Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 331 of 352
Found at i:106658951 original size:24 final size:24
Alignment explanation
Indices: 106658924--106659021 Score: 70
Period size: 24 Copynumber: 4.0 Consensus size: 24
106658914 TTGCAGGTTT
* *
106658924 AATTTTTTTAATTAAACTTAAATA
1 AATTTATTCAATTAAACTTAAATA
* ** *
106658948 AATTTATTCAATTCAAATTTTAGGTTT
1 AATTTATTCAATT-AAA-CTTA-AATA
* * *
106658975 AATTTTTTTAATTTAACTTAAATA
1 AATTTATTCAATTAAACTTAAATA
* *
106658999 AATTTATTCAATTCAATTTAAAT
1 AATTTATTCAATTAAACTTAAAT
106659022 TTTATTTTAC
Statistics
Matches: 54, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
24 31 0.57
25 6 0.11
26 5 0.09
27 12 0.22
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (24 bp):
AATTTATTCAATTAAACTTAAATA
Found at i:106659025 original size:56 final size:51
Alignment explanation
Indices: 106658918--106659014 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
106658908 TAAATGTTGC
106658918 AGGTTTAATTTTTTTAATTAAACTTAAATAAATTTATTCAATTCAAATTTT
1 AGGTTTAATTTTTTTAATTAAACTTAAATAAATTTATTCAATTCAAATTTT
*
106658969 AGGTTTAATTTTTTTAATTTAACTTAAATAAATTTATTCAATTCAA
1 AGGTTTAATTTTTTTAATTAAACTTAAATAAATTTATTCAATTCAA
106659015 TTTAAATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (51 bp):
AGGTTTAATTTTTTTAATTAAACTTAAATAAATTTATTCAATTCAAATTTT
Found at i:106659573 original size:24 final size:24
Alignment explanation
Indices: 106659541--106659592 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
106659531 ACCCAATCTT
106659541 TCAACCCATTTTT-TTCCATTCATA
1 TCAACCCATTTTTGTT-CATTCATA
*
106659565 TCAACCCATTTTTGTTCTTTCATA
1 TCAACCCATTTTTGTTCATTCATA
106659589 TCAA
1 TCAA
106659593 GTTAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.46
Consensus pattern (24 bp):
TCAACCCATTTTTGTTCATTCATA
Found at i:106661672 original size:21 final size:20
Alignment explanation
Indices: 106661621--106661663 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
106661611 TGCCACGTGT
106661621 TTTTTAAATATATTTATAGTA
1 TTTTTAAATATATTTATAG-A
106661642 TTTTTAAATATATTTATA-A
1 TTTTTAAATATATTTATAGA
106661661 TTT
1 TTT
106661664 AGTTAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.18
21 18 0.82
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTTAAATATATTTATAGA
Found at i:106671009 original size:27 final size:27
Alignment explanation
Indices: 106670951--106671012 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
106670941 GAATTTCAAT
* * *
106670951 AAAAAAAGAAAGTGAGAATTATATGAA
1 AAAAAAAGAAAGTGAAAATCAAATGAA
* *
106670978 AAAAAGAGAAAGTGAAAATCAAATTAA
1 AAAAAAAGAAAGTGAAAATCAAATGAA
106671005 TAAAAAAA
1 -AAAAAAA
106671013 AAACTATTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.16
Consensus pattern (27 bp):
AAAAAAAGAAAGTGAAAATCAAATGAA
Found at i:106672796 original size:83 final size:83
Alignment explanation
Indices: 106672660--106672907 Score: 489
Period size: 83 Copynumber: 3.0 Consensus size: 83
106672650 TTGTTTAATA
106672660 AAAGTTGTGGATGATGCACAGAGAGCG-TTAACATCACTCCACTTACCAGCCGACATGCATGTAG
1 AAAGTTGTGGATGATGCACAGAGAGCGTTTAACATCACTCCACTTACCAGCCGACATGCATGTAG
106672724 GTCCAACCCACAAGATAT
66 GTCCAACCCACAAGATAT
106672742 AAAGTTGTGGATGATGCACAGAGAGCGTTTAACATCACTCCACTTACCAGCCGACATGCATGTAG
1 AAAGTTGTGGATGATGCACAGAGAGCGTTTAACATCACTCCACTTACCAGCCGACATGCATGTAG
106672807 GTCCAACCCACAAGATAT
66 GTCCAACCCACAAGATAT
106672825 AAAGTTGTGGATGATGCACAGAGAGCGTTTAACATCACTCCACTTACCAGCCGACATGCATGTAG
1 AAAGTTGTGGATGATGCACAGAGAGCGTTTAACATCACTCCACTTACCAGCCGACATGCATGTAG
106672890 GTCCAACCCACAAGATAT
66 GTCCAACCCACAAGATAT
106672908 GATCCGAATC
Statistics
Matches: 165, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 27 0.16
83 138 0.84
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (83 bp):
AAAGTTGTGGATGATGCACAGAGAGCGTTTAACATCACTCCACTTACCAGCCGACATGCATGTAG
GTCCAACCCACAAGATAT
Found at i:106689514 original size:14 final size:14
Alignment explanation
Indices: 106689495--106689528 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
106689485 ACTTGCACCG
* *
106689495 CTTGCATATTACAA
1 CTTGCAAATCACAA
106689509 CTTGCAAATCACAA
1 CTTGCAAATCACAA
106689523 CTTGCA
1 CTTGCA
106689529 CAATTATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.29
Consensus pattern (14 bp):
CTTGCAAATCACAA
Found at i:106696018 original size:131 final size:132
Alignment explanation
Indices: 106695757--106696018 Score: 418
Period size: 131 Copynumber: 2.0 Consensus size: 132
106695747 TTTGGCAGTT
* *
106695757 TTTCAATAAAAAAAGGGGGGAGATAATTGGATGCATACAGGGGGAGTGGAGTGTTTTAGTTTATT
1 TTTCAATAAAAAAA-GGGGGAGATAATAGGATGCATACAGGAGGAGTGGAGTGTTTTAGTTTATT
* * * *
106695822 TGTTTGCTGAAAGCTGATTATATGTATGTTTCTATTGAGAAATTTAAACTTGTGTTGTCGGTTCT
65 TGTTTGATGAAAGCCGATTATATGTATGTTTCTATTGAGAAATTTAAACTTGTGCTGTCGATTCT
106695887 GGA
130 GGA
* *
106695890 TTTCAATTAAAAAA-GGGGAGATAATAGGATGCATACAGGAGGAGTGGAGTGTTTTGGTTTATTT
1 TTTCAATAAAAAAAGGGGGAGATAATAGGATGCATACAGGAGGAGTGGAGTGTTTTAGTTTATTT
* *
106695954 GTTTGATGAAAGCCGATTATATGTATGTTTCTATTGAGAAATTTGAACTTGTGCTGTTGATTCTG
66 GTTTGATGAAAGCCGATTATATGTATGTTTCTATTGAGAAATTTAAACTTGTGCTGTCGATTCTG
106696019 AATGGTTATT
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
131 106 0.89
133 13 0.11
ACGTcount: A:0.28, C:0.07, G:0.27, T:0.38
Consensus pattern (132 bp):
TTTCAATAAAAAAAGGGGGAGATAATAGGATGCATACAGGAGGAGTGGAGTGTTTTAGTTTATTT
GTTTGATGAAAGCCGATTATATGTATGTTTCTATTGAGAAATTTAAACTTGTGCTGTCGATTCTG
GA
Found at i:106698686 original size:27 final size:27
Alignment explanation
Indices: 106698636--106698687 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
106698626 AATTTAATAT
*
106698636 TATTTATAATTTTTTTATCAATTTACC
1 TATTTATAATTTTTTTAACAATTTACC
*
106698663 TATTTATTCATTTTTTTAAC-ATTTA
1 TATTTA-TAATTTTTTTAACAATTTA
106698688 ATTTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTTATAATTTTTTTAACAATTTACC
Found at i:106709942 original size:12 final size:12
Alignment explanation
Indices: 106709925--106709952 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
106709915 AGTAAAACTG
106709925 GTTTTTAGCGGC
1 GTTTTTAGCGGC
106709937 GTTTTTAGCGGC
1 GTTTTTAGCGGC
106709949 GTTT
1 GTTT
106709953 GAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:106710133 original size:40 final size:39
Alignment explanation
Indices: 106710071--106710222 Score: 152
Period size: 40 Copynumber: 3.8 Consensus size: 39
106710061 TTTGGTGGCT
*
106710071 TTAGCGGCGCTTTCTAAAAA-CGCCGCTAAAGATCGAGTA
1 TTAGCGGCGTTTTCTAAAAAGCGCCGCTAAAGATC-AGTA
* *
106710110 TTAGCGGCGCTTTTCTAAAAA-CGCCGCTATATG-TACACCT-
1 TTAGCGGCG-TTTTCTAAAAAGCGCCGCTA-AAGAT-CA-GTA
*
106710150 TTAGCGGCGTTTT-TAAAAAAGCGCCGCTAAAGATCAAGCA
1 TTAGCGGCGTTTTCT-AAAAAGCGCCGCTAAAGATC-AGTA
* *
106710190 TTAGTGGTGTTTTCTAAAAAGCGCCGCTAAAGA
1 TTAGCGGCGTTTTCTAAAAAGCGCCGCTAAAGA
106710223 ATTTTGTAAC
Statistics
Matches: 95, Mismatches: 8, Indels: 19
0.78 0.07 0.16
Matches are distributed among these distances:
38 1 0.01
39 21 0.22
40 68 0.72
41 5 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (39 bp):
TTAGCGGCGTTTTCTAAAAAGCGCCGCTAAAGATCAGTA
Found at i:106710203 original size:79 final size:80
Alignment explanation
Indices: 106710069--106710218 Score: 216
Period size: 80 Copynumber: 1.9 Consensus size: 80
106710059 CCTTTGGTGG
* *
106710069 CTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTCTAAAAA-CG
1 CTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTTCTAAAAAGCG
106710133 CCGCTATATGTACAC
66 CCGCTATATGTACAC
* * *
106710148 CTTTAGCGGCG-TTTTTAAAAAAGCGCCGCTAAAGATCAAGCATTAGTGGTG-TTTTCTAAAAAG
1 CTTTAGCGGCGCTTTCT-AAAAA-CGCCGCTAAAGATCAAGCATTAGCGGCGCTTTTCTAAAAAG
106710211 CGCCGCTA
64 CGCCGCTA
106710219 AAGAATTTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
78 4 0.06
79 27 0.43
80 32 0.51
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (80 bp):
CTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTTCTAAAAAGCG
CCGCTATATGTACAC
Found at i:106710332 original size:40 final size:40
Alignment explanation
Indices: 106710264--106710371 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
106710254 ATTTTAGTGG
* *
106710264 CTTTAGCGGTGCTTTTTTAAGAAACGCCGCTATAAG-TAC-AC
1 CTTTAGCGGCGCTTTTTGAA-AAACGCCGCTA-AAGCT-CGAC
* *
106710305 CTTTAGCGGCGCTTTTTGAAAAACGCCGCTAATGCTCGAT
1 CTTTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCTCGAC
*
106710345 CTTTAGCGGCGTTTTTTGAAAAACGCC
1 CTTTAGCGGCGCTTTTTGAAAAACGCC
106710372 ACAAAAATAG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.05
40 39 0.65
41 18 0.30
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCTCGAC
Found at i:106710653 original size:28 final size:28
Alignment explanation
Indices: 106710585--106710653 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
106710575 ACTATTGTAA
* * * *
106710585 GGTTTATGTATTATGGGTTTAGGGTTAT
1 GGTTTATGTTTTATGGGTTAAAGGTTAG
*
106710613 GGTTTATGGTTTATGGGTTAAAGGTTAG
1 GGTTTATGTTTTATGGGTTAAAGGTTAG
*
106710641 GGTTTAAGTTTTA
1 GGTTTATGTTTTA
106710654 GTGTATTGGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (28 bp):
GGTTTATGTTTTATGGGTTAAAGGTTAG
Found at i:106710684 original size:36 final size:36
Alignment explanation
Indices: 106710600--106710718 Score: 104
Period size: 36 Copynumber: 3.4 Consensus size: 36
106710590 ATGTATTATG
* *
106710600 GGTTTA-GGGTT-ATGGTTTATGGT-TTATGGGTTAAA
1 GGTTTAGGGGTTAAGGGTTTAT-GTATTA-GGGTTTAA
* * *
106710635 GG-TTAGGGTTTAA-GTTTTAGTGTATTGGGGTTTAA
1 GGTTTAGGGGTTAAGGGTTTA-TGTATTAGGGTTTAA
* **
106710670 GGTTTAGGGGTTAAGGGTTTATGTTTTATTGTTTAA
1 GGTTTAGGGGTTAAGGGTTTATGTATTAGGGTTTAA
106710706 GGTTTAGGGGTTA
1 GGTTTAGGGGTTA
106710719 GGAGCTAGGA
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
34 3 0.04
35 22 0.32
36 38 0.56
37 5 0.07
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.46
Consensus pattern (36 bp):
GGTTTAGGGGTTAAGGGTTTATGTATTAGGGTTTAA
Found at i:106710740 original size:7 final size:7
Alignment explanation
Indices: 106710599--106710720 Score: 59
Period size: 7 Copynumber: 17.3 Consensus size: 7
106710589 TATGTATTAT
106710599 GGGTTTA
1 GGGTTTA
106710606 GGG-TTA
1 GGGTTTA
*
106710612 TGGTTTA
1 GGGTTTA
*
106710619 TGGTTTA
1 GGGTTTA
*
106710626 TGGGTTAA
1 -GGGTTTA
*
106710634 AGG-TTA
1 GGGTTTA
106710640 GGGTTTA
1 GGGTTTA
* *
106710647 AGTTTTA
1 GGGTTTA
* *
106710654 GTGTATTG
1 GGGT-TTA
106710662 GGGTTTA
1 GGGTTTA
*
106710669 AGGTTTA
1 GGGTTTA
*
106710676 GGGGTTAA
1 -GGGTTTA
106710684 GGGTTTA
1 GGGTTTA
* *
106710691 TGTTTTA
1 GGGTTTA
**
106710698 TTGTTTA
1 GGGTTTA
*
106710705 AGGTTTA
1 GGGTTTA
*
106710712 GGGGTTA
1 GGGTTTA
106710719 GG
1 GG
106710721 AGCTAGGAAT
Statistics
Matches: 84, Mismatches: 26, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
6 9 0.11
7 60 0.71
8 15 0.18
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
GGGTTTA
Found at i:106711409 original size:14 final size:13
Alignment explanation
Indices: 106711360--106711411 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
106711350 CTTGATTTTT
*
106711360 TATTTATAAAAAC
1 TATTTATAAAAAA
106711373 TAATTTATAAAAAA
1 T-ATTTATAAAAAA
* *
106711387 TAGTAATAAAAAA
1 TATTTATAAAAAA
106711400 TATTTTATAAAA
1 TA-TTTATAAAA
106711412 TTATTTAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 13 0.41
14 19 0.59
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:106716672 original size:43 final size:43
Alignment explanation
Indices: 106716594--106716708 Score: 108
Period size: 43 Copynumber: 2.7 Consensus size: 43
106716584 AAATAAATTT
* * * *
106716594 TTAAAAGGTCAT-ATTTTTAGCGG-TGTTTTTAGGAAAAGTGTCG
1 TTAAAA-GTCATGATCTTTAGCGGCT-TTTGTAGGAAAAGCGCCG
*
106716637 TTAAAAGTCATGATCTTTAGCGGCTTTTGTGGGAAAAGCGCCG
1 TTAAAAGTCATGATCTTTAGCGGCTTTTGTAGGAAAAGCGCCG
* * * *
106716680 CTAAAGGTCCTGATCTGTAGCGGCGTTTT
1 TTAAAAGTCATGATCTTTAGCGGC-TTTT
106716709 TTCTAAAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 5 0.08
43 50 0.83
44 5 0.08
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (43 bp):
TTAAAAGTCATGATCTTTAGCGGCTTTTGTAGGAAAAGCGCCG
Found at i:106718291 original size:36 final size:36
Alignment explanation
Indices: 106718239--106718331 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
106718229 CCCAACTACT
* * * *
106718239 GTATACGCGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCATATACGTGAATAGTGAC
* *
106718275 GTATACGTGAATAGTACTATATATGTGAATAGTGAC
1 GTATACGTGAATAGTACCATATACGTGAATAGTGAC
*
106718311 ATATACGTGAATAGTACCATA
1 GTATACGTGAATAGTACCATA
106718332 AACGGTCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCATATACGTGAATAGTGAC
Found at i:106718331 original size:18 final size:18
Alignment explanation
Indices: 106718240--106718331 Score: 105
Period size: 18 Copynumber: 5.1 Consensus size: 18
106718230 CCAACTACTG
* * *
106718240 TATACGCGAACAGTACCG
1 TATACGTGAATAGTACCA
* *
106718258 TATACGTGAATAGTGCCG
1 TATACGTGAATAGTACCA
*
106718276 TATACGTGAATAGTACTA
1 TATACGTGAATAGTACCA
*
106718294 TATATGTGAATAGTGA-CA
1 TATACGTGAATAGT-ACCA
106718312 TATACGTGAATAGTACCA
1 TATACGTGAATAGTACCA
106718330 TA
1 TA
106718332 AACGGTCGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
17 1 0.02
18 61 0.97
19 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (18 bp):
TATACGTGAATAGTACCA
Found at i:106720573 original size:22 final size:22
Alignment explanation
Indices: 106720545--106720601 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
106720535 AACAACAATT
106720545 TTTTTTTTTATTT-CTTGTTATC
1 TTTTTTTTTATTTCCTT-TTATC
**
106720567 TTTTTTTAAATTTCCTTTTATC
1 TTTTTTTTTATTTCCTTTTATC
*
106720589 TTTTATTTTATTT
1 TTTTTTTTTATTT
106720602 TAATTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTTTTTATTTCCTTTTATC
Found at i:106722155 original size:39 final size:39
Alignment explanation
Indices: 106722112--106722195 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
106722102 CACATGTCAT
106722112 TAAAATCTAATTAAATAAAAT-TTAATAT-T-AATAATAAAA
1 TAAAATCTAATT-AA-AAAATCTTAATATATAAAT-ATAAAA
*
106722151 TAAAATCTAATTAAAAAATCTTATTATATAAATATAAAA
1 TAAAATCTAATTAAAAAATCTTAATATATAAATATAAAA
106722190 TAAAAT
1 TAAAAT
106722196 ATTCCACCCC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
37 5 0.12
38 8 0.20
39 25 0.61
40 3 0.07
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (39 bp):
TAAAATCTAATTAAAAAATCTTAATATATAAATATAAAA
Found at i:106723008 original size:23 final size:23
Alignment explanation
Indices: 106722982--106723026 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
106722972 TATATAATAA
* *
106722982 ATATATATTTTTTATTTTTAATC
1 ATATATATATTTTAATTTTAATC
*
106723005 ATATTTATATTTTAATTTTAAT
1 ATATATATATTTTAATTTTAAT
106723027 TTTAATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATC
Found at i:106723036 original size:6 final size:6
Alignment explanation
Indices: 106723008--106723038 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
106722998 TTTAATCATA
106723008 TTTATAT TTTAAT TTTAAT TTTAAT TTTAAT
1 TTTA-AT TTTAAT TTTAAT TTTAAT TTTAAT
106723039 ATAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:106723119 original size:40 final size:41
Alignment explanation
Indices: 106723047--106723133 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
106723037 ATATAATAAT
*
106723047 TTTTATTATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
* * * * *
106723088 TTTTAATATATTTTT-TATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
106723128 TTTTAA
1 TTTTAA
106723134 ATGTATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 26 0.65
41 14 0.35
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (41 bp):
TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
Found at i:106730253 original size:16 final size:15
Alignment explanation
Indices: 106730232--106730280 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 15
106730222 GATGTGAATA
*
106730232 ATAAAATATATAAAAT
1 ATAAAATAT-CAAAAT
106730248 ATAAAATATCAAAAT
1 ATAAAATATCAAAAT
106730263 ATCAAAATATCAAAAT
1 AT-AAAATATCAAAAT
106730279 AT
1 AT
106730281 TAGAATAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 7 0.23
16 24 0.77
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAAAATATCAAAAT
Found at i:106730255 original size:24 final size:25
Alignment explanation
Indices: 106730228--106730279 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
106730218 TAATGATGTG
*
106730228 AATAAT-AAAATATATAAAATAT-AA
1 AATAATCAAAATAT-CAAAATATCAA
106730252 AAT-ATCAAAATATCAAAATATCAA
1 AATAATCAAAATATCAAAATATCAA
106730276 AATA
1 AATA
106730280 TTAGAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (25 bp):
AATAATCAAAATATCAAAATATCAA
Found at i:106730263 original size:8 final size:8
Alignment explanation
Indices: 106730239--106730280 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
106730229 ATAATAAAAT
106730239 ATAT-AAA
1 ATATCAAA
106730246 ATAT-AAA
1 ATATCAAA
106730253 ATATCAAA
1 ATATCAAA
106730261 ATATCAAA
1 ATATCAAA
106730269 ATATCAAA
1 ATATCAAA
106730277 ATAT
1 ATAT
106730281 TAGAATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 11 0.32
8 23 0.68
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (8 bp):
ATATCAAA
Found at i:106730287 original size:16 final size:16
Alignment explanation
Indices: 106730228--106730287 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
106730218 TAATGATGTG
* *
106730228 AATAATAAAATATATAA
1 AATATTAAAATAT-CAA
106730245 AATA-TAAAATATCAA
1 AATATTAAAATATCAA
*
106730260 AATATCAAAATATCAA
1 AATATTAAAATATCAA
*
106730276 AATATTAGAATA
1 AATATTAAAATA
106730288 ATAATTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 6 0.16
16 28 0.74
17 4 0.11
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (16 bp):
AATATTAAAATATCAA
Found at i:106730501 original size:22 final size:24
Alignment explanation
Indices: 106730438--106730502 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
106730428 CGTGATAATA
*
106730438 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
106730463 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
106730486 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
106730503 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:106730551 original size:31 final size:31
Alignment explanation
Indices: 106730491--106730571 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
106730481 TATAGTTAAG
* * *
106730491 ATATATACATAAGATAACATGTAAAATATAT
1 ATATATAAATAATATAATATGTAAAATATAT
106730522 ATATATAAATAATATAATAT-TAAAGATATAT
1 ATATATAAATAATATAATATGTAAA-ATATAT
* *
106730553 ACATA-AAATAGTATAATAT
1 ATATATAAATAATATAATAT
106730572 ATATACATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
30 17 0.39
31 27 0.61
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.35
Consensus pattern (31 bp):
ATATATAAATAATATAATATGTAAAATATAT
Found at i:106730558 original size:25 final size:25
Alignment explanation
Indices: 106730432--106730651 Score: 115
Period size: 23 Copynumber: 9.0 Consensus size: 25
106730422 TAAATACGTG
* *
106730432 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
106730457 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
106730482 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
106730504 ATAACATGTAAAATATATATATATAAATAAT
1 ATAATAT-T---A-A-AGATATATACATAAT
*
106730535 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* *
106730560 ATAGTA-T-AATATATATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
106730583 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
106730606 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
106730628 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
106730651 A
1 A
106730652 ACAAAAAAAA
Statistics
Matches: 152, Mismatches: 26, Indels: 36
0.71 0.12 0.17
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 46 0.30
24 10 0.07
25 43 0.28
26 1 0.01
27 1 0.01
30 2 0.01
31 18 0.12
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:106730620 original size:79 final size:78
Alignment explanation
Indices: 106730463--106730620 Score: 178
Period size: 79 Copynumber: 2.0 Consensus size: 78
106730453 TAATATAGTG
*
106730463 TTAAAAATACATACATAATATAGTTAAGATATATACATAAGATAACATGTAAAATATATATATAT
1 TTAAAAATACATACATAAAATAGTTAAGATATATACATAAGATAACATGTAAAATATATATATAT
* *
106730528 AAATAATATAATA
66 AAATAAAAGAATA
* * * * *
106730541 TTAAAGATATATACATAAAATAGTATAATATATATACATAATATAGA-ATTTAAAATATACCTA-
1 TTAAAAATACATACATAAAATAGT-TAAGATATATACATAAGATA-ACATGTAAAATATA--TAT
*
106730604 ATAT-ATTAAAAGAATA
62 ATATAAATAAAAGAATA
106730620 T
1 T
106730621 ATATAATATA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
78 21 0.31
79 39 0.58
80 5 0.07
81 2 0.03
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (78 bp):
TTAAAAATACATACATAAAATAGTTAAGATATATACATAAGATAACATGTAAAATATATATATAT
AAATAAAAGAATA
Found at i:106731177 original size:30 final size:30
Alignment explanation
Indices: 106731141--106731226 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 30
106731131 AGGTACAAGT
* *
106731141 GGTGGTGGAGCAA-GTGTGGTTAGTGGAGTA
1 GGTGGTGGA-AAAGGTGTGGCTAGTGGAGTA
* *
106731171 GGTGGTGGAAAAGGAGTGGCTAGTGGAGTT
1 GGTGGTGGAAAAGGTGTGGCTAGTGGAGTA
106731201 GGTGGTGGAAAAGGTGTGGCTAGTGG
1 GGTGGTGGAAAAGGTGTGGCTAGTGG
106731227 GTTTTGATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
29 2 0.04
30 48 0.96
ACGTcount: A:0.21, C:0.03, G:0.51, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAAAAGGTGTGGCTAGTGGAGTA
Found at i:106737260 original size:19 final size:19
Alignment explanation
Indices: 106737216--106737262 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
106737206 CATCCTTTTC
106737216 TTTTTTTTCTTTCTTTCGA
1 TTTTTTTTCTTTCTTTCGA
* * *
106737235 ATATTTTTCTTTCTTTC-T
1 TTTTTTTTCTTTCTTTCGA
106737253 TTTTTTTTCT
1 TTTTTTTTCT
106737263 CCTTTTATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTTTCTTTCTTTCGA
Found at i:106737962 original size:26 final size:25
Alignment explanation
Indices: 106737904--106737962 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
106737894 ATTATTTTAG
* *
106737904 CATTATTATTATTATTAGTACTATT
1 CATTATTATCATTATTAGTACTATA
106737929 CATATATTATCATTATT-GTTACTATA
1 CAT-TATTATCATTATTAG-TACTATA
106737955 CTATTATT
1 C-ATTATT
106737963 TATCTTCGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 4 0.14
26 23 0.79
27 2 0.07
ACGTcount: A:0.32, C:0.10, G:0.03, T:0.54
Consensus pattern (25 bp):
CATTATTATCATTATTAGTACTATA
Found at i:106738207 original size:38 final size:37
Alignment explanation
Indices: 106738135--106738256 Score: 147
Period size: 37 Copynumber: 3.2 Consensus size: 37
106738125 AATACATGCA
* *
106738135 TATATATTTTGTGTATATTCTTTTTAATAGATATTATG
1 TATATATTTT-TGTATATTATTTTTAATATATATTATG
* *
106738173 TGTATATTTTTGTATATTATTTTTAACTTTATATTATG
1 TATATATTTTTGTATATTATTTTTAA-TATATATTATG
* *
106738211 TATATATTTTT-AATATTATATTTTTATATATATTATG
1 TATATATTTTTGTATATTAT-TTTTAATATATATTATG
*
106738248 TACATATTT
1 TATATATTT
106738257 CGAATACTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
37 40 0.55
38 33 0.45
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (37 bp):
TATATATTTTTGTATATTATTTTTAATATATATTATG
Found at i:106738221 original size:25 final size:24
Alignment explanation
Indices: 106738181--106738241 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
106738171 TGTGTATATT
106738181 TTTGTATATTATTTTTAACT-TTATA
1 TTTGTATA-TATTTTTAA-TATTATA
106738206 TTATGTATATATTTTTAATATTATA
1 TT-TGTATATATTTTTAATATTATA
*
106738231 TTTTTATATAT
1 TTTGTATATAT
106738242 ATTATGTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 9 0.27
25 18 0.55
26 6 0.18
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (24 bp):
TTTGTATATATTTTTAATATTATA
Found at i:106738232 original size:14 final size:12
Alignment explanation
Indices: 106738175--106738244 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 12
106738165 ATATTATGTG
*
106738175 TATATTTTTGTA
1 TATATTTTTATA
*
106738187 TATTATTTTTAACTT
1 TA-TATTTTT-A-TA
*
106738202 TATATTATGTATA
1 TATATT-TTTATA
*
106738215 TAT-TTTTAATA
1 TATATTTTTATA
106738226 TTATATTTTTATA
1 -TATATTTTTATA
106738239 TATATT
1 TATATT
106738245 ATGTACATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
11 4 0.09
12 13 0.29
13 18 0.40
14 5 0.11
15 5 0.11
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (12 bp):
TATATTTTTATA
Found at i:106738240 original size:26 final size:26
Alignment explanation
Indices: 106738175--106738244 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
106738165 ATATTATGTG
106738175 TATATTTTTGTATATTATTTTTAACTT
1 TATATTTTTGTATA-TATTTTTAACTT
*
106738202 TATA-TTATGTATATATTTTTAA-TAT
1 TATATTTTTGTATATATTTTTAACT-T
*
106738227 TATATTTTTATATATATT
1 TATATTTTTGTATATATT
106738245 ATGTACATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.37
26 19 0.50
27 4 0.11
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (26 bp):
TATATTTTTGTATATATTTTTAACTT
Found at i:106738268 original size:37 final size:37
Alignment explanation
Indices: 106738202--106738274 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
106738192 TTTTTAACTT
* ** * *
106738202 TATATTATGTATATATTTTTAATATTATATTTTTATA
1 TATATTATGTACATATTTCGAATACTATATTATTATA
106738239 TATATTATGTACATATTTCGAATACTATATTATTAT
1 TATATTATGTACATATTTCGAATACTATATTATTAT
106738275 TATTTTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (37 bp):
TATATTATGTACATATTTCGAATACTATATTATTATA
Found at i:106738346 original size:23 final size:25
Alignment explanation
Indices: 106738299--106738349 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
106738289 TTATCTCATG
* *
106738299 TATATATATTTTTTGATAACTATAT
1 TATATATATTTTTTAATAACCATAT
106738324 TATATAT-TTTTTTAAT-ACCATAT
1 TATATATATTTTTTAATAACCATAT
106738347 TAT
1 TAT
106738350 GTACGTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
24 8 0.33
25 7 0.29
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (25 bp):
TATATATATTTTTTAATAACCATAT
Found at i:106738492 original size:21 final size:21
Alignment explanation
Indices: 106738468--106738519 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
106738458 TTCATACATC
*
106738468 ATTATATTTAGTATTAT-ACCT
1 ATTAT-TTTACTATTATCACCT
*
106738489 ATTATTTTCACTATTATCACTT
1 ATTATTTT-ACTATTATCACCT
106738511 ATTATTTTA
1 ATTATTTTA
106738520 TTTTAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 13 0.48
22 11 0.41
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATTTTACTATTATCACCT
Found at i:106738945 original size:16 final size:16
Alignment explanation
Indices: 106738924--106738972 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 16
106738914 TAGCATGTCA
106738924 TTATTTATATATTTTT
1 TTATTTATATATTTTT
106738940 TTATTT-T-TA-TTTT
1 TTATTTATATATTTTT
*
106738953 TTATTGTAAATATTGTTT
1 TTATT-TATATATT-TTT
106738971 TT
1 TT
106738973 TTTTGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
13 9 0.33
14 3 0.11
15 1 0.04
16 8 0.30
17 1 0.04
18 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (16 bp):
TTATTTATATATTTTT
Found at i:106738957 original size:29 final size:29
Alignment explanation
Indices: 106738924--106738982 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
106738914 TAGCATGTCA
* *
106738924 TTATT-TATATATTTTTTTATTTTTATTTT
1 TTATTGTAAATATTGTTTT-TTTTTATTTT
*
106738953 TTATTGTAAATATTGTTTTTTTTTGTTTT
1 TTATTGTAAATATTGTTTTTTTTTATTTT
106738982 T
1 T
106738983 ATCTTTATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (29 bp):
TTATTGTAAATATTGTTTTTTTTTATTTT
Found at i:106738983 original size:28 final size:29
Alignment explanation
Indices: 106738924--106738984 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
106738914 TAGCATGTCA
* * *
106738924 TTATTTATATATTTTTTTATTTTTATTTT
1 TTATTTAAATATTGTTTTATTTTTAGTTT
106738953 TTATTGTAAATATTGTTTT-TTTTT-GTTT
1 TTATT-TAAATATTGTTTTATTTTTAGTTT
106738981 TTAT
1 TTAT
106738985 CTTTATCCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 10 0.36
30 11 0.39
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (29 bp):
TTATTTAAATATTGTTTTATTTTTAGTTT
Found at i:106741033 original size:17 final size:16
Alignment explanation
Indices: 106741011--106741055 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
106741001 ATCATATCTT
106741011 AAAATATAATAGTAA-CA
1 AAAATATAA-A-TAAGCA
106741028 AAAATATAAATAAGCA
1 AAAATATAAATAAGCA
106741044 AGAAATATAAAT
1 A-AAATATAAAT
106741056 CAATAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.12
16 4 0.15
17 19 0.73
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (16 bp):
AAAATATAAATAAGCA
Found at i:106743795 original size:26 final size:26
Alignment explanation
Indices: 106743759--106743842 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
106743749 CATGAAATTC
106743759 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
106743785 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
106743811 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
106743837 TTATCA
1 TTATCA
106743843 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:106744285 original size:20 final size:19
Alignment explanation
Indices: 106744230--106744287 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
106744220 TCATGTATTA
*
106744230 AATAGTAAAAGAAATAATAGT
1 AATAGTAATAGAAA-AA-AGT
*
106744251 AACAGTAATTA-AAAAAAGAT
1 AATAGTAA-TAGAAAAAAG-T
106744271 AATAGTAATAGAAAAAA
1 AATAGTAATAGAAAAAA
106744288 TAACAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.13
20 16 0.52
21 10 0.32
22 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.21
Consensus pattern (19 bp):
AATAGTAATAGAAAAAAGT
Found at i:106744463 original size:35 final size:33
Alignment explanation
Indices: 106744385--106744546 Score: 103
Period size: 35 Copynumber: 4.7 Consensus size: 33
106744375 TAGCCATAAT
*
106744385 AATAATAGTAATAATAGTAATAATAAAATAAAG
1 AATAATAATAATAATAGTAATAATAAAATAAAG
* * * *
106744418 AATAACAATAATATATTGATAATAATAAAATCAGG
1 AATAATAATAATA-ATAG-TAATAATAAAATAAAG
* * ** *
106744453 TATAATAATAATAACAACAATAGTATAAAA-AAAT
1 AATAATAATAATAATAGTAATA--ATAAAATAAAG
* * * *
106744487 AATAGTAATAACGATAATAGTGATAACAATAAT-AAT
1 AATAATAAT-A--ATAATAGTAATAATAA-AATAAAG
*
106744523 AATAATAATAATAATAATAATAAT
1 AATAATAATAATAATAGTAATAAT
106744547 GGTTATGGTG
Statistics
Matches: 95, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
33 26 0.27
34 12 0.13
35 36 0.38
36 13 0.14
37 8 0.08
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (33 bp):
AATAATAATAATAATAGTAATAATAAAATAAAG
Found at i:106744565 original size:3 final size:3
Alignment explanation
Indices: 106744380--106744546 Score: 112
Period size: 3 Copynumber: 56.7 Consensus size: 3
106744370 AATAATAGCC
* * * *
106744380 ATA ATA ATA ATA GTA ATA ATA GTA ATA ATA A-A ATAA AGA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * *
106744425 ATA AT- ATA TTG ATA ATA ATA A-A ATCA GGT- ATA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA ATA ATA ATA ATA ATA
* * * * ** * * *
106744469 ACA ATA GT- ATA A-A AAA ATA ATA GTA ATA ACG ATA ATA GTG ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
106744515 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
106744547 GGTTATGGTG
Statistics
Matches: 124, Mismatches: 31, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
2 10 0.08
3 110 0.89
4 3 0.02
5 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:106746424 original size:3 final size:3
Alignment explanation
Indices: 106746404--106746445 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
106746394 ATAATATCTA
* *
106746404 AAT AAT AAC AAT AA- AAT AAT AAT AACA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
106746446 TTTGTCTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.88
4 2 0.06
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:106746433 original size:13 final size:14
Alignment explanation
Indices: 106746403--106746444 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
106746393 TATAATATCT
*
106746403 AAATAATAACAATA
1 AAATAATAATAATA
*
106746417 AAATAATAATAA-C
1 AAATAATAATAATA
106746430 AAATAATAATAATA
1 AAATAATAATAATA
106746444 A
1 A
106746445 TTTTGTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:106754248 original size:32 final size:32
Alignment explanation
Indices: 106754207--106754271 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
106754197 AGAAAAAGTG
106754207 AGAAGTTTAGTTGATCTCTGAGAATCTCAAAC
1 AGAAGTTTAGTTGATCTCTGAGAATCTCAAAC
106754239 AGAAGTTTAGTTGATCTCTGAGAATCTCAAAC
1 AGAAGTTTAGTTGATCTCTGAGAATCTCAAAC
106754271 A
1 A
106754272 ATCACCCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (32 bp):
AGAAGTTTAGTTGATCTCTGAGAATCTCAAAC
Found at i:106756935 original size:102 final size:102
Alignment explanation
Indices: 106756759--106756963 Score: 401
Period size: 102 Copynumber: 2.0 Consensus size: 102
106756749 AGTTCGTAGG
106756759 TTGGTGGTTCTAGTCCAGAAATGTAAGGATGCTGCAAAGCAACAGGTAGTCTCTCTTTCTCATTT
1 TTGGTGGTTCTAGTCCAGAAATGTAAGGATGCTGCAAAGCAACAGGTAGTCTCTCTTTCTCATTT
106756824 TCTCTTTTGTTGTAGCTTTGATGGTTCAAATTCAGTA
66 TCTCTTTTGTTGTAGCTTTGATGGTTCAAATTCAGTA
*
106756861 TTGGTGGTTCTATTCCAGAAATGTAAGGATGCTGCAAAGCAACAGGTAGTCTCTCTTTCTCATTT
1 TTGGTGGTTCTAGTCCAGAAATGTAAGGATGCTGCAAAGCAACAGGTAGTCTCTCTTTCTCATTT
106756926 TCTCTTTTGTTGTAGCTTTGATGGTTCAAATTCAGTA
66 TCTCTTTTGTTGTAGCTTTGATGGTTCAAATTCAGTA
106756963 T
1 T
106756964 GTACTCCTAT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (102 bp):
TTGGTGGTTCTAGTCCAGAAATGTAAGGATGCTGCAAAGCAACAGGTAGTCTCTCTTTCTCATTT
TCTCTTTTGTTGTAGCTTTGATGGTTCAAATTCAGTA
Found at i:106757370 original size:24 final size:24
Alignment explanation
Indices: 106757333--106757405 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
106757323 GGTAAGACAT
106757333 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
* *
106757357 TTTCCACTGTTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
*
106757381 TTTCCACAGCTCCTCTATTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
106757405 T
1 T
106757406 ATCGATTGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.12, C:0.47, G:0.04, T:0.37
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:106758219 original size:8 final size:8
Alignment explanation
Indices: 106758206--106758230 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
106758196 AATGCCGTTC
106758206 CTGTTGTT
1 CTGTTGTT
106758214 CTGTTGTT
1 CTGTTGTT
106758222 CTGTTGTT
1 CTGTTGTT
106758230 C
1 C
106758231 CTGGTAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.24, T:0.60
Consensus pattern (8 bp):
CTGTTGTT
Found at i:106762580 original size:34 final size:35
Alignment explanation
Indices: 106762514--106762580 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
106762504 CAAACACCAG
* *
106762514 AAAATATTTTCCTGTAAGTCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
106762549 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
106762581 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:106766197 original size:16 final size:18
Alignment explanation
Indices: 106766158--106766199 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
106766148 GAAGTTTGTA
106766158 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
106766175 ATTTTTATATATTAT-TT
1 ATATTTATATATTATGTT
106766192 A-ATTTATA
1 ATATTTATA
106766200 AAACATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:106771379 original size:13 final size:13
Alignment explanation
Indices: 106771363--106771406 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
106771353 TAAATTTTTT
106771363 AAAAGCACTTCTC
1 AAAAGCACTTCTC
* *
106771376 AAAAACACTTTTC
1 AAAAGCACTTCTC
* *
106771389 CATAGCACTTCTC
1 AAAAGCACTTCTC
106771402 AAAAG
1 AAAAG
106771407 TGGAGGGGTA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (13 bp):
AAAAGCACTTCTC
Found at i:106779902 original size:19 final size:20
Alignment explanation
Indices: 106779862--106779904 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
106779852 TCACGGCAAT
*
106779862 AAATAATTTAAAAATTATAA
1 AAATAATTTAAAAATTAAAA
106779882 AAAT-ATTTAAAAGA-TAAAA
1 AAATAATTTAAAA-ATTAAAA
106779901 AAAT
1 AAAT
106779905 TAAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATAATTTAAAAATTAAAA
Found at i:106781788 original size:31 final size:31
Alignment explanation
Indices: 106781752--106781814 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
106781742 GAAAACCCAA
*
106781752 TGACTTAAATAAAAACTTTCAAATAGTTCAG
1 TGACTTAAATAAAAAATTTCAAATAGTTCAG
**
106781783 TGACTTAAATAAAAAATTTTGAATAGTTCAG
1 TGACTTAAATAAAAAATTTCAAATAGTTCAG
106781814 T
1 T
106781815 AACCGTTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (31 bp):
TGACTTAAATAAAAAATTTCAAATAGTTCAG
Found at i:106782211 original size:9 final size:9
Alignment explanation
Indices: 106782197--106782289 Score: 53
Period size: 9 Copynumber: 9.6 Consensus size: 9
106782187 TTTAATATTA
106782197 AAAAATTTT
1 AAAAATTTT
106782206 AAAAA-TTT
1 AAAAATTTT
106782214 AAAAATTATT
1 AAAAATT-TT
106782224 AAATAAATTATT
1 -AA-AAATT-TT
* *
106782236 AACATTATTT
1 AAAAAT-TTT
* *
106782246 AAAAAGTAT
1 AAAAATTTT
*
106782255 AAAAATTATA
1 AAAAATT-TT
106782265 AAAATATTTTT
1 AAAA-A-TTTT
*
106782276 AAAATTTTT
1 AAAAATTTT
106782285 AAAAA
1 AAAAA
106782290 ATTATTTAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
8 8 0.12
9 22 0.34
10 13 0.20
11 11 0.17
12 10 0.16
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:106782236 original size:40 final size:39
Alignment explanation
Indices: 106782192--106782289 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 39
106782182 AATTTTTTAA
* *
106782192 TATTAAAAAATTTTAAAAA-TTTAAAAATTATTAAATAA-AT
1 TATT-AAAATTTTTAAAAAGTATAAAAATTA-TAAA-AATAT
*
106782232 TATTAACATTATTTAAAAAGTATAAAAATTATAAAAATAT
1 TATTAAAATT-TTTAAAAAGTATAAAAATTATAAAAATAT
*
106782272 TTTTAAAATTTTTAAAAA
1 TATTAAAATTTTTAAAAA
106782290 ATTATTTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 14 0.28
40 26 0.52
41 10 0.20
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (39 bp):
TATTAAAATTTTTAAAAAGTATAAAAATTATAAAAATAT
Found at i:106783079 original size:28 final size:28
Alignment explanation
Indices: 106783047--106783103 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
106783037 CCTCGAACCA
106783047 CTGGTTCTCATTTCAATGTTTGGGATCT
1 CTGGTTCTCATTTCAATGTTTGGGATCT
106783075 CTGGTTCTCATTTCAATGTTTGGGATCT
1 CTGGTTCTCATTTCAATGTTTGGGATCT
106783103 C
1 C
106783104 ATGAAACGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (28 bp):
CTGGTTCTCATTTCAATGTTTGGGATCT
Found at i:106786926 original size:13 final size:15
Alignment explanation
Indices: 106786897--106786935 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
106786887 ACGATAAAAT
106786897 ATGAAAAAATATAAG
1 ATGAAAAAATATAAG
106786912 ATGAAAAAA-AT-AG
1 ATGAAAAAATATAAG
*
106786925 ATTAAAAAATA
1 ATGAAAAAATA
106786936 AATTCAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 10 0.45
14 3 0.14
15 9 0.41
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (15 bp):
ATGAAAAAATATAAG
Found at i:106787229 original size:7 final size:7
Alignment explanation
Indices: 106787217--106787241 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
106787207 AATATTTAAA
106787217 AAAATTC
1 AAAATTC
106787224 AAAATTC
1 AAAATTC
106787231 AAAATTC
1 AAAATTC
106787238 AAAA
1 AAAA
106787242 ACAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTC
Found at i:106788628 original size:21 final size:21
Alignment explanation
Indices: 106788604--106788643 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
106788594 TATAATTATC
106788604 TTAG-TTTGAAAATTATTAAAT
1 TTAGTTTTGAAAA-TATTAAAT
106788625 TTAGTTTTGAAAATATTAA
1 TTAGTTTTGAAAATATTAA
106788644 GTTCTCTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (21 bp):
TTAGTTTTGAAAATATTAAAT
Found at i:106789729 original size:5 final size:5
Alignment explanation
Indices: 106789719--106789743 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
106789709 ATTTAGAGCA
106789719 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
106789744 CCTTTACGAA
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:106793642 original size:17 final size:18
Alignment explanation
Indices: 106793622--106793655 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
106793612 TTATAGATAC
106793622 CTCTA-ATAACATTTGTA
1 CTCTATATAACATTTGTA
*
106793639 CTCTATATAATATTTGT
1 CTCTATATAACATTTGT
106793656 CTTAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (18 bp):
CTCTATATAACATTTGTA
Found at i:106798241 original size:20 final size:21
Alignment explanation
Indices: 106798202--106798241 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
106798192 GGTGAGAAAG
* *
106798202 AAAATTAAAAAACTTTTGAGA
1 AAAAGTAAAAAACTTATGAGA
106798223 AAAAGTAAAAAAC-TATGAG
1 AAAAGTAAAAAACTTATGAG
106798242 GGAGATTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAAGTAAAAAACTTATGAGA
Found at i:106800316 original size:37 final size:37
Alignment explanation
Indices: 106800257--106800365 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
106800247 AGCTCAGACG
*
106800257 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTTATCGGGTCTTACCCGGACA
*
106800294 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTTATCGGGTCTTACCCGGACA
*
106800331 TAATCTCCACACGTAGTTATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTTATCGGGTCTTACCCGGA
106800366 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTTATCGGGTCTTACCCGGACA
Found at i:106800633 original size:47 final size:47
Alignment explanation
Indices: 106800568--106800740 Score: 274
Period size: 47 Copynumber: 3.7 Consensus size: 47
106800558 CATACATATT
* *
106800568 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
106800615 TCACATCGGCCATTCGGCCTTATAACACATATGCATACTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
106800662 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
106800709 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
106800741 ACACATAAAA
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:106800687 original size:22 final size:22
Alignment explanation
Indices: 106800661--106800732 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
106800651 ACTCACATTC
106800661 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
106800683 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
106800707 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
106800730 ATC
1 ATC
106800733 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:106807241 original size:26 final size:24
Alignment explanation
Indices: 106807211--106807260 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
106807201 AAATAAAAAA
*
106807211 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
106807237 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
106807261 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:106807280 original size:21 final size:21
Alignment explanation
Indices: 106807231--106807289 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
106807221 ATAATAAATC
*
106807231 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
106807251 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
106807273 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
106807290 TTCTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:106807366 original size:15 final size:16
Alignment explanation
Indices: 106807336--106807368 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
106807326 AAATGGTTAT
106807336 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
106807353 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
106807368 A
1 A
106807369 AAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:106813479 original size:3 final size:3
Alignment explanation
Indices: 106813471--106813500 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
106813461 TTTTGTGGTT
106813471 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
106813501 CAAGTTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:106816483 original size:55 final size:55
Alignment explanation
Indices: 106816399--106816508 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
106816389 TCATGTGAAG
*
106816399 GATATGTTCCTATGGATTTTCTATTTTTCCAATTTTCTTTTTTTATCGAAACTAA
1 GATATGTTCCTATGGATTTTCCATTTTTCCAATTTTCTTTTTTTATCGAAACTAA
106816454 GATATGTTCCTATGGATTTTCCATTTTTCCAATTTTCTTTTTTTATCGAAACTAA
1 GATATGTTCCTATGGATTTTCCATTTTTCCAATTTTCTTTTTTTATCGAAACTAA
106816509 TTTTTTGATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (55 bp):
GATATGTTCCTATGGATTTTCCATTTTTCCAATTTTCTTTTTTTATCGAAACTAA
Found at i:106817270 original size:9 final size:9
Alignment explanation
Indices: 106817256--106817351 Score: 54
Period size: 10 Copynumber: 10.4 Consensus size: 9
106817246 TATGTGGCAA
106817256 AAAAATTAT
1 AAAAATTAT
106817265 -AAAA--AT
1 AAAAATTAT
*
106817271 AAAAATCAAT
1 AAAAAT-TAT
*
106817281 AAAAGTTAT
1 AAAAATTAT
*
106817290 AAAAGTTATT
1 AAAAATTA-T
**
106817300 AAATTTTAAT
1 AAAAATT-AT
106817310 AAAAATTAT
1 AAAAATTAT
* *
106817319 AAAATTTTGT
1 AAAA-ATTAT
*
106817329 AAAATTTTAT
1 AAAA-ATTAT
106817339 AAAAATTAT
1 AAAAATTAT
106817348 AAAA
1 AAAA
106817352 TGCATCAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
6 2 0.03
7 4 0.06
8 4 0.06
9 24 0.34
10 35 0.50
11 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:106817313 original size:20 final size:20
Alignment explanation
Indices: 106817288--106817326 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
106817278 AATAAAAGTT
* *
106817288 ATAAAAGTTATTAAATTTTA
1 ATAAAAATTATAAAATTTTA
106817308 ATAAAAATTATAAAATTTT
1 ATAAAAATTATAAAATTTT
106817327 GTAAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
ATAAAAATTATAAAATTTTA
Found at i:106817331 original size:29 final size:29
Alignment explanation
Indices: 106817278--106817352 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
106817268 AATAAAAATC
*
106817278 AATAAAAGTTATAAAAGTTATT-AAATTTT
1 AATAAAAATTATAAAA-TTATTAAAATTTT
*
106817307 AATAAAAATTATAAAATTTTGTAAAATTTT
1 AATAAAAATTATAAAATTAT-TAAAATTTT
106817337 -ATAAAAATTATAAAAT
1 AATAAAAATTATAAAAT
106817353 GCATCAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 3 0.07
29 32 0.76
30 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (29 bp):
AATAAAAATTATAAAATTATTAAAATTTT
Found at i:106817361 original size:29 final size:30
Alignment explanation
Indices: 106817300--106817361 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
106817290 AAAAGTTATT
** *
106817300 AAATTTTAATAAAAATTATAAAATTTTGTA
1 AAATTTTAATAAAAATTATAAAATCATGCA
106817330 AAATTTT-ATAAAAATTATAAAATGCAT-CA
1 AAATTTTAATAAAAATTATAAAAT-CATGCA
106817359 AAA
1 AAA
106817362 AGACCCTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTTTAATAAAAATTATAAAATCATGCA
Found at i:106819214 original size:15 final size:16
Alignment explanation
Indices: 106819196--106819225 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
106819186 ATTATTTTTA
106819196 AATAAATTT-TTAATG
1 AATAAATTTGTTAATG
106819211 AATAAATTTGTTAAT
1 AATAAATTTGTTAAT
106819226 ATTAAACCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
AATAAATTTGTTAATG
Found at i:106819422 original size:17 final size:16
Alignment explanation
Indices: 106819389--106819435 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 16
106819379 ATATTAGTTG
106819389 TTTCATTATTTTTATT
1 TTTCATTATTTTTATT
106819405 TATT-ATTATTTTTAATT
1 T-TTCATTATTTTT-ATT
106819422 TTTCATTATCTTTT
1 TTTCATTAT-TTTT
106819436 TAATATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 12 0.44
17 11 0.41
18 4 0.15
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTCATTATTTTTATT
Found at i:106819700 original size:18 final size:17
Alignment explanation
Indices: 106819672--106819706 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
106819662 AAATATTTTT
*
106819672 TTATTTTTAT-TTTTAA
1 TTATATTTATATTTTAA
106819688 TTATATTTATATTTTAA
1 TTATATTTATATTTTAA
106819705 TT
1 TT
106819707 TTAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATTTATATTTTAA
Found at i:106819778 original size:40 final size:40
Alignment explanation
Indices: 106819734--106819814 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
106819724 AATTTTTATT
106819734 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
106819774 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
106819814 A
1 A
106819815 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:106826016 original size:29 final size:30
Alignment explanation
Indices: 106825950--106826017 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
106825940 TTATAATGTG
* *
106825950 ATAACATAAATGACTAAAATGTAACATTTCAA
1 ATAA-ATAAATGACTAAAATATAACA-TTAAA
106825982 AT--ATAAATGACTAAAATATAAC-TTAAA
1 ATAAATAAATGACTAAAATATAACATTAAA
106826009 ATAAATAAA
1 ATAAATAAA
106826018 AATGACTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
27 6 0.19
29 24 0.75
32 2 0.06
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.28
Consensus pattern (30 bp):
ATAAATAAATGACTAAAATATAACATTAAA
Found at i:106831073 original size:20 final size:20
Alignment explanation
Indices: 106831044--106831083 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
106831034 TTGAATTCTA
106831044 AAAGACAAAT-ACAAATAAAT
1 AAAGACAAATGA-AAATAAAT
*
106831064 AAAGATAAATGAAAATAAAT
1 AAAGACAAATGAAAATAAAT
106831084 CATAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.17
Consensus pattern (20 bp):
AAAGACAAATGAAAATAAAT
Found at i:106831830 original size:16 final size:16
Alignment explanation
Indices: 106831811--106831841 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106831801 TTTTATGAAC
*
106831811 AATAAACATATATATA
1 AATAAAAATATATATA
106831827 AATAAAAATATATAT
1 AATAAAAATATATAT
106831842 TATTTTTAAA
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:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAAAAATATATATA
Found at i:106836042 original size:5 final size:5
Alignment explanation
Indices: 106836032--106836057 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
106836022 ACATTTTTGG
106836032 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
106836058 CAATTCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:106840333 original size:49 final size:49
Alignment explanation
Indices: 106840278--106840376 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
106840268 CATGCCAAAA
*
106840278 ATCATACCTTGTAGTCATGTATGAATGTGAGGAAAAATGAAGAACAGAG
1 ATCATACCTTGTAGTCATGTATGAATGGGAGGAAAAATGAAGAACAGAG
106840327 ATCATACCTTGTAGTCATGTATGAATGGGAGGAAAAATGAAGAACAGAG
1 ATCATACCTTGTAGTCATGTATGAATGGGAGGAAAAATGAAGAACAGAG
106840376 A
1 A
106840377 AACACAGGCC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.23
Consensus pattern (49 bp):
ATCATACCTTGTAGTCATGTATGAATGGGAGGAAAAATGAAGAACAGAG
Found at i:106846845 original size:11 final size:11
Alignment explanation
Indices: 106846830--106846869 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
106846820 GTTTTCTCCA
106846830 TATTTTGCTAT
1 TATTTTGCTAT
* *
106846841 CATTTTACTAT
1 TATTTTGCTAT
*
106846852 TATATTGCTAT
1 TATTTTGCTAT
106846863 TATTTTG
1 TATTTTG
106846870 TTGTTATTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:106847774 original size:61 final size:61
Alignment explanation
Indices: 106847688--106847804 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 61
106847678 AGACATGCAA
106847688 TATACTTTTAAATAAAATAATTTCCTAGTCTTAC-TTTTCTCCAATTAAATAAGACAGATTT
1 TATACTTTTAAATAAAATAATTTCCTAGTCTTACTTTTTC-CCAATTAAATAAGACAGATTT
* * *
106847749 TATA-TTTTAAAATAAATTATTTTCCTAGTCTTCCTTTTTCCCAATTAAATAAGACA
1 TATACTTTT-AAATAAAATAATTTCCTAGTCTTACTTTTTCCCAATTAAATAAGACA
106847805 TGCTATCATA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
60 4 0.08
61 42 0.82
62 5 0.10
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (61 bp):
TATACTTTTAAATAAAATAATTTCCTAGTCTTACTTTTTCCCAATTAAATAAGACAGATTT
Found at i:106848240 original size:31 final size:31
Alignment explanation
Indices: 106848203--106848273 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
106848193 ATACAGAGAA
*
106848203 TAAAATTGACTAATTCAAAAAGAATAGGATT
1 TAAAATTGACTAATTCAAAAAGAATAGGAAT
106848234 TAAAATTGACTAATTCAAAAAGAATAGGAAT
1 TAAAATTGACTAATTCAAAAAGAATAGGAAT
106848265 TAAAATTGA
1 TAAAATTGA
106848274 TTTAATTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.54, C:0.06, G:0.13, T:0.28
Consensus pattern (31 bp):
TAAAATTGACTAATTCAAAAAGAATAGGAAT
Found at i:106857643 original size:17 final size:17
Alignment explanation
Indices: 106857623--106857656 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
106857613 AGGTTTAGGT
106857623 TTAAAATTTTTAATTAA
1 TTAAAATTTTTAATTAA
106857640 TTAAAATTTTTAATTAA
1 TTAAAATTTTTAATTAA
106857657 AAATCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAATTTTTAATTAA
Found at i:106870602 original size:23 final size:25
Alignment explanation
Indices: 106870576--106870630 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
106870566 ATAATAGTGT
*
106870576 TTTTTTTAATT-TT-ATTTTTTCTC
1 TTTTTTTAATTCTTAATTTTTTCTA
*
106870599 TTTTTTT-ATTCTTAATTTTTTTTA
1 TTTTTTTAATTCTTAATTTTTTCTA
106870623 TTTTTTTA
1 TTTTTTTA
106870631 CAAAATGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.11
23 9 0.33
24 15 0.56
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTTTAATTCTTAATTTTTTCTA
Found at i:106870604 original size:16 final size:17
Alignment explanation
Indices: 106870585--106870628 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
106870575 TTTTTTTTAA
*
106870585 TTTTATTTTTTCTCTTT
1 TTTTATTTTTTATCTTT
* *
106870602 TTTTATTCTTAAT-TTT
1 TTTTATTTTTTATCTTT
106870618 TTTTATTTTTT
1 TTTTATTTTTT
106870629 TACAAAATGT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTATTTTTTATCTTT
Found at i:106872108 original size:29 final size:29
Alignment explanation
Indices: 106872076--106872132 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
106872066 AATTACAAAT
* *
106872076 TTTTTATTTTT-TTATTTTTTCAATTTTTC
1 TTTTCATTTTTCTCATTTTTT-AATTTTTC
106872105 TTTTCATTTTTCTCATTTTTTAATTTTT
1 TTTTCATTTTTCTCATTTTTTAATTTTT
106872133 TTCTTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (29 bp):
TTTTCATTTTTCTCATTTTTTAATTTTTC
Found at i:106872113 original size:21 final size:22
Alignment explanation
Indices: 106872084--106872125 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
106872074 ATTTTTTATT
*
106872084 TTTTTATTTTT-TCAATTTTTC
1 TTTTCATTTTTCTCAATTTTTC
*
106872105 TTTTCATTTTTCTCATTTTTT
1 TTTTCATTTTTCTCAATTTTT
106872126 AATTTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCATTTTTCTCAATTTTTC
Found at i:106872130 original size:8 final size:8
Alignment explanation
Indices: 106872074--106872133 Score: 56
Period size: 8 Copynumber: 7.9 Consensus size: 8
106872064 ATAATTACAA
106872074 ATTTTTT-
1 ATTTTTTC
*
106872081 ATTTTTTT
1 ATTTTTTC
106872089 ATTTTTTC
1 ATTTTTTC
*
106872097 AATTTTTC
1 ATTTTTTC
106872105 ---TTTTC
1 ATTTTTTC
106872110 ATTTTTCTC
1 ATTTTT-TC
*
106872119 ATTTTTTA
1 ATTTTTTC
106872127 ATTTTTT
1 ATTTTTT
106872134 TCTTTTTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
5 5 0.11
7 7 0.16
8 25 0.56
9 8 0.18
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (8 bp):
ATTTTTTC
Found at i:106873021 original size:31 final size:31
Alignment explanation
Indices: 106872909--106873024 Score: 114
Period size: 31 Copynumber: 3.9 Consensus size: 31
106872899 AAAAGTACTC
* * * *
106872909 TGAAAGCAAAGAAAATAAGATGAGAAAACTT
1 TGAAAGCAGAGAAAATAAAATGAGAGAATTT
* * **
106872940 TGAAAGCAGAGAAATTAAGACAAGAGAATTT
1 TGAAAGCAGAGAAAATAAAATGAGAGAATTT
*
106872971 TGAGAGCAGAG---A-AAAATGAGAGAATTT
1 TGAAAGCAGAGAAAATAAAATGAGAGAATTT
*
106872998 TGAAAGCAGAGAAAACAAAATGAGAGA
1 TGAAAGCAGAGAAAATAAAATGAGAGA
106873025 GAAGAGTAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
27 22 0.32
30 1 0.01
31 46 0.67
ACGTcount: A:0.54, C:0.06, G:0.24, T:0.16
Consensus pattern (31 bp):
TGAAAGCAGAGAAAATAAAATGAGAGAATTT
Found at i:106894165 original size:52 final size:52
Alignment explanation
Indices: 106894009--106894168 Score: 178
Period size: 52 Copynumber: 3.1 Consensus size: 52
106893999 CGGACCACAT
* * * *
106894009 ATCATACCGATGCCATATCCCGGATATGGTTTTATACGGAATCACATAATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGT-ATCAC
* * * *
106894062 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGGAT-ACGAATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATAC-GGAATCACGTATCAC
** * * *
106894114 ATGGTACCGATGCCATAGCTCGGCTATGGTCTTATACGAAATCATGTATCAC
1 ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGTATCAC
106894166 ATC
1 ATC
106894169 TTTTCCGTCA
Statistics
Matches: 87, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
51 3 0.03
52 46 0.53
53 34 0.39
54 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCGGCTATGGTCTTATACGGAATCACGTATCAC
Found at i:106900841 original size:27 final size:27
Alignment explanation
Indices: 106900771--106900849 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 27
106900761 GATGTTATGA
*
106900771 GATATGTGGATTAAATTGAG-AATAATT
1 GATATG-GGATTAAATTGAGAAATAAGT
*
106900798 GACATATTGGGACTAAATTGAGAAAT-AGT
1 G--ATA-TGGGATTAAATTGAGAAATAAGT
106900827 GATATGAGGATTAAATTGAGAAA
1 GATATG-GGATTAAATTGAGAAA
106900850 AAAAAGTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
26 2 0.05
27 19 0.43
29 18 0.41
30 5 0.11
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.30
Consensus pattern (27 bp):
GATATGGGATTAAATTGAGAAATAAGT
Found at i:106902001 original size:197 final size:197
Alignment explanation
Indices: 106901666--106902061 Score: 684
Period size: 197 Copynumber: 2.0 Consensus size: 197
106901656 TGCTTTTGAC
* *
106901666 TTACTTTACTTATTTGCACAGAAATAGTGAAGAAAGAATAAGAAGAAAAATGAAGCTATTAGTAA
1 TTACTTTACTTATTTGCACAGAAATAGTGAAGAAAGAATAAGAAGAAAAAGGAAGCCATTAGTAA
*
106901731 AATGAGTTGTAAAAGAATTTTAAATTACAGTAACTTTTGTGACATGTTTGTAATATATGATATGA
66 AATGAGTTGTAAAAGAATTTTAAATTACAGTAACTTTTGTGACATGTTTATAATATATGATATGA
** * *
106901796 TATTTAGTATGATGAAACCATTGGTATGGGGTAACAAATTTGATTGGAGTATATTTTGTTTAGAA
131 TATTTAGTATGATGAAACCATTGGTATAAGGTAACAAATTTGATTGGAGTACATTCTGTTTAGAA
106901861 AT
196 AT
* *
106901863 TTACTTTACTTATTTGCATAGAAATAGTGAAGAAAGAATAAGAAGAAGAAGGAAGCCATTAGTAA
1 TTACTTTACTTATTTGCACAGAAATAGTGAAGAAAGAATAAGAAGAAAAAGGAAGCCATTAGTAA
* * *
106901928 AATGAGTTGTCAATGAATTTTAAATTATAGTAACTTTTGTGACATGTTTATAATATATGATATGA
66 AATGAGTTGTAAAAGAATTTTAAATTACAGTAACTTTTGTGACATGTTTATAATATATGATATGA
106901993 TATTTAGTATGATGAAACCATTGGTATAAGGTAACAAATTTGATTGGAGTACATTCTGTTTAGAA
131 TATTTAGTATGATGAAACCATTGGTATAAGGTAACAAATTTGATTGGAGTACATTCTGTTTAGAA
106902058 AT
196 AT
106902060 TT
1 TT
106902062 TATCATTGTG
Statistics
Matches: 187, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
197 187 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (197 bp):
TTACTTTACTTATTTGCACAGAAATAGTGAAGAAAGAATAAGAAGAAAAAGGAAGCCATTAGTAA
AATGAGTTGTAAAAGAATTTTAAATTACAGTAACTTTTGTGACATGTTTATAATATATGATATGA
TATTTAGTATGATGAAACCATTGGTATAAGGTAACAAATTTGATTGGAGTACATTCTGTTTAGAA
AT
Found at i:106904539 original size:21 final size:21
Alignment explanation
Indices: 106904513--106904556 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
106904503 CTAAGTCTTC
*
106904513 AATGCTGAGGTGAAATGGTGA
1 AATGCTGAAGTGAAATGGTGA
106904534 AATGCTGAAGTGAAATGGTGA
1 AATGCTGAAGTGAAATGGTGA
106904555 AA
1 AA
106904557 CTCTTGGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.34, T:0.23
Consensus pattern (21 bp):
AATGCTGAAGTGAAATGGTGA
Found at i:106906417 original size:39 final size:39
Alignment explanation
Indices: 106906374--106906512 Score: 215
Period size: 39 Copynumber: 3.6 Consensus size: 39
106906364 CGAAGTTTAG
* * * *
106906374 CTGAAGCACATAAGTGTTAAACGGAAGCCCGGAGGCTAA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTGA
*
106906413 CTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGGCTGA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTGA
106906452 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTGA
1 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTGA
* *
106906491 CTGAAGCACAGAAGTACTAAAC
1 CTGAAGCACACAAGTGCTAAAC
106906513 CCGAAGGCTA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (39 bp):
CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTGA
Found at i:106906440 original size:21 final size:21
Alignment explanation
Indices: 106906376--106906479 Score: 87
Period size: 21 Copynumber: 5.2 Consensus size: 21
106906366 AAGTTTAGCT
* *
106906376 GAAGCACATAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAACG
* *
106906397 GAAGC-C-CGGAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
106906415 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
* * *
106906436 GAAGCCCA-AAG-GCT-GACT
1 GAAGCACACAAGTGCTAAACG
106906454 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
106906475 GAAGC
1 GAAGC
106906480 CCGAAGGCTG
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
18 17 0.27
19 11 0.17
20 13 0.21
21 22 0.35
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:106909217 original size:262 final size:264
Alignment explanation
Indices: 106908724--106909369 Score: 884
Period size: 262 Copynumber: 2.5 Consensus size: 264
106908714 ACAAGTTCAA
*
106908724 TATTGATAACTTGTTGAGAGCAAATGTTGTGCAAGCATGATTTATAGTCCGAGACATATGTGCCT
1 TATTGATAACTTGTTGAGACCAAATGTTGTGCAAGCATGATTTATAGTCCGAGA-ATATGTGCCT
* *
106908789 TCACGTTGATCATTACAAATCATCTTCTAAT-TTTTTTTGCCAGTTGTTCTTGCTTCAGAAAGGT
65 TCACGTTGATCATTACAAATCTTCTTCTAATCTTTTTTTGCCAGTTGTTCTTGCTCCAGAAAGGT
** * * *
106908853 AATAATTTGCCATACCTTATGCGGTGTATTTACATATTTGCCCTTCATAGAATATTGAGGGAGCC
130 AATAATTCACCATACCTTATACGGTGTATTTACATATTTGCCCTTCACAGAATATTGAGGGAACC
* * *
106908918 TCCTTTTGCTTTTCACGCATTCAACCAAAGCTTGAGGGAAGAATAATGTACTTACACACATGAAA
195 TCCCTTTGCTTTTCACACATACAACCAAAGCTTGAGGGAAGAATAATGTACTTACACACATGAAA
106908983 ATAAG
260 ATAAG
* * * * * *
106908988 TATTGATAGCTTGTTGAGACCAAATGTTGTACAAGCACGATTTATAGTCTGAG-ATACGGGCCTT
1 TATTGATAACTTGTTGAGACCAAATGTTGTGCAAGCATGATTTATAGTCCGAGAATATGTGCCTT
* * * *
106909052 CTCGTTGACCATTACAAATCTTCTTCTAATCTTTTTTTGCCAGCTGTTCTTGCTCCAGAAGGGTA
66 CACGTTGATCATTACAAATCTTCTTCTAATCTTTTTTTGCCAGTTGTTCTTGCTCCAGAAAGGTA
* * * * * * *
106909117 ATGATTCATCATACTTTATACGGTGTATTTACGTGTTTGCCTTTTACAGAATATTGA-GGAACCT
131 ATAATTCACCATACCTTATACGGTGTATTTACATATTTGCCCTTCACAGAATATTGAGGGAACCT
* * ** *
106909181 CCCTTTGCTTTTTACACGTACAACCAAAGCTTGAGGGAAGAATAATGTACTTACACATGTGAAAG
196 CCCTTTGCTTTTCACACATACAACCAAAGCTTGAGGGAAGAATAATGTACTTACACACATGAAAA
106909246 TAAG
261 TAAG
* * *
106909250 TATTGATAACTTCTTGACATCAAATGTTGTGCAAGCATGATTTATAGTCCGAGACATATGTGCCT
1 TATTGATAACTTGTTGAGACCAAATGTTGTGCAAGCATGATTTATAGTCCGAGA-ATATGTGCCT
* * * * *
106909315 TCACATTTATCATTATAAATCTTATTCTAATCCTTTTTTGCCAGTTGTTCTTGCT
65 TCACGTTGATCATTACAAATCTTCTTCTAATCTTTTTTTGCCAGTTGTTCTTGCT
106909370 TCAAGCATTG
Statistics
Matches: 329, Mismatches: 50, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
262 149 0.45
263 77 0.23
264 103 0.31
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (264 bp):
TATTGATAACTTGTTGAGACCAAATGTTGTGCAAGCATGATTTATAGTCCGAGAATATGTGCCTT
CACGTTGATCATTACAAATCTTCTTCTAATCTTTTTTTGCCAGTTGTTCTTGCTCCAGAAAGGTA
ATAATTCACCATACCTTATACGGTGTATTTACATATTTGCCCTTCACAGAATATTGAGGGAACCT
CCCTTTGCTTTTCACACATACAACCAAAGCTTGAGGGAAGAATAATGTACTTACACACATGAAAA
TAAG
Found at i:106918623 original size:11 final size:11
Alignment explanation
Indices: 106918607--106918631 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
106918597 GCATGTATAT
106918607 AAAAAAATAAA
1 AAAAAAATAAA
106918618 AAAAAAATAAA
1 AAAAAAATAAA
106918629 AAA
1 AAA
106918632 GGAAAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:106919309 original size:20 final size:20
Alignment explanation
Indices: 106919270--106919309 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
106919260 ATTTTCGTTA
*
106919270 TTACTATTATTAGCATATTT
1 TTACTATTATTAGCAAATTT
106919290 TTACTATTATTTAG-AAATTT
1 TTACTATTA-TTAGCAAATTT
106919310 GTTAGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TTACTATTATTAGCAAATTT
Found at i:106919432 original size:22 final size:22
Alignment explanation
Indices: 106919395--106919451 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
106919385 ATATTTTATG
*
106919395 TATACACAT-TTAAATACTATAT
1 TATACACATATT-AATACCATAT
*
106919417 TATACACATATTAATACCATGT
1 TATACACATATTAATACCATAT
* *
106919439 TATATACCTATTA
1 TATACACATATTA
106919452 TTATATCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (22 bp):
TATACACATATTAATACCATAT
Found at i:106919547 original size:21 final size:20
Alignment explanation
Indices: 106919494--106919547 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 20
106919484 ACTAATATTA
* *
106919494 GTATATGTTTTATTATATAT
1 GTATATATTTAATTATATAT
106919514 GTATATATCTTTAATATATATAT
1 GTATATA--TTTAAT-TATATAT
106919537 GTATATATTTA
1 GTATATATTTA
106919548 TGAAGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 5 0.17
23 14 0.48
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
GTATATATTTAATTATATAT
Found at i:106919676 original size:9 final size:9
Alignment explanation
Indices: 106919662--106919696 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
106919652 TGCTATTACC
106919662 ATTACTATT
1 ATTACTATT
106919671 ATTACTATT
1 ATTACTATT
*
106919680 ATTATTATT
1 ATTACTATT
106919689 ATTA-TATT
1 ATTACTATT
106919697 CTAATCTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 4 0.16
9 21 0.84
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTACTATT
Found at i:106920002 original size:22 final size:23
Alignment explanation
Indices: 106919963--106920007 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
106919953 TACTACCACC
*
106919963 GTTATTTTTATTATCATATTATT
1 GTTATTTTTATTACCATATTATT
106919986 GTTATTTTT-TTACCATATTATT
1 GTTATTTTTATTACCATATTATT
106920008 ATTTCCTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.64
Consensus pattern (23 bp):
GTTATTTTTATTACCATATTATT
Found at i:106920089 original size:3 final size:3
Alignment explanation
Indices: 106920081--106920209 Score: 104
Period size: 3 Copynumber: 43.3 Consensus size: 3
106920071 AATTTCACTT
* * *
106920081 TTA TTA TTA TTA CTA -TA TTA TCA TTT TTA TTA TTA TT- TTCCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA
* * * * * * *
106920126 TTA TTA ATA TTA ATA TTA ATA TTC TTA TTA TTA CTA TTA TTA GTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
106920174 -TA GGTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
106920210 CCTTTTATCA
Statistics
Matches: 99, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
2 7 0.07
3 88 0.89
4 2 0.02
5 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:106922505 original size:27 final size:27
Alignment explanation
Indices: 106922475--106922541 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
106922465 TCAAAGACTT
106922475 GGAATTTGCAATTGTATTATACAGTTG
1 GGAATTTGCAATTGTATTATACAGTTG
106922502 GGAATTTGCAATTGTATTATACAGTTG
1 GGAATTTGCAATTGTATTATACAGTTG
*
106922529 AGAATTTGCAATT
1 GGAATTTGCAATT
106922542 TTATAATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
GGAATTTGCAATTGTATTATACAGTTG
Found at i:106923182 original size:112 final size:112
Alignment explanation
Indices: 106922985--106923209 Score: 423
Period size: 112 Copynumber: 2.0 Consensus size: 112
106922975 ATAATAGGCA
*
106922985 AGTTGATTTTTCCATTGCTTGTATTCTACTTCCCTGAATATGCCCCTCGTATGAACTTCTGTTTG
1 AGTTGATTTTTCCATTGCTTGTATTCTACTTCCCTGAAAATGCCCCTCGTATGAACTTCTGTTTG
* *
106923050 TCTTGATGAATTGCTGGGGTGGCTGGCTTGTGGAAAACTCTGTTTAT
66 TCTTGACGAATTGCTGGGGTGGCTGGCCTGTGGAAAACTCTGTTTAT
106923097 AGTTGATTTTTCCATTGCTTGTATTCTACTTCCCTGAAAATGCCCCTCGTATGAACTTCTGTTTG
1 AGTTGATTTTTCCATTGCTTGTATTCTACTTCCCTGAAAATGCCCCTCGTATGAACTTCTGTTTG
106923162 TCTTGACGAATTGCTGGGGTGGCTGGCCTGTGGAAAACTCTGTTTAT
66 TCTTGACGAATTGCTGGGGTGGCTGGCCTGTGGAAAACTCTGTTTAT
106923209 A
1 A
106923210 ACTGTCTTAT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (112 bp):
AGTTGATTTTTCCATTGCTTGTATTCTACTTCCCTGAAAATGCCCCTCGTATGAACTTCTGTTTG
TCTTGACGAATTGCTGGGGTGGCTGGCCTGTGGAAAACTCTGTTTAT
Found at i:106925071 original size:23 final size:23
Alignment explanation
Indices: 106925052--106925095 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
106925042 ATAATATTAC
* *
106925052 ATAAATATATATACCTATATATA
1 ATAAAGATATATACATATATATA
*
106925075 TTAAAGATATATACATATATA
1 ATAAAGATATATACATATATA
106925096 ATAAAACATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
ATAAAGATATATACATATATATA
Found at i:106925260 original size:26 final size:26
Alignment explanation
Indices: 106925210--106925268 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
106925200 TGAGATAACG
*
106925210 TAAAAATATATGAATAGTATGATATT
1 TAAAAATATATGAATAGTATGATATA
106925236 TAAAAATATAT-ACATA-TAT-ATATA
1 TAAAAATATATGA-ATAGTATGATATA
106925260 TATAAAATA
1 TA-AAAATA
106925269 ATATTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 6 0.20
25 10 0.33
26 14 0.47
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (26 bp):
TAAAAATATATGAATAGTATGATATA
Done.