Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 328 of 444
Found at i:94641981 original size:140 final size:140
Alignment explanation
Indices: 94641729--94641993 Score: 361
Period size: 140 Copynumber: 1.9 Consensus size: 140
94641719 CACTATGTCG
* * * * *
94641729 ACACTTTTCTAAGTGTTGGGGTAGACTTGTCGGCATACGTTTTGGCCAACTCTTTGTATAAGAGT
1 ACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTGTATAAGAGT
* * * * * *
94641794 TGGTATATGTATACCTAAGACAACACTTAAATAAGAGTCGGCTTTGTCCAATACTATGCCGACAC
66 CGGGATATGCATACCTAAGACAACACTAAAATAAGAGTCAGCTTTGTCCAACACTATGCCGACAC
94641859 TTTTACGCTA
131 TTTTACGCTA
* *
94641869 ACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGGCCAACTTTTTGTATAAG-GA
1 ACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTGTATAAGAG-
* * * *
94641933 TCGGGATATGCATGCCTAAGGCAACGCTAAAATAAGAGTCAGTTTTGTCCAACACTATGCC
65 TCGGGATATGCATACCTAAGACAACACTAAAATAAGAGTCAGCTTTGTCCAACACTATGCC
94641994 AACTTGTGTT
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
139 1 0.01
140 106 0.99
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (140 bp):
ACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAACTCTTTGTATAAGAGT
CGGGATATGCATACCTAAGACAACACTAAAATAAGAGTCAGCTTTGTCCAACACTATGCCGACAC
TTTTACGCTA
Found at i:94642961 original size:21 final size:21
Alignment explanation
Indices: 94642937--94643012 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
94642927 TATCTAAATA
94642937 ATTTAGTGTTTAAGGTTTATG
1 ATTTAGTGTTTAAGGTTTATG
* **
94642958 ATTTAATGTTTATTGTTTATG
1 ATTTAGTGTTTAAGGTTTATG
* * *
94642979 ATTTAGTGATTATGATTTAT-
1 ATTTAGTGTTTAAGGTTTATG
*
94642999 AGTTTAGGGTTTAA
1 A-TTTAGTGTTTAA
94643013 AATTTTAAGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
ATTTAGTGTTTAAGGTTTATG
Found at i:94644549 original size:15 final size:15
Alignment explanation
Indices: 94644529--94644557 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94644519 GTGATTAAAA
94644529 TGTAAGTATTTATGC
1 TGTAAGTATTTATGC
94644544 TGTAAGTATTTATG
1 TGTAAGTATTTATG
94644558 TTCGCTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
TGTAAGTATTTATGC
Found at i:94646906 original size:16 final size:16
Alignment explanation
Indices: 94646887--94646917 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94646877 AAACAGAGTA
*
94646887 TTTTTTTAACAGTTTG
1 TTTTTATAACAGTTTG
94646903 TTTTTATAACAGTTT
1 TTTTTATAACAGTTT
94646918 ATTGATTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.61
Consensus pattern (16 bp):
TTTTTATAACAGTTTG
Found at i:94647804 original size:37 final size:37
Alignment explanation
Indices: 94647684--94647912 Score: 181
Period size: 36 Copynumber: 6.4 Consensus size: 37
94647674 TAAACGGATT
* * * * * *
94647684 TATCCTAACC-TTTTAAAGGCTGTCTTGGAC-GGGTT
1 TATCCCAACCTTTTTAAGGGTTGTCTTAGACAAGGTC
* * * * * *
94647719 TATCCCAACTTTTTTAAAGGTTGTTTTAGAAAAAGTA
1 TATCCCAACCTTTTTAAGGGTTGTCTTAGACAAGGTC
*
94647756 TAT---AACCTTTTTAAGGGTTGCCTTAGACAAGGTC
1 TATCCCAACCTTTTTAAGGGTTGTCTTAGACAAGGTC
** * * *
94647790 TATCTTAACCTTTTT-AGAGTTGTTTTAGAC-GGGTC
1 TATCCCAACCTTTTTAAGGGTTGTCTTAGACAAGGTC
* *
94647825 TATCCCAACCTTTTTTAAGGGTTGTCTTAGACAAAGTT
1 TATCCCAACC-TTTTTAAGGGTTGTCTTAGACAAGGTC
*
94647863 TATCCCAACTTTTTTAA-GGTTGTCTTAGAC--GGATC
1 TATCCCAACCTTTTTAAGGGTTGTCTTAGACAAGG-TC
94647898 TATCCCAACCTTTTT
1 TATCCCAACCTTTTT
94647913 CAAAATCACA
Statistics
Matches: 154, Mismatches: 31, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
34 28 0.18
35 35 0.23
36 46 0.30
37 34 0.22
38 11 0.07
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (37 bp):
TATCCCAACCTTTTTAAGGGTTGTCTTAGACAAGGTC
Found at i:94647854 original size:73 final size:73
Alignment explanation
Indices: 94647759--94647912 Score: 213
Period size: 73 Copynumber: 2.1 Consensus size: 73
94647749 AAAAGTATAT
* ** *
94647759 AACC-TTTTTAAGGGTTGCCTTAGACAAGGTCTATCTTAACCTTTTT-AGAGTTGTTTTAGACGG
1 AACCTTTTTTAAGGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAG-GTTGTCTTAGACGG
*
94647822 GTCTATCCC
65 ATCTATCCC
* * *
94647831 AACCTTTTTTAAGGGTTGTCTTAGACAAAGTTTATCCCAACTTTTTTAAGGTTGTCTTAGACGGA
1 AACCTTTTTTAAGGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACGGA
94647896 TCTATCCC
66 TCTATCCC
94647904 AACCTTTTT
1 AACCTTTTT
94647913 CAAAATCACA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
72 4 0.06
73 66 0.92
74 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (73 bp):
AACCTTTTTTAAGGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACGGA
TCTATCCC
Found at i:94648285 original size:29 final size:29
Alignment explanation
Indices: 94648262--94648331 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
94648252 AAAAAAGTAT
94648262 TAAGAATTATTTAAACATTTAAAAAGATTA
1 TAAGAATTATTTAAA-ATTTAAAAAGATTA
* *
94648292 TAATAATTATTTAAATTTTAAAAATGA-TA
1 TAAGAATTATTTAAAATTTAAAAA-GATTA
*
94648321 -AAAAATTATTT
1 TAAGAATTATTT
94648332 TTTTAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 10 0.28
29 10 0.28
30 16 0.44
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (29 bp):
TAAGAATTATTTAAAATTTAAAAAGATTA
Found at i:94648286 original size:30 final size:29
Alignment explanation
Indices: 94648237--94648331 Score: 79
Period size: 30 Copynumber: 3.3 Consensus size: 29
94648227 TAATTAATTA
** *
94648237 AATT-TTTAAAAAATAAAAAAAGTATTAAG
1 AATTATTTAAAATTTAAAAAGAGTA-TAAG
* *
94648266 AATTATTTAAACATTTAAAAAGATTATAAT
1 AATTATTTAAA-ATTTAAAAAGAGTATAAG
* *
94648296 AATTATTTAAATTTTAAAAATGA-TA-AAA
1 AATTATTTAAAATTTAAAAA-GAGTATAAG
94648324 AATTATTT
1 AATTATTT
94648332 TTTTAATTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
28 10 0.18
29 14 0.25
30 22 0.39
31 10 0.18
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (29 bp):
AATTATTTAAAATTTAAAAAGAGTATAAG
Found at i:94651477 original size:15 final size:15
Alignment explanation
Indices: 94651445--94651499 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
94651435 AATAAAAGTG
* *
94651445 TAATTATAATATTAT
1 TAATTATAATTTTTT
94651460 TAATTATAATTTTTT
1 TAATTATAATTTTTT
*
94651475 TAA-AAT-ATTTTTT
1 TAATTATAATTTTTT
*
94651488 TATTTTATAATT
1 TA-ATTATAATT
94651500 GAGTTGTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.28
14 2 0.06
15 18 0.56
16 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATTATAATTTTTT
Found at i:94651690 original size:20 final size:19
Alignment explanation
Indices: 94651653--94651692 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94651643 AAAATTTTTA
* *
94651653 AAAATTTTTAATTTAATTT
1 AAAATTTTTAAATAAATTT
94651672 AAAATTTTTAAAATAAATTT
1 AAAATTTTT-AAATAAATTT
94651692 A
1 A
94651693 CTATAATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAATTTTTAAATAAATTT
Found at i:94655116 original size:5 final size:5
Alignment explanation
Indices: 94655106--94655130 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
94655096 TGAGTTAAAG
94655106 TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT
94655131 GATAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TATGT
Found at i:94655563 original size:2 final size:2
Alignment explanation
Indices: 94655556--94655592 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
94655546 TGTTAGAAGG
94655556 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94655593 GAGATGGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:94658726 original size:43 final size:41
Alignment explanation
Indices: 94658679--94658775 Score: 113
Period size: 43 Copynumber: 2.3 Consensus size: 41
94658669 TCCCGAATAT
*
94658679 GGTCTTACATGCTATCACATATCGATGCCACTATCCCAGACAG
1 GGTCTTACATGCTATCAC-T-TCGATGCCAATATCCCAGACAG
** * *
94658722 GGTCTTACACATTTTATCACTTCGATGCCAATGTCCCAGACAT
1 GGTCTT--ACATGCTATCACTTCGATGCCAATATCCCAGACAG
94658765 GGTCTTACATG
1 GGTCTTACATG
94658776 AATCACACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
41 4 0.09
43 31 0.67
44 1 0.02
45 10 0.22
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (41 bp):
GGTCTTACATGCTATCACTTCGATGCCAATATCCCAGACAG
Found at i:94660391 original size:22 final size:22
Alignment explanation
Indices: 94660342--94660391 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
94660332 TTAAATAGGT
* *
94660342 AAAATATGTTAAAAATTAACAT
1 AAAATATATTAAAAATTAACAA
*
94660364 ATAATATATTAAAACATTAA-AA
1 AAAATATATTAAAA-ATTAACAA
94660386 AAAATA
1 AAAATA
94660392 ATAAGAAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATATATTAAAAATTAACAA
Found at i:94660927 original size:16 final size:17
Alignment explanation
Indices: 94660891--94660928 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
94660881 AAAATGGTAA
94660891 TTTTCCCATTTATGAGT
1 TTTTCCCATTTATGAGT
94660908 TTTTCCCATTTATGAGT
1 TTTTCCCATTTATGAGT
94660925 TTTT
1 TTTT
94660929 GGATTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.58
Consensus pattern (17 bp):
TTTTCCCATTTATGAGT
Found at i:94672210 original size:21 final size:21
Alignment explanation
Indices: 94672169--94672224 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
94672159 GCATATTTTG
*
94672169 TCATTATTATTATTCTTTTTA
1 TCATTATTATTATTCTCTTTA
94672190 TCATTATTATTA-TCTACTTTA
1 TCATTATTATTATTCT-CTTTA
*
94672211 TTATTTATT-TTATT
1 TCA-TTATTATTATT
94672225 TTTCTTTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 3 0.10
21 21 0.70
22 6 0.20
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (21 bp):
TCATTATTATTATTCTCTTTA
Found at i:94680234 original size:26 final size:26
Alignment explanation
Indices: 94680197--94680247 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
94680187 ACTTTATGAT
* * *
94680197 TTCATGCGTGTATAAATATAAACCAC
1 TTCATGCATGTAAAAAGATAAACCAC
94680223 TTCATGCATGTAAAAAGATAAACCA
1 TTCATGCATGTAAAAAGATAAACCA
94680248 AACTTCAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (26 bp):
TTCATGCATGTAAAAAGATAAACCAC
Found at i:94682672 original size:13 final size:12
Alignment explanation
Indices: 94682642--94682685 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 12
94682632 TATTCCTAGA
94682642 AAAATA-ATTAT
1 AAAATATATTAT
94682653 AAAATATATCTAT
1 AAAATATAT-TAT
*
94682666 AATATATATTAT
1 AAAATATATTAT
94682678 AAAA-ATAT
1 AAAATATAT
94682686 GAGTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 10 0.34
12 8 0.28
13 11 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATATATTAT
Found at i:94683074 original size:15 final size:15
Alignment explanation
Indices: 94683054--94683083 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
94683044 ACGTGGAAGA
94683054 TATAAATTAATAAAT
1 TATAAATTAATAAAT
94683069 TATAAATTAATAAAT
1 TATAAATTAATAAAT
94683084 ATTTTTTTTA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TATAAATTAATAAAT
Found at i:94683075 original size:7 final size:8
Alignment explanation
Indices: 94683055--94683083 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
94683045 CGTGGAAGAT
94683055 ATAAATTA
1 ATAAATTA
94683063 ATAAATT-
1 ATAAATTA
94683070 ATAAATTA
1 ATAAATTA
94683078 ATAAAT
1 ATAAAT
94683084 ATTTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAAATTA
Found at i:94684569 original size:6 final size:6
Alignment explanation
Indices: 94684558--94684599 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
94684548 TTATGTGTTC
94684558 TTTATT TTTATT TTTATT TTTA-T TTTA-T TTTA-T TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
94684600 CTCATCTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 15 0.43
6 20 0.57
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:94684577 original size:5 final size:5
Alignment explanation
Indices: 94684558--94684598 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
94684548 TTATGTGTTC
94684558 TTTATT TTTATT TTTATT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTA-T TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
94684599 TCTCATCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 19 0.54
6 16 0.46
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:94684590 original size:10 final size:11
Alignment explanation
Indices: 94684558--94684599 Score: 68
Period size: 10 Copynumber: 3.8 Consensus size: 11
94684548 TTATGTGTTC
94684558 TTTATTTTTATT
1 TTTATTTTTA-T
94684570 TTTATTTTTAT
1 TTTATTTTTAT
94684581 TTTA-TTTTAT
1 TTTATTTTTAT
94684591 TTTATTTTT
1 TTTATTTTT
94684600 CTCATCTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:94686217 original size:15 final size:15
Alignment explanation
Indices: 94686177--94686219 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
94686167 TATTATTGCT
**
94686177 ATTATTATCATTATC
1 ATTATTATTTTTATC
94686192 ATTATTATTTTTATC
1 ATTATTATTTTTATC
*
94686207 ATTATTCTTTTTA
1 ATTATTATTTTTA
94686220 ACTGTTTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTATC
Found at i:94690610 original size:22 final size:23
Alignment explanation
Indices: 94690585--94690707 Score: 114
Period size: 22 Copynumber: 5.5 Consensus size: 23
94690575 GAGTCATGGT
94690585 CAGTAAGCTC-ATTAGAGCTGAA
1 CAGTAAGCTCTATTAGAGCTGAA
94690607 CAGTAAGCTCTATT-GAGCTGAA
1 CAGTAAGCTCTATTAGAGCTGAA
* * *
94690629 -ATGGTAAGCCCTAAT-GAGCTTAA
1 CA--GTAAGCTCTATTAGAGCTGAA
*
94690652 CAGTATGCTCTATT-GAGCTGAA
1 CAGTAAGCTCTATTAGAGCTGAA
* * *
94690674 CGGTAAGCTCTAATA-AGCTACAA
1 CAGTAAGCTCTATTAGAGCT-GAA
94690697 CAGTAAGCTCT
1 CAGTAAGCTCT
94690708 TATGAGCTAT
Statistics
Matches: 83, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
21 1 0.01
22 49 0.59
23 32 0.39
24 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (23 bp):
CAGTAAGCTCTATTAGAGCTGAA
Found at i:94690636 original size:45 final size:44
Alignment explanation
Indices: 94690587--94690715 Score: 129
Period size: 45 Copynumber: 2.9 Consensus size: 44
94690577 GTCATGGTCA
* *
94690587 GTAAGCTCATTAGAGCTGAACAGTAAGCTCTATTGAGCTGAAATG
1 GTAAGCTCATTAGAGCTCAACAGTAAGCTCTATTGAGCTG-AACG
* * * *
94690632 GTAAGC-CCTAATGAGCTTAACAGTATGCTCTATTGAGCTGAACG
1 GTAAGCTCATTA-GAGCTCAACAGTAAGCTCTATTGAGCTGAACG
*
94690676 GTAAGCTCTAATA-AGCTACAACAGTAAGCTCT-TATGAGCT
1 GTAAGCTC-ATTAGAGCT-CAACAGTAAGCTCTAT-TGAGCT
94690716 ATGGTGAGTC
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
44 17 0.25
45 51 0.74
46 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
GTAAGCTCATTAGAGCTCAACAGTAAGCTCTATTGAGCTGAACG
Found at i:94690703 original size:67 final size:67
Alignment explanation
Indices: 94690585--94690715 Score: 158
Period size: 67 Copynumber: 2.0 Consensus size: 67
94690575 GAGTCATGGT
* * **
94690585 CAGTAAGCTCATTAGAGCTGAACAGTAAGCTCTATTGAGCTGAAATGGTAAGCCCTAATGAGCTT
1 CAGTAAGCTCATTAGAGCTGAACAGTAAGCTCTAATAAGCTGAAACAGTAAGCCCTAATGAGCTT
94690650 AA
66 AA
* * * *
94690652 CAGTATGCTCTATT-GAGCTGAACGGTAAGCTCTAATAAGCT-ACAACAGTAAGCTCTTATGAGC
1 CAGTAAGCTC-ATTAGAGCTGAACAGTAAGCTCTAATAAGCTGA-AACAGTAAGCCCTAATGAGC
94690715 T
64 T
94690716 ATGGTGAGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 1 0.02
67 50 0.93
68 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (67 bp):
CAGTAAGCTCATTAGAGCTGAACAGTAAGCTCTAATAAGCTGAAACAGTAAGCCCTAATGAGCTT
AA
Found at i:94700371 original size:6 final size:5
Alignment explanation
Indices: 94700356--94700425 Score: 58
Period size: 5 Copynumber: 13.6 Consensus size: 5
94700346 TTCTTTTTCT
94700356 TTTTA -TTTA TTCTTA TTTTA -TTTA -TTTA -TTTA TTTTA TTATTA TTTTTA
1 TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA -TTTTA
94700405 TTTTGA TTTTTA TTTTCA TTT
1 TTTT-A -TTTTA TTTT-A TTT
94700426 CAATTTTCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
4 16 0.28
5 18 0.32
6 17 0.30
7 6 0.11
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:94700387 original size:23 final size:23
Alignment explanation
Indices: 94700357--94700401 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
94700347 TCTTTTTCTT
94700357 TTTATTTATTCTTATT-TTATTTA
1 TTTATTTATT-TTATTATTATTTA
94700380 TTTATTTATTTTATTATTATTT
1 TTTATTTATTTTATTATTATTT
94700402 TTATTTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTATTTATTTTATTATTATTTA
Found at i:94700403 original size:12 final size:11
Alignment explanation
Indices: 94700350--94700425 Score: 68
Period size: 12 Copynumber: 6.7 Consensus size: 11
94700340 CCTATTTTCT
*
94700350 TTTTCTTTTTA
1 TTTTATTTTTA
*
94700361 -TTTATTCTTA
1 TTTTATTTTTA
94700371 TTTTATTTATT-
1 TTTTATTT-TTA
94700382 TATTTA-TTTTA
1 T-TTTATTTTTA
94700393 TTATTATTTTTA
1 TT-TTATTTTTA
94700405 TTTTGATTTTTA
1 TTTT-ATTTTTA
94700417 TTTTCATTT
1 TTTT-ATTT
94700426 CAATTTTCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
10 11 0.20
11 15 0.28
12 28 0.52
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:94700413 original size:23 final size:21
Alignment explanation
Indices: 94700350--94700425 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 21
94700340 CCTATTTTCT
*
94700350 TTTTCTTTTTA-TTTATTCTTA
1 TTTTATTTTTATTTTATT-TTA
94700371 TTTTATTTATT-TATTTATTTTA
1 TTTTATTT-TTAT-TTTATTTTA
94700393 TTATTATTTTTATTTTGATTTTTA
1 TT-TTATTTTTATTTT-A-TTTTA
94700417 TTTTCATTT
1 TTTT-ATTT
94700426 CAATTTTCTT
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
21 7 0.15
22 12 0.26
23 16 0.35
24 11 0.24
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (21 bp):
TTTTATTTTTATTTTATTTTA
Found at i:94700420 original size:17 final size:16
Alignment explanation
Indices: 94700342--94700425 Score: 64
Period size: 17 Copynumber: 5.0 Consensus size: 16
94700332 TGAATCCTCC
* *
94700342 TATTTTCTTTTTCTTT
1 TATTTTATTTTTATTT
*
94700358 T-TATTTATTCTTATTT
1 TAT-TTTATTTTTATTT
94700374 TA-TTTATTTATTTATTT
1 TATTTTA-TT-TTTATTT
94700391 TATTATTATTTTTATTT
1 TATT-TTATTTTTATTT
*
94700408 TGATTTTTATTTTCATTT
1 T-A-TTTTATTTTTATTT
94700426 CAATTTTCTT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
15 5 0.09
16 14 0.25
17 16 0.29
18 15 0.27
19 5 0.09
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (16 bp):
TATTTTATTTTTATTT
Found at i:94703923 original size:22 final size:21
Alignment explanation
Indices: 94703898--94703992 Score: 73
Period size: 22 Copynumber: 4.3 Consensus size: 21
94703888 CTCATTCAAA
*
94703898 CTGAATAGTAAGCACTATTGAG
1 CTGAA-AGTAAGCTCTATTGAG
* *
94703920 CTGAAACGGTATGCTCTAATGAG
1 CTGAAA--GTAAGCTCTATTGAG
*
94703943 CTGAACGGTAAGCTCTATTGAG
1 CTGAA-AGTAAGCTCTATTGAG
* * * *
94703965 TTGAACGATAAGCTCCAATGAG
1 CTGAAAG-TAAGCTCTATTGAG
94703987 CTGAAA
1 CTGAAA
94703993 TAGTAAGTTC
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
21 2 0.04
22 38 0.67
23 17 0.30
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (21 bp):
CTGAAAGTAAGCTCTATTGAG
Found at i:94703954 original size:45 final size:44
Alignment explanation
Indices: 94703905--94703991 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
94703895 AAACTGAATA
* * *
94703905 GTAAGCACTATTGAGCTGAAACGGTATGCTCTAATGAGCTGAACG
1 GTAAGCACTATTGAGCTG-AACGATAAGCTCCAATGAGCTGAACG
* *
94703950 GTAAGCTCTATTGAGTTGAACGATAAGCTCCAATGAGCTGAA
1 GTAAGCACTATTGAGCTGAACGATAAGCTCCAATGAGCTGAA
94703992 ATAGTAAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 21 0.57
45 16 0.43
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (44 bp):
GTAAGCACTATTGAGCTGAACGATAAGCTCCAATGAGCTGAACG
Found at i:94703999 original size:45 final size:45
Alignment explanation
Indices: 94703898--94703999 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
94703888 CTCATTCAAA
* * *
94703898 CTGAATAGTAAGCACTATTGAGCTGAAACGGTATGCTCTAATGAG
1 CTGAATAGTAAGCACTATTGAGCTGAAACGATAAGCTCCAATGAG
** * *
94703943 CTGAACGGTAAGCTCTATTGAGTTG-AACGATAAGCTCCAATGAG
1 CTGAATAGTAAGCACTATTGAGCTGAAACGATAAGCTCCAATGAG
94703987 CTGAAATAGTAAG
1 CTG-AATAGTAAG
94704000 TTCTTACAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 19 0.40
45 28 0.60
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (45 bp):
CTGAATAGTAAGCACTATTGAGCTGAAACGATAAGCTCCAATGAG
Found at i:94713055 original size:44 final size:43
Alignment explanation
Indices: 94712914--94713140 Score: 143
Period size: 44 Copynumber: 5.1 Consensus size: 43
94712904 TACGAGTTAT
* * * * *
94712914 AAATCTTATCTCCCTGAAGCTGTAGTGGAGTAGATCGAAGATAAC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGAT-TAA-ATTAC
* * * *
94712959 AACTCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTT-T
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAA--TTAC
* * *
94713003 AAACCTTATCTCTCTGAAGTTGTAGTAGAGCAGCTTAACATTAC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAA-ATTAC
* * * * *
94713047 AAATCTTATTTCCCTAAAGTTGTAGTTGAGCAAACTGAAGA-TAGC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-TTAA-ATTA-C
* * * * * * *
94713092 GAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAA-TTAC
94713136 AAATC
1 AAATC
94713141 ACAAATCTGA
Statistics
Matches: 140, Mismatches: 34, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
43 4 0.03
44 71 0.51
45 65 0.46
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (43 bp):
AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAATTAC
Found at i:94713298 original size:120 final size:120
Alignment explanation
Indices: 94713084--94713301 Score: 330
Period size: 120 Copynumber: 1.8 Consensus size: 120
94713074 GAGCAAACTG
* *
94713084 AAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAATCACAAATCT
1 AAGATAGCAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAACCACAAATCT
* * ** *
94713149 GATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAAAAAGCAAATCTTATCTCTTTA
66 GATCTCCTTAAAGTTACAGTAAAGAAGATTGAAAAAAGCAAATCTTATCTCTTTA
* *
94713204 AAGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAACCACAAATCT
1 AAGATAGCAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAACCACAAATCT
*
94713269 TATCTTCC-TAAAGTTACAGTAAAGAAGATTGAA
66 GATC-TCCTTAAAGTTACAGTAAAGAAGATTGAA
94713302 GATACGAGTC
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
120 84 0.97
121 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (120 bp):
AAGATAGCAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAACCACAAATCT
GATCTCCTTAAAGTTACAGTAAAGAAGATTGAAAAAAGCAAATCTTATCTCTTTA
Found at i:94713325 original size:44 final size:44
Alignment explanation
Indices: 94713261--94713390 Score: 134
Period size: 44 Copynumber: 3.0 Consensus size: 44
94713251 GCTACAAACC
* * * * * *
94713261 ACAAATCTTATCTTCCTAAAGTTACAGTAAAGAAGATTGAAGAT
1 ACAAGTCTCATCTCCCTAAAGTTACAGTGAAGCAGATCGAAGAT
* * * **
94713305 ACGAGTCTCATCTCCCTAAAGTTACAGGGAAGCAGATGGAATCT
1 ACAAGTCTCATCTCCCTAAAGTTACAGTGAAGCAGATCGAAGAT
* * *
94713349 ACAAGTCTTATCTCTCTAAAGTTGCAGTGAAGCAGATCGAAG
1 ACAAGTCTCATCTCCCTAAAGTTACAGTGAAGCAGATCGAAG
94713391 CAACAATTCC
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (44 bp):
ACAAGTCTCATCTCCCTAAAGTTACAGTGAAGCAGATCGAAGAT
Found at i:94714860 original size:21 final size:21
Alignment explanation
Indices: 94714831--94714871 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94714821 TTATAATATT
94714831 ATTACTATTATTATCATTATC
1 ATTACTATTATTATCATTATC
* *
94714852 ATTATTATTTTTATCATTAT
1 ATTACTATTATTATCATTAT
94714872 TCTTTTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTACTATTATTATCATTATC
Found at i:94714877 original size:15 final size:15
Alignment explanation
Indices: 94714837--94714879 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
94714827 TATTATTACT
**
94714837 ATTATTATCATTATC
1 ATTATTATTTTTATC
94714852 ATTATTATTTTTATC
1 ATTATTATTTTTATC
*
94714867 ATTATTCTTTTTA
1 ATTATTATTTTTA
94714880 ACTGTTTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTATC
Found at i:94716777 original size:11 final size:11
Alignment explanation
Indices: 94716761--94716803 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
94716751 TTATTAGCTC
94716761 TTATTATTTTA
1 TTATTATTTTA
94716772 TTATTATTTTA
1 TTATTATTTTA
*
94716783 TTCTATTTTTTTA
1 -T-TATTATTTTA
*
94716796 TAATTATT
1 TTATTATT
94716804 AAGTATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:94717658 original size:10 final size:10
Alignment explanation
Indices: 94717633--94717677 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
94717623 TATTTCCCAC
94717633 AAAAAAATTG
1 AAAAAAATTG
94717643 ATAAAAAATTG
1 A-AAAAAATTG
*
94717654 AAAAAAATAG
1 AAAAAAATTG
*
94717664 AAAAATA-TG
1 AAAAAAATTG
94717673 AAAAA
1 AAAAA
94717678 TAAAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 6 0.19
10 15 0.48
11 10 0.32
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:94720657 original size:20 final size:19
Alignment explanation
Indices: 94720632--94720671 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
94720622 CTAAACTGAT
*
94720632 AACTTAGGAAATTTTTACAA
1 AACTTAGAAAATTTTT-CAA
94720652 AACTTAGAAAATTTTTCAA
1 AACTTAGAAAATTTTTCAA
94720671 A
1 A
94720672 CTACAAGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (19 bp):
AACTTAGAAAATTTTTCAA
Found at i:94720666 original size:19 final size:20
Alignment explanation
Indices: 94720632--94720671 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
94720622 CTAAACTGAT
*
94720632 AACTTAGGAAATTTTTACAA
1 AACTTAGGAAAATTTTACAA
*
94720652 AACTTA-GAAAATTTTTCAA
1 AACTTAGGAAAATTTTACAA
94720671 A
1 A
94720672 CTACAAGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (20 bp):
AACTTAGGAAAATTTTACAA
Found at i:94727144 original size:15 final size:15
Alignment explanation
Indices: 94727124--94727180 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
94727114 CGATGAATTT
94727124 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
94727139 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
94727154 ATTGAATTTATATTG
1 ATTGAATTTATATTG
94727169 ATTGAA-TTATAT
1 ATTGAATTTATAT
94727181 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:94727583 original size:23 final size:23
Alignment explanation
Indices: 94727552--94727637 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 23
94727542 GGCTTTATCA
* *
94727552 ATCAAGCACTTTATGTGTCGTGT
1 ATCAGGCACCTTATGTGTCGTGT
*
94727575 ATCAGGCACCTTGTGTGTC--GT
1 ATCAGGCACCTTATGTGTCGTGT
**
94727596 ATCAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACCTTATGTGTCGTGT
* *
94727618 -TTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
94727638 ATACTGATCA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
21 36 0.68
22 1 0.02
23 16 0.30
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (23 bp):
ATCAGGCACCTTATGTGTCGTGT
Found at i:94727597 original size:21 final size:21
Alignment explanation
Indices: 94727565--94727639 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
94727555 AAGCACTTTA
94727565 TGTGTCGT-GTATCAGGCACCT
1 TGTGT-GTCGTATCAGGCACCT
94727586 TGTGTGTCGTATCAGGCACCT
1 TGTGTGTCGTATCAGGCACCT
* * * *
94727607 CGTGTGTCGTTTTAGGCACTT
1 TGTGTGTCGTATCAGGCACCT
*
94727628 TATGTGTCGTAT
1 TGTGTGTCGTAT
94727640 ACTGATCAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
20 2 0.04
21 44 0.96
ACGTcount: A:0.13, C:0.20, G:0.28, T:0.39
Consensus pattern (21 bp):
TGTGTGTCGTATCAGGCACCT
Found at i:94729317 original size:2 final size:2
Alignment explanation
Indices: 94729310--94729343 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
94729300 TCTGAAAGAA
94729310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94729344 CAGTCAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94732050 original size:8 final size:8
Alignment explanation
Indices: 94732037--94732065 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
94732027 TTATGTTTAA
94732037 TATATTAT
1 TATATTAT
94732045 TATATTAT
1 TATATTAT
94732053 TATATTAT
1 TATATTAT
94732061 TATAT
1 TATAT
94732066 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:94732097 original size:5 final size:5
Alignment explanation
Indices: 94732087--94732132 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
94732077 TTATGTTTTA
94732087 ATTAT ATTAT ATTAT A-TAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
94732133 AAACTAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 36 0.90
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:94733424 original size:15 final size:15
Alignment explanation
Indices: 94733404--94733462 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
94733394 CGATGAATTT
94733404 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
94733419 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
94733434 ATTGAATTTATATTG
1 ATTGAATTTATATTG
94733449 ATTGAATTATATAT
1 ATTGAATT-TATAT
94733463 ATATATGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
15 34 0.87
16 5 0.13
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:94733875 original size:21 final size:21
Alignment explanation
Indices: 94733830--94733917 Score: 86
Period size: 21 Copynumber: 4.1 Consensus size: 21
94733820 GGCTTTATCG
* *
94733830 ATCAGGCACTTTATGTGTCGTGT
1 ATCAGGCACCTTGTGTGTC--GT
*
94733853 ATCAAGCACCTTGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
*
94733874 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* * * *
94733895 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
94733916 AT
1 AT
94733918 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 38 0.70
23 16 0.30
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (21 bp):
ATCAGGCACCTTGTGTGTCGT
Found at i:94739280 original size:26 final size:25
Alignment explanation
Indices: 94739212--94739269 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
94739202 CTCTTTGAGT
*
94739212 TTTCTTTTCAAGAATTTTTCTTAGG
1 TTTCTTTTCAAGAATTTTTCTTAAG
94739237 TTTCTTTTCAAGAATTTTTCTTAAG
1 TTTCTTTTCAAGAATTTTTCTTAAG
94739262 TTTCTTTT
1 TTTCTTTT
94739270 AGAAGAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.19, C:0.12, G:0.09, T:0.60
Consensus pattern (25 bp):
TTTCTTTTCAAGAATTTTTCTTAAG
Found at i:94743741 original size:18 final size:18
Alignment explanation
Indices: 94743718--94743763 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
94743708 GTTTTTCTTC
94743718 AATCATG-ACTTAACGTAG
1 AATCATGCA-TTAACGTAG
94743736 AATCATGCATTAACGTAG
1 AATCATGCATTAACGTAG
94743754 AATCATGCAT
1 AATCATGCAT
94743764 AAATATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (18 bp):
AATCATGCATTAACGTAG
Found at i:94753597 original size:21 final size:20
Alignment explanation
Indices: 94753571--94753611 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
94753561 CGTGCTATGT
*
94753571 AATAATAGATTTAAATATAAA
1 AATAATAGATTCAAA-ATAAA
*
94753592 AATAATTGATTCAAAATAAA
1 AATAATAGATTCAAAATAAA
94753612 TATTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
AATAATAGATTCAAAATAAA
Found at i:94753632 original size:25 final size:25
Alignment explanation
Indices: 94753599--94753647 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
94753589 AAAAATAATT
* *
94753599 GATTCAAAATAAATATTATTTTAAC
1 GATTCAAAAGAAATAATATTTTAAC
* *
94753624 GATTTAAAAGAAGTAATATTTTAA
1 GATTCAAAAGAAATAATATTTTAA
94753648 TATAATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (25 bp):
GATTCAAAAGAAATAATATTTTAAC
Found at i:94758847 original size:29 final size:27
Alignment explanation
Indices: 94758813--94758915 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
94758803 TACTCAATCA
*
94758813 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
94758842 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
94758871 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
94758900 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
94758916 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:94766639 original size:29 final size:27
Alignment explanation
Indices: 94766605--94766707 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
94766595 TACTCAATCA
*
94766605 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
94766634 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
94766663 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
94766692 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
94766708 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:94784801 original size:15 final size:15
Alignment explanation
Indices: 94784781--94784837 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
94784771 CGATGAATTT
94784781 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
94784796 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
94784811 ATTGAATTTATATTG
1 ATTGAATTTATATTG
94784826 ATTGAA-TTATAT
1 ATTGAATTTATAT
94784838 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:94785239 original size:23 final size:23
Alignment explanation
Indices: 94785209--94785295 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
94785199 GCTTTACTGA
* *
94785209 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
94785232 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
94785253 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
94785275 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
94785296 ACTGATAAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:94791173 original size:15 final size:15
Alignment explanation
Indices: 94791153--94791209 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
94791143 CGATGAATTT
94791153 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
94791168 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
94791183 ATTGAATTTATATTG
1 ATTGAATTTATATTG
94791198 ATTGAA-TTATAT
1 ATTGAATTTATAT
94791210 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:94791618 original size:23 final size:23
Alignment explanation
Indices: 94791592--94791661 Score: 76
Period size: 21 Copynumber: 3.2 Consensus size: 23
94791582 GGCACTTTAC
94791592 GTGTCATATTTCAGGCACCTCAT
1 GTGTCATATTTCAGGCACCTCAT
* *
94791615 GTGTCGTA--TCAGGCACCTCGT
1 GTGTCATATTTCAGGCACCTCAT
* *
94791636 GTGTCAT-TTT-AGGCACTTTAT
1 GTGTCATATTTCAGGCACCTCAT
94791657 GTGTC
1 GTGTC
94791662 GTCTACTGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 31 0.79
22 1 0.03
23 7 0.18
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (23 bp):
GTGTCATATTTCAGGCACCTCAT
Found at i:94794475 original size:15 final size:15
Alignment explanation
Indices: 94794457--94794523 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 15
94794447 ATCTTGGGTT
94794457 TCTTTATCCTGGATC
1 TCTTTATCCTGGATC
*
94794472 TCTTTATTCTGGATC
1 TCTTTATCCTGGATC
* * *
94794487 TCTTTATTCTGGGTT
1 TCTTTATCCTGGATC
* * *
94794502 TCTCTATCTTGGATT
1 TCTTTATCCTGGATC
94794517 TCTTTAT
1 TCTTTAT
94794524 TCGGTTTTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.12, C:0.19, G:0.13, T:0.55
Consensus pattern (15 bp):
TCTTTATCCTGGATC
Found at i:94794515 original size:30 final size:30
Alignment explanation
Indices: 94794446--94794533 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
94794436 CATAGTATCG
* * * *
94794446 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
94794476 TAT-TCTGGATCTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
94794506 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
94794534 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:94796982 original size:46 final size:46
Alignment explanation
Indices: 94796928--94797103 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
94796918 TGGTTGAGCA
94796928 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
94796974 TCCAAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
94797019 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* **
94797067 CCCGAGTTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94797104 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:94797084 original size:93 final size:93
Alignment explanation
Indices: 94796925--94797096 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
94796915 GGATGGTTGA
* *
94796925 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
94796990 TGAGTCCGAGTTCATGAAATGTAACTAG
66 TGAGTCCGAGTTCATGAAATGTAACTAG
* **
94797018 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGTTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
94797083 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
94797097 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCATGAAATGTAACTAG
Found at i:94799319 original size:53 final size:53
Alignment explanation
Indices: 94799248--94799393 Score: 132
Period size: 53 Copynumber: 2.7 Consensus size: 53
94799238 TTTTCCTTTT
* * * *** * * *
94799248 TGAACTTACCATTTCCATGTCTTGACATGGCCTTGTGTCGTATCC-TTGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGCCTTACATAGGA-CCTTTGCCATA
* * *
94799301 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATAGGACCTTTGCCATA
1 TGAACTCACCAATGCCATGTCTTGACATGGCCTTACATAGGACCTTTGCCATA
* *
94799354 TAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACAT
1 T-G-AACTCACCAATGCCATGTCTTGACATGGCCTTACAT
94799394 GACTTCCTTG
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 2 0.03
53 39 0.52
54 1 0.01
55 33 0.44
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGTCTTGACATGGCCTTACATAGGACCTTTGCCATA
Found at i:94799456 original size:54 final size:54
Alignment explanation
Indices: 94799288--94799456 Score: 202
Period size: 55 Copynumber: 3.1 Consensus size: 54
94799278 CCTTGTGTCG
* * *
94799288 TATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACAT-AG
1 TATCCTTGCCTTAAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAC
* * * *
94799341 GA-CCTTTGCCATATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGAC
1 TATCC-TTGCCTTA-AG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAC
*
94799397 T-TCCTTGCCTTAGAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA-
1 TATCCTTGCCTTA-AGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAC
94799450 TATCCTT
1 TATCCTT
94799457 ATCTTACCAA
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 9 0.09
54 41 0.42
55 42 0.43
56 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (54 bp):
TATCCTTGCCTTAAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAC
Found at i:94799490 original size:47 final size:47
Alignment explanation
Indices: 94799435--94799556 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
94799425 CATGCCTTGG
* * *
94799435 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCAAAA
*
94799482 CATGGTCTTATATGGTATCCTTGTCTTACCAAATGCCATGTTCAAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCAAAA
94799529 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
94799557 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCAAAA
Found at i:94803335 original size:28 final size:28
Alignment explanation
Indices: 94803266--94803366 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
94803256 GACAAGATTG
* * * *
94803266 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
94803296 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
94803324 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
94803353 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
94803367 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:94811293 original size:28 final size:28
Alignment explanation
Indices: 94811224--94811324 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
94811214 GACAAGATTG
* * * *
94811224 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
94811254 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
94811282 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
94811311 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
94811325 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:94817313 original size:55 final size:54
Alignment explanation
Indices: 94817231--94817387 Score: 198
Period size: 55 Copynumber: 2.9 Consensus size: 54
94817221 GTGTCGTATC
94817231 CTTGCCTTAT-GAACTCA-CTAATGCCATGACTTGGCATGGTCTTACATGGGACTTT
1 CTTGCCTTATAGAACTCATC-AATGCCATGACTTGGCATGGTCTTACAT-GGA-TTT
* *
94817286 -TT-CCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACAT-GATTT
1 CTTGCCTTATAG-AACTCATCAATGCCATGACTTGGCATGGTCTTACATGGATTT
* *
94817338 CCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 -CTTGCCTTATAGAACTCATCAATGCCATGACTTGGCATGGTCTTACATG
94817388 ATATCCTTAT
Statistics
Matches: 90, Mismatches: 5, Indels: 14
0.83 0.05 0.13
Matches are distributed among these distances:
52 3 0.03
53 8 0.09
54 38 0.42
55 40 0.44
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTGCCTTATAGAACTCATCAATGCCATGACTTGGCATGGTCTTACATGGATTT
Found at i:94817383 original size:54 final size:54
Alignment explanation
Indices: 94817229--94817395 Score: 209
Period size: 54 Copynumber: 3.1 Consensus size: 54
94817219 TTGTGTCGTA
94817229 TCCTTGCCTTAT-GAACTCA-CTAATGCCATGACTTGGCATGGTCTTACATGGGACTT
1 TCCTTGCCTTATAGAACTCATC-AATGCCATGACTTGGCATGGTCTTACAT--GA-TT
* *
94817285 T--TT-CCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATT
1 TCCTTGCCTTATAG-AACTCATCAATGCCATGACTTGGCATGGTCTTACATGATT
* * *
94817337 TCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATA
1 TCCTTGCCTTATAGAACTCATCAATGCCATGACTTGGCATGGTCTTACATGATT
94817391 TCCTT
1 TCCTT
94817396 ATCTTACCAA
Statistics
Matches: 99, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
52 3 0.03
53 8 0.08
54 46 0.46
55 40 0.40
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (54 bp):
TCCTTGCCTTATAGAACTCATCAATGCCATGACTTGGCATGGTCTTACATGATT
Found at i:94817433 original size:47 final size:47
Alignment explanation
Indices: 94817378--94817489 Score: 197
Period size: 47 Copynumber: 2.4 Consensus size: 47
94817368 CCTTGGCATG
*
94817378 GTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATC
1 GTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATC
* *
94817425 GTCTTACATGGTATCCTTTTCTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATC
94817472 GTCTTACATGGTATCCTT
1 GTCTTACATGGTATCCTT
94817490 GTCATATGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.37
Consensus pattern (47 bp):
GTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATC
Found at i:94817504 original size:33 final size:33
Alignment explanation
Indices: 94817465--94817528 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
94817455 GCCATGTTCC
94817465 AAACATGGTCTTACATGGTATCCTTGTCATATG
1 AAACATGGTCTTACATGGTATCCTTGTCATATG
94817498 AAACATGGTCTTACATGGTATCCTTGTCATA
1 AAACATGGTCTTACATGGTATCCTTGTCATA
94817529 GTGCCAATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (33 bp):
AAACATGGTCTTACATGGTATCCTTGTCATATG
Found at i:94820663 original size:43 final size:43
Alignment explanation
Indices: 94820601--94820795 Score: 300
Period size: 43 Copynumber: 4.5 Consensus size: 43
94820591 CATTATAGCA
* * * * *
94820601 TGCTAGGCTCAAAGACCCGAATACACATCACCGGTACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCC
*
94820644 TGCTAGGCACGAAGGCCCGAATACACATCACCGACACAAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCC
94820687 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCC
* * *
94820730 TACTAGGCACGAAGGCCCGAATACACATCACCAGCACAAAGCA
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCC
*
94820773 TGTTAGGCACGAAGGCCCGAATA
1 TGCTAGGCACGAAGGCCCGAATA
94820796 AAATACTAGC
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 140 1.00
ACGTcount: A:0.34, C:0.32, G:0.22, T:0.11
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCC
Found at i:94828399 original size:49 final size:49
Alignment explanation
Indices: 94828343--94828692 Score: 535
Period size: 49 Copynumber: 7.4 Consensus size: 49
94828333 TACATATATG
* * * *
94828343 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
94828392 TGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
94828441 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
94828484 TGT-AT----CCTAATGGCCGATGTGGTGAAT-TGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
94828527 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGCATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
94828576 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
94828625 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
94828674 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
94828693 TAATGTAAAA
Statistics
Matches: 281, Mismatches: 8, Indels: 24
0.90 0.03 0.08
Matches are distributed among these distances:
37 5 0.02
38 22 0.08
39 1 0.00
41 2 0.01
42 2 0.01
43 10 0.04
44 2 0.01
45 2 0.01
47 1 0.00
48 22 0.08
49 212 0.75
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:94828524 original size:37 final size:38
Alignment explanation
Indices: 94828451--94828525 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
94828441 TGTGATGAGG
94828451 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
1 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
94828489 CCTAATGGCCGATGTGGTGAAT-TGAAAGTGTATGTAT
1 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
94828526 ATGTGATGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 15 0.41
38 22 0.59
ACGTcount: A:0.27, C:0.11, G:0.31, T:0.32
Consensus pattern (38 bp):
CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
Found at i:94828850 original size:37 final size:37
Alignment explanation
Indices: 94828800--94828877 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
94828790 TGTTCCGGTG
94828800 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
*
94828837 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
94828874 AGAC
1 AGAC
94828878 TTCTTTTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:94835126 original size:30 final size:30
Alignment explanation
Indices: 94835090--94835151 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
94835080 TCAGTTCAAT
*
94835090 ATACTTACTACCACAGTTTACAATTACATC
1 ATACTTACTACAACAGTTTACAATTACATC
*
94835120 ATACTTACTACAATAGTTTACAATTACATC
1 ATACTTACTACAACAGTTTACAATTACATC
94835150 AT
1 AT
94835152 GCAGGGCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (30 bp):
ATACTTACTACAACAGTTTACAATTACATC
Found at i:94837430 original size:15 final size:15
Alignment explanation
Indices: 94837410--94837444 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
94837400 GGCCGTGTCT
94837410 CTACCCGTGTGTTTA
1 CTACCCGTGTGTTTA
94837425 CTACCCGTGTGTTTA
1 CTACCCGTGTGTTTA
*
94837440 TTACC
1 CTACC
94837445 ATGCATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.29, G:0.17, T:0.40
Consensus pattern (15 bp):
CTACCCGTGTGTTTA
Found at i:94839647 original size:29 final size:28
Alignment explanation
Indices: 94839613--94839715 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
94839603 TACTCAATCA
*
94839613 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
94839642 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
94839671 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
94839700 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
94839716 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:94841412 original size:30 final size:29
Alignment explanation
Indices: 94841365--94841425 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
94841355 GCCTCAAATA
*
94841365 GCCAAAGCTAGTTAAATCGCAAACTTAGT
1 GCCAAAGCTAGTTAAATCGCAAACTCAGT
*
94841394 GCCAAAGCTAGTTTAAATCGCACACTCAGT
1 GCCAAAGCTAG-TTAAATCGCAAACTCAGT
94841424 GC
1 GC
94841426 TAAAACTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (29 bp):
GCCAAAGCTAGTTAAATCGCAAACTCAGT
Found at i:94848607 original size:30 final size:29
Alignment explanation
Indices: 94848564--94848624 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
94848554 CAAATAGCTG
*
94848564 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
*
94848593 AAGCTAGTTTAAATCACACATTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
94848623 AA
1 AA
94848625 ACTTCTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:94856404 original size:29 final size:28
Alignment explanation
Indices: 94856372--94856441 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
94856362 GAAAGTTAAT
*
94856372 TGGGCCTAGTGGGCCATAAGAATATGAAC
1 TGGGCCTAGTGGGCCATAAGAATAAG-AC
** *
94856401 TGGG-CTAGATGGGCCATTTGAATAAGAT
1 TGGGCCTAG-TGGGCCATAAGAATAAGAC
94856429 TGGGCCTAGTGGG
1 TGGGCCTAGTGGG
94856442 TCACATGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 13 0.37
29 22 0.63
ACGTcount: A:0.26, C:0.14, G:0.36, T:0.24
Consensus pattern (28 bp):
TGGGCCTAGTGGGCCATAAGAATAAGAC
Found at i:94857477 original size:17 final size:17
Alignment explanation
Indices: 94857446--94857479 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
94857436 TTTTAAGAAG
*
94857446 GGTTTTCAATGAAAAAC
1 GGTTTTCAATAAAAAAC
*
94857463 GGTTTTCACTAAAAAAC
1 GGTTTTCAATAAAAAAC
94857480 TTCAGTGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (17 bp):
GGTTTTCAATAAAAAAC
Found at i:94860831 original size:29 final size:30
Alignment explanation
Indices: 94860762--94860831 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
94860752 TATGATTTGA
* * *
94860762 GCCTA-ATAGGCTATATGAAAGTGAATTGG
1 GCCTAGATAGGCCATATGAAAATGAACTGG
*
94860791 GCCTAG-TGGGCCATATGAAAATGAACTGG
1 GCCTAGATAGGCCATATGAAAATGAACTGG
94860820 G-CTAGATAGGCC
1 GCCTAGATAGGCC
94860832 TAGTGGGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (30 bp):
GCCTAGATAGGCCATATGAAAATGAACTGG
Found at i:94861913 original size:17 final size:18
Alignment explanation
Indices: 94861878--94861914 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
94861868 TATTTTAAGA
94861878 ACGGTTTTCAATGAAAAC
1 ACGGTTTTCAATGAAAAC
*
94861896 ACGGTTTTCACT-AAAAC
1 ACGGTTTTCAATGAAAAC
94861913 AC
1 AC
94861915 TTCAATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (18 bp):
ACGGTTTTCAATGAAAAC
Found at i:94864980 original size:19 final size:18
Alignment explanation
Indices: 94864956--94864992 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
94864946 AGGATTGGCC
94864956 AAATGGGCTGGAATGGGCT
1 AAATGGGCTGG-ATGGGCT
*
94864975 AAATGGGCTTGATGGGCT
1 AAATGGGCTGGATGGGCT
94864993 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.11, G:0.41, T:0.24
Consensus pattern (18 bp):
AAATGGGCTGGATGGGCT
Found at i:94865129 original size:29 final size:29
Alignment explanation
Indices: 94865060--94865171 Score: 115
Period size: 29 Copynumber: 3.9 Consensus size: 29
94865050 GTGAGCATGA
* * *
94865060 ATAT-AATATGATTTGGGCCTAATAGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
94865088 ATATGAA-AGTGAATTGGGCCTAGTGGGCC
1 ATATGAATA-TGAATTGGGCCTAGTGGGCC
* *
94865117 ATAAGAATATGAACTGGG-CTAGATGGGCC
1 ATATGAATATGAATTGGGCCTAG-TGGGCC
* *
94865146 ATTTGAATAAG-ATTGGGCCTAGTGGG
1 ATATGAATATGAATTGGGCCTAGTGGG
94865172 TCACATGCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
28 18 0.26
29 51 0.73
30 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAGTGGGCC
Found at i:94867410 original size:68 final size:67
Alignment explanation
Indices: 94867338--94867487 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
94867328 CATCATGTGT
* * * *
94867338 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
94867400 ATGTAG
62 ATGTAG
** * *
94867406 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
94867471 AG
66 AG
94867473 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
94867488 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:94867443 original size:64 final size:64
Alignment explanation
Indices: 94867362--94867545 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
94867352 AGACATTATG
* *
94867362 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
94867426 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
94867491 AA
63 AA
* * * *
94867493 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
94867546 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:94873612 original size:12 final size:12
Alignment explanation
Indices: 94873595--94873621 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
94873585 AGAATATGGG
94873595 GTTTTAAATTAT
1 GTTTTAAATTAT
94873607 GTTTTAAATTAT
1 GTTTTAAATTAT
94873619 GTT
1 GTT
94873622 AGACAACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (12 bp):
GTTTTAAATTAT
Found at i:94874327 original size:46 final size:45
Alignment explanation
Indices: 94874277--94874448 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
94874267 TGGTTGAGCA
94874277 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
94874323 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
94874369 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
94874415 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
94874449 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:94874431 original size:92 final size:92
Alignment explanation
Indices: 94874274--94874443 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
94874264 GGATGGTTGA
* *
94874274 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
94874339 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
94874366 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
94874431 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
94874444 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:94879423 original size:37 final size:37
Alignment explanation
Indices: 94879369--94879439 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
94879359 GCTCAGACGA
*
94879369 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGAAGTCATCGGGTCTCACCCGGACAT
*
94879406 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGAAGTCATCGGGTCTCACCCGGA
94879440 ATATATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (37 bp):
AATCTCCACACGAAGTCATCGGGTCTCACCCGGACAT
Found at i:94879548 original size:48 final size:48
Alignment explanation
Indices: 94879484--94879873 Score: 591
Period size: 48 Copynumber: 8.0 Consensus size: 48
94879474 TGTTACTACA
* * * *
94879484 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
94879532 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATA--TCACACATATAT
94879582 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
94879630 TTCACATTAGCCATTCAGCTTTACGACATATACATATCTCATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATA--TCACACATATAT
* *
94879680 TTCATATTAGCCATTTGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
94879728 TTCACATTAGCCATTCAGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
94879776 TTCACATTCGCCATTAGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
94879824 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
94879872 TT
1 TT
94879874 ATTTATCTTG
Statistics
Matches: 310, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
48 225 0.73
50 85 0.27
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:94879653 original size:98 final size:98
Alignment explanation
Indices: 94879484--94879871 Score: 609
Period size: 98 Copynumber: 4.0 Consensus size: 98
94879474 TGTTACTACA
* * * * * *
94879484 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCA
* *
94879549 GCTTTACGACATATACATATCTCATATATATAT
66 GCTTTACCACATATACATATCTCACATATATAT
94879582 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCA
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCA
* *
94879647 GCTTTACGACATATACATATCTCATATATATAT
66 GCTTTACCACATATACATATCTCACATATATAT
* *
94879680 TTCATATTAGCCATTTGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCA
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCA
*
94879745 GCTTTACCACATATACATA--TCACACATATAT
66 GCTTTACCACATATACATATCTCACATATATAT
* * *
94879776 TTCACATTCGCCATTAGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCA
*
94879841 GCTTTACCACATATACATATCACACATATAT
66 GCTTTACCACATATACATATCTCACATATAT
94879872 TTATTTATCT
Statistics
Matches: 271, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
96 90 0.33
98 181 0.67
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.36
Consensus pattern (98 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCA
GCTTTACCACATATACATATCTCACATATATAT
Found at i:94879749 original size:146 final size:145
Alignment explanation
Indices: 94879484--94879873 Score: 597
Period size: 146 Copynumber: 2.7 Consensus size: 145
94879474 TGTTACTACA
* * * *
94879484 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTC-ATACATATTTCACATTCGCCATTC
1 TTCACATTAGCCATTCAGCTTTACCACATATACATATCTCAATATATATTTCACATTAGCCATTC
* * * *
94879548 GGCTTTACGACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATAT
66 GGCTTTACCACATATACATA--TCACACATATATTTCACATTAGCCATTCAGCTTTACCACATAT
94879613 ACATATCACACATATAT
129 ACATATCACACATATAT
* *
94879630 TTCACATTAGCCATTCAGCTTTACGACATATACATATCTCATATATATATTTCATATTAGCCATT
1 TTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA-ATATATATTTCACATTAGCCATT
*
94879695 TGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCAGCTTTACCACATATA
65 CGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCAGCTTTACCACATATA
94879760 CATATCACACATATAT
130 CATATCACACATATAT
* * *
94879776 TTCACATTCGCCATT-AGGCTTTACCACATATACATATCAC-ACATATATTTCACATTAGCCATT
1 TTCACATTAGCCATTCA-GCTTTACCACATATACATATCTCAATATATATTTCACATTAGCCATT
94879839 CGGCTTTACCACATATACATATCACACATATATTT
65 CGGCTTTACCACATATACATATCACACATATATTT
94879874 ATTTATCTTG
Statistics
Matches: 224, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
144 55 0.25
145 1 0.00
146 129 0.58
148 39 0.17
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (145 bp):
TTCACATTAGCCATTCAGCTTTACCACATATACATATCTCAATATATATTTCACATTAGCCATTC
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCAGCTTTACCACATATAC
ATATCACACATATAT
Found at i:94882011 original size:19 final size:19
Alignment explanation
Indices: 94881987--94882026 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
94881977 TAAAATGCAT
94881987 ATAATATCTATCAACCATC
1 ATAATATCTATCAACCATC
94882006 ATAATATCTATCAACCATC
1 ATAATATCTATCAACCATC
94882025 AT
1 AT
94882027 TATGGTCAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATATCTATCAACCATC
Found at i:94883703 original size:40 final size:40
Alignment explanation
Indices: 94883639--94883990 Score: 623
Period size: 40 Copynumber: 8.8 Consensus size: 40
94883629 CCAGCATGAT
*
94883639 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
94883679 TGCTCTTCAGGACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
94883719 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
94883759 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
94883799 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
94883839 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
94883879 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
94883919 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
94883959 TGCTCTTCGGGACTTAGCCTGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
94883991 CTCAATTCTC
Statistics
Matches: 300, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 300 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:94885410 original size:48 final size:48
Alignment explanation
Indices: 94885339--94885727 Score: 634
Period size: 48 Copynumber: 8.0 Consensus size: 48
94885329 TGTTACAACA
* * * *
94885339 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
94885387 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATA--TCACACATATAT
94885437 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
94885485 TTCACATTAGCCATTCGGCTTTACGACATATACATATCTCATATTATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACA-TATAT
94885534 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
94885582 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
94885630 TTCACATTCGCCATTAGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
94885678 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
94885726 TT
1 TT
94885728 ATTTATCTTG
Statistics
Matches: 318, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
48 230 0.72
49 45 0.14
50 43 0.14
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:94885709 original size:193 final size:194
Alignment explanation
Indices: 94885339--94885715 Score: 639
Period size: 193 Copynumber: 1.9 Consensus size: 194
94885329 TGTTACAACA
* * * *
94885339 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATATTTCACATTAGCCATTCG
* * * *
94885404 GCTTTACGACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATA
66 GCTTTACCACATATACATA-CTCACACATATATTTCACATTAGCCATTAGGCTTTACCACATATA
*
94885469 CATATCACACATATATTTCACATTAGCCATTCGGCTTTACGACATATACATATCTCATATTATAT
130 CATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATTATAT
*
94885534 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATATTTCACATTAGCCATTCG
*
94885599 GCTTTACCACATATACATA-TCACACATATATTTCACATTCGCCATTAGGCTTTACCACATATAC
66 GCTTTACCACATATACATACTCACACATATATTTCACATTAGCCATTAGGCTTTACCACATATAC
94885663 ATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
131 ATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
94885716 ACACATATAT
Statistics
Matches: 171, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
193 93 0.54
195 78 0.46
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (194 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATATTTCACATTAGCCATTCG
GCTTTACCACATATACATACTCACACATATATTTCACATTAGCCATTAGGCTTTACCACATATAC
ATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATTATAT
Found at i:94887020 original size:2 final size:2
Alignment explanation
Indices: 94887013--94887042 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
94887003 ACATTCGGCA
94887013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94887043 GTTAATGACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94890490 original size:46 final size:46
Alignment explanation
Indices: 94890438--94890610 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
94890428 TGGTTAAGCA
94890438 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
94890484 TTCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
94890529 CATCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
94890577 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
94890611 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 26 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:94890594 original size:93 final size:93
Alignment explanation
Indices: 94890435--94890605 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
94890425 GGATGGTTAA
* **
94890435 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
94890500 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
94890528 GCATCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
94890593 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
94890606 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:94892063 original size:64 final size:64
Alignment explanation
Indices: 94891982--94892165 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 64
94891972 AGACATTATG
* * *
94891982 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAAACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAAACAAGAGAGCTACGAGATAA
* * * * * *
94892046 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAAACAAGAGAGCTACGAGAT
94892111 AA
63 AA
* * * **
94892113 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGTGTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAAACAAGAGAGC
94892166 CGAACTATAT
Statistics
Matches: 97, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
63 19 0.20
64 25 0.26
66 21 0.22
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAAACAAGAGAGCTACGAGATAA
Found at i:94898371 original size:20 final size:20
Alignment explanation
Indices: 94898343--94898380 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
94898333 GATTAGGAGT
94898343 TTTCAAAATCATTCTGACGC
1 TTTCAAAATCATTCTGACGC
* *
94898363 TTTCGAAATCGTTCTGAC
1 TTTCAAAATCATTCTGAC
94898381 TATGTCCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (20 bp):
TTTCAAAATCATTCTGACGC
Found at i:94899105 original size:90 final size:92
Alignment explanation
Indices: 94899005--94899211 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 92
94898995 TATATGTGCC
* *
94899005 GATGCATGTCCCAGACATGTCTTACACTAG-CACATCTC-ATAGCTGATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTAGCCACATCTCAAT-GCCGATGCATGTACCAGACATG
* *
94899068 TCTTACACTGGC-TTACA-ACTCAAGGCT
65 TCTTACACTAGCATTACATAAT-AAGGCT
* *
94899095 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCATGTACCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTAGC-CACATCTCAATGCCGATGCATGTACCAGACATG
* **
94899160 TCTTACACTAGCATTTCATAATGTGGCT
65 TCTTACACTAGCATTACATAATAAGGCT
94899188 GATGCATGTCCCAGACATGTCTTA
1 GATGCATGTCCCAGACATGTCTTA
94899212 TGCTGGCTCA
Statistics
Matches: 103, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
90 30 0.29
92 37 0.36
93 34 0.33
94 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCACATCTCAATGCCGATGCATGTACCAGACATGT
CTTACACTAGCATTACATAATAAGGCT
Found at i:94899113 original size:46 final size:46
Alignment explanation
Indices: 94899005--94899211 Score: 244
Period size: 46 Copynumber: 4.5 Consensus size: 46
94898995 TATATGTGCC
*
94899005 GATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTCATA-GCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACAACTCA-AGGCT
*
94899049 GATGCATGTCCCAGACATGTCTTACACTGGCTTACAACTCAAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACAACTCAAGGCT
** * *
94899095 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-TACAACTCAAGGCT
* * * **
94899141 GATGCATGTACCAGACATGTCTTACACTAGCATTTCATAAT-GTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TTACA-ACTCAAGGCT
94899188 GATGCATGTCCCAGACATGTCTTA
1 GATGCATGTCCCAGACATGTCTTA
94899212 TGCTGGCTCA
Statistics
Matches: 140, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
44 30 0.21
45 1 0.01
46 80 0.57
47 28 0.20
48 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACAACTCAAGGCT
Found at i:94902437 original size:27 final size:27
Alignment explanation
Indices: 94901843--94902427 Score: 621
Period size: 27 Copynumber: 21.6 Consensus size: 27
94901833 AATGTACTCC
*
94901843 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
94901870 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
** * *
94901897 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
94901924 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
** *
94901951 CGATTTGTAAAATTA-TCG-TTTACCCCCT
1 CGATTTACAGAATTACT-GTTTTA--CCCT
*
94901979 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
94902006 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
94902033 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
94902060 C-AGTTTACAAAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
94902087 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* * *
94902114 CGATTTATAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
** * * * *
94902141 CGATTTGTAAAATTGCCGCTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
94902168 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
94902195 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
* * *
94902222 CAATTTATAAAATTACTGTTTTACCC-
1 CGATTTACAGAATTACTGTTTTACCCT
* * ** *
94902248 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACTGTTTTACCCT
*
94902276 CGATTTACATAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
94902303 CGATTTACAGAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* * * **
94902330 CAATTTACAGTATTTCCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
94902357 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
94902384 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
94902411 CGATTTACAAAATTACT
1 CGATTTACAGAATTACT
94902428 AAAATACCCT
Statistics
Matches: 476, Mismatches: 65, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.02
27 440 0.92
28 22 0.05
29 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:94903694 original size:25 final size:25
Alignment explanation
Indices: 94903665--94903712 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94903655 TTATAATATG
* * *
94903665 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
94903690 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
94903713 GTTTATATAT
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:94903763 original size:9 final size:9
Alignment explanation
Indices: 94903751--94903827 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
94903741 TTTGATAAAC
94903751 ATGATATGT
1 ATGATATGT
*
94903760 ATGATATGCAC
1 ATGATATG--T
94903771 ATGATATGT
1 ATGATATGT
*
94903780 ATGATATGCAC
1 ATGATATG--T
*
94903791 ATGACATGT
1 ATGATATGT
*
94903800 ATGATATGCAC
1 ATGATATG--T
94903811 ATGATATGT
1 ATGATATGT
94903820 ATGATATG
1 ATGATATG
94903828 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:94903776 original size:11 final size:11
Alignment explanation
Indices: 94903760--94903831 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
94903750 CATGATATGT
94903760 ATGATATGCAC
1 ATGATATGCAC
*
94903771 ATGATATG--T
1 ATGATATGCAC
94903780 ATGATATGCAC
1 ATGATATGCAC
* *
94903791 ATGACATG--T
1 ATGATATGCAC
94903800 ATGATATGCAC
1 ATGATATGCAC
*
94903811 ATGATATG--T
1 ATGATATGCAC
94903820 ATGATATGCAC
1 ATGATATGCAC
94903831 A
1 A
94903832 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:94903839 original size:20 final size:20
Alignment explanation
Indices: 94903749--94903831 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
94903739 ATTTTGATAA
94903749 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
94903769 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
94903789 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
94903809 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
94903829 ACA
1 ACA
94903832 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:94903942 original size:24 final size:23
Alignment explanation
Indices: 94903886--94904052 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
94903876 GAGGAAGTGA
94903886 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
94903909 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
94903932 CCAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
94903956 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
94903980 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
94904003 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
94904028 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
94904052 A
1 A
94904053 TGATAAAGCA
Statistics
Matches: 129, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
23 43 0.33
24 75 0.58
25 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:94903985 original size:47 final size:46
Alignment explanation
Indices: 94903887--94904052 Score: 226
Period size: 47 Copynumber: 3.5 Consensus size: 46
94903877 AGGAAGTGAA
* *
94903887 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCC
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
*
94903934 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
94903981 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
94904028 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
94904053 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
47 66 0.61
48 31 0.29
49 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:94904002 original size:71 final size:71
Alignment explanation
Indices: 94903886--94904051 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
94903876 GAGGAAGTGA
* **
94903886 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCCAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
94903951 GTTATC
66 GTTATC
*
94903957 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
94904022 GTTATT
66 GTTATC
*
94904028 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
94904052 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 76 0.87
72 11 0.13
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:94904280 original size:31 final size:31
Alignment explanation
Indices: 94904245--94904308 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
94904235 CGTTTACAGT
*
94904245 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
94904276 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
94904307 AA
1 AA
94904309 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:94907091 original size:31 final size:31
Alignment explanation
Indices: 94907053--94907116 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
94907043 CCTTTTCATA
94907053 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
94907084 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
94907115 TT
1 TT
94907117 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Done.