TAATTGCAAAATCTTAGTATTGTATTGAAATCACCATTT-A-CAAAATCTTAATATTACAC
* * * *
6807718 TGTATTGCAAAATCTTAATACTGTATTGAAATTACCAT
1 T-AATTGCAAAATCTTAGTATTGTATTGAAATCACCAT
6807756 CGCAATTGTA
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
59 5 0.06
60 6 0.07
61 42 0.51
63 30 0.36
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (59 bp):
TAATTGCAAAATCTTAGTATTGTATTGAAATCACCATTTACAAAATCTTAATATTACAC
Found at i:6807744 original size:21 final size:23
Alignment explanation
Indices: 6807700--6807745 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
6807690 ACCATTTCAC
6807700 CAAAATCTTAATTTACATTGTATTG
1 CAAAATCTTAA-TTACA-TGTATTG
6807725 CAAAATCTTAA-TAC-TGTATTG
1 CAAAATCTTAATTACATGTATTG
6807746 AAATTACCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
23 3 0.14
25 11 0.52
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (23 bp):
CAAAATCTTAATTACATGTATTG
Found at i:6811541 original size:1 final size:1
Alignment explanation
Indices: 6811535--6811563 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
6811525 TTACGAAAGT
6811535 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6811564 CGGAATTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6812864 original size:30 final size:31
Alignment explanation
Indices: 6812811--6812868 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
6812801 TCTAAAATTT
* *
6812811 GAAATTGTTATTAGGCTTTTCAATTTTTTTC
1 GAAATTGTCATTAAGCTTTTCAATTTTTTTC
6812842 GAAATTGTCATTAAGC-TTTCAATTTTT
1 GAAATTGTCATTAAGCTTTTCAATTTTT
6812869 CCAAAACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (31 bp):
GAAATTGTCATTAAGCTTTTCAATTTTTTTC
Found at i:6812917 original size:31 final size:30
Alignment explanation
Indices: 6812857--6812918 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
6812847 TGTCATTAAG
*
6812857 CTTTCAATTTTTCCAAAACTTTATCTAAAT
1 CTTTCAATTTTTCAAAAACTTTATCTAAAT
* *
6812887 CTTTCAAATTTTTTAAAAATTTTAAT-TAAAT
1 CTTTC-AATTTTTCAAAAACTTT-ATCTAAAT
6812918 C
1 C
6812919 CTTTATAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 5 0.19
31 20 0.74
32 2 0.07
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (30 bp):
CTTTCAATTTTTCAAAAACTTTATCTAAAT
Found at i:6813023 original size:22 final size:21
Alignment explanation
Indices: 6812993--6813033 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6812983 TCAATTTTTG
*
6812993 AAAAAAATTAATTAAAATTTCT
1 AAAAAAATTAA-AAAAATTTCT
*
6813015 AAAATAATTAAAAAAATTT
1 AAAAAAATTAAAAAAATTT
6813034 AATTAAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAAATTAAAAAAATTTCT
Found at i:6818038 original size:20 final size:20
Alignment explanation
Indices: 6818013--6818050 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6818003 ATCTCTATAG
6818013 ATGAAAAT-CAGCGAAAAAAC
1 ATGAAAATGCAGC-AAAAAAC
6818033 ATGAAAATGCAGCAAAAA
1 ATGAAAATGCAGCAAAAA
6818051 TTTTTCTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.61, C:0.13, G:0.16, T:0.11
Consensus pattern (20 bp):
ATGAAAATGCAGCAAAAAAC
Found at i:6819935 original size:16 final size:17
Alignment explanation
Indices: 6819901--6819938 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6819891 AGAAACATTT
*
6819901 TTTTTAATGTTTTAGTA
1 TTTTTAATGTATTAGTA
*
6819918 TTTTTGATGTATTA-TA
1 TTTTTAATGTATTAGTA
6819934 TTTTT
1 TTTTT
6819939 TTAAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (17 bp):
TTTTTAATGTATTAGTA
Found at i:6821685 original size:2 final size:2
Alignment explanation
Indices: 6821678--6821702 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6821668 AGTGCATGAT
6821678 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6821703 GGTTGGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6823918 original size:10 final size:11
Alignment explanation
Indices: 6823896--6823922 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6823886 TAATTCGAAA
6823896 TTTAAATTTTT
1 TTTAAATTTTT
6823907 TTTAAATTTTT
1 TTTAAATTTTT
6823918 TTTAA
1 TTTAA
6823923 GTCAAATCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTAAATTTTT
Found at i:6825934 original size:22 final size:22
Alignment explanation
Indices: 6825909--6825952 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6825899 TAGTCATATA
6825909 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
6825931 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
6825953 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:6828141 original size:15 final size:15
Alignment explanation
Indices: 6828121--6828177 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
6828111 ATTCAATATT
6828121 AATATTTTAATAATA
1 AATATTTTAATAATA
*
6828136 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
6828155 AATATATTAATAATA
1 AATATTTTAATAATA
6828170 AATATTTT
1 AATATTTT
6828178 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:6830886 original size:38 final size:36
Alignment explanation
Indices: 6830814--6830907 Score: 98
Period size: 38 Copynumber: 2.6 Consensus size: 36
6830804 CATGGAGCTG
* * *
6830814 ATAACTGATAAGTACAAATTATTTTTTTATTTTTAT
1 ATAACAGATAAGTGCAAATTATTTTTTTATTTTTAA
* *
6830850 ATAACAGATAAGTGTAAATTAAGTTTTTTTTTTTTTAA
1 ATAACAGATAAGTGCAAATT-A-TTTTTTTATTTTTAA
* * *
6830888 AGAAGAGATAAGTGGAAATT
1 ATAACAGATAAGTGCAAATT
6830908 CATATATATA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 17 0.35
37 1 0.02
38 30 0.62
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (36 bp):
ATAACAGATAAGTGCAAATTATTTTTTTATTTTTAA
Found at i:6836679 original size:20 final size:22
Alignment explanation
Indices: 6836656--6836697 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6836646 CATGTATATA
6836656 TATAT-AC-TATATATTTTTAT
1 TATATCACGTATATATTTTTAT
*
6836676 TATATCACGTATATGTTTTTAT
1 TATATCACGTATATATTTTTAT
6836698 ATGTACGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (22 bp):
TATATCACGTATATATTTTTAT
Found at i:6836999 original size:29 final size:25
Alignment explanation
Indices: 6836948--6837000 Score: 61
Period size: 29 Copynumber: 2.0 Consensus size: 25
6836938 ATTATTAACC
*
6836948 TTGCTTTTATGTCATCTTTTTATAA
1 TTGCTTTTATGTCATCTTATTATAA
6836973 TTGCTTGTTATTGTCATTCATTATTATA
1 TTGCTT-TTA-TGTCA-TC-TTATTATA
6837001 CATTATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 6 0.26
26 3 0.13
27 5 0.22
28 2 0.09
29 7 0.30
ACGTcount: A:0.21, C:0.11, G:0.09, T:0.58
Consensus pattern (25 bp):
TTGCTTTTATGTCATCTTATTATAA
Found at i:6848747 original size:25 final size:25
Alignment explanation
Indices: 6848718--6848765 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6848708 TTATAATATG
* * *
6848718 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
6848743 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
6848766 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:6848825 original size:17 final size:17
Alignment explanation
Indices: 6848803--6848846 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
6848793 TTTTTAATAA
6848803 ATATGCACATATGTATG
1 ATATGCACATATGTATG
6848820 ATATGCACATATGTATG
1 ATATGCACATATGTATG
6848837 ATATGCACAT
1 ATATGCACAT
6848847 GAGGTAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (17 bp):
ATATGCACATATGTATG
Found at i:6848926 original size:24 final size:24
Alignment explanation
Indices: 6848899--6849041 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
6848889 GAGGAAGTGA
6848899 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
6848923 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
6848947 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
6848970 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
6848994 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
6849018 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
6849042 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:6848992 original size:47 final size:47
Alignment explanation
Indices: 6848899--6849041 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
6848889 GAGGAAGTGA
6848899 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
6848947 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
6848994 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
6849042 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:6849015 original size:71 final size:72
Alignment explanation
Indices: 6848899--6849042 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
6848889 GAGGAAGTGA
*
6848899 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
6848962 CCAGTTAT
65 CCAGTTAT
** * *
6848970 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
6849035 CAGTTAT
66 CAGTTAT
6849042 A
1 A
6849043 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:6849268 original size:31 final size:31
Alignment explanation
Indices: 6849233--6849296 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
6849223 CGTTTACAGT
6849233 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
6849264 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
6849295 AA
1 AA
6849297 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:6856809 original size:25 final size:25
Alignment explanation
Indices: 6856780--6856827 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6856770 TTATAATATG
* * *
6856780 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
6856805 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
6856828 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Done.