Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 62 of 343
Found at i:20080113 original size:29 final size:29
Alignment explanation
Indices: 20080065--20080142 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
20080055 TCATGAGATT
20080065 GGCACTAAGTGTGC-AGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGGTTTAAA--GTACA
20080095 -GCACTAAGTGTGCGA-GTTTAAAGTACA
1 GGCACTAAGTGTGCGAGGTTTAAAGTACA
*
20080122 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCGAGGTT
20080143 GATTATTAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
27 5 0.12
29 34 0.79
30 4 0.09
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGGTTTAAAGTACA
Found at i:20080407 original size:174 final size:175
Alignment explanation
Indices: 20080095--20080424 Score: 547
Period size: 174 Copynumber: 1.9 Consensus size: 175
20080085 AAATTGTACA
* *
20080095 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
20080160 TGTGCGAACCCAATATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTC
66 CGTGCGAACCC-ATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
*
20080225 GATTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 AATTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
20080272 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
20080337 CGTGC-AACCC-TATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
66 CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
20080400 ATTTTGGACAGCGGAAAAGGTAAGT
131 ATTTTGGACAGCGGAAAAGGTAAGT
20080425 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
173 11 0.08
174 65 0.45
176 5 0.03
177 63 0.44
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:20088420 original size:29 final size:28
Alignment explanation
Indices: 20088377--20088454 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
20088367 TCATGAGATT
20088377 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
20088407 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
20088434 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
20088455 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:20088720 original size:174 final size:175
Alignment explanation
Indices: 20088407--20088736 Score: 547
Period size: 174 Copynumber: 1.9 Consensus size: 175
20088397 AAATTGTACA
* *
20088407 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
20088472 TGTGCGAACCCAATATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTC
66 CGTGCGAACCC-ATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
*
20088537 GATTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 AATTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
20088584 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
20088649 CGTGC-AACCC-TATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
66 CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
20088712 ATTTTGGACAGCGGAAAAGGTAAGT
131 ATTTTGGACAGCGGAAAAGGTAAGT
20088737 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
173 11 0.08
174 65 0.45
176 5 0.03
177 63 0.44
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:20092231 original size:14 final size:14
Alignment explanation
Indices: 20092212--20092238 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20092202 ATGCTTATCG
20092212 AATAAAAAGATTTA
1 AATAAAAAGATTTA
20092226 AATAAAAAGATTT
1 AATAAAAAGATTT
20092239 TTTTTGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (14 bp):
AATAAAAAGATTTA
Found at i:20099792 original size:16 final size:16
Alignment explanation
Indices: 20099771--20099803 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20099761 TCAGGTAAAC
20099771 GGTGAGGTTAGGATTA
1 GGTGAGGTTAGGATTA
20099787 GGTGAGGTTAGGATTA
1 GGTGAGGTTAGGATTA
20099803 G
1 G
20099804 ACGATGTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.30
Consensus pattern (16 bp):
GGTGAGGTTAGGATTA
Found at i:20101550 original size:29 final size:30
Alignment explanation
Indices: 20101507--20101563 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
20101497 GAATTGGATC
20101507 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
*
20101537 AAATCAAAA-TTCATGTATACAATTGCA
1 AAATCAAAATTTCATGTATAAAATTGCA
20101564 TATTAAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.30
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTGCACA
Found at i:20102112 original size:14 final size:14
Alignment explanation
Indices: 20102095--20102124 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
20102085 ACTATTACAT
20102095 AGCATATATTAACA
1 AGCATATATTAACA
20102109 AGCATATATTAACA
1 AGCATATATTAACA
20102123 AG
1 AG
20102125 ACCGTAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (14 bp):
AGCATATATTAACA
Found at i:20107331 original size:26 final size:24
Alignment explanation
Indices: 20107292--20107355 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
20107282 AGACTCACCA
*
20107292 CAGCTCGTATGAGCTTAGCAATATAT
1 CAGCTCGTAAGAGCTTA-CAAT-TAT
***
20107318 CAGCTCGTAAGAGCTTATTGTTAT
1 CAGCTCGTAAGAGCTTACAATTAT
20107342 CAGCTCGTAAGAGC
1 CAGCTCGTAAGAGC
20107356 GTACTGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 17 0.50
25 1 0.03
26 16 0.47
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACAATTAT
Found at i:20107347 original size:24 final size:24
Alignment explanation
Indices: 20107315--20107383 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
20107305 CTTAGCAATA
20107315 TATCAGCTCGTAAGAGCTTATTGT
1 TATCAGCTCGTAAGAGCTTATTGT
* *
20107339 TATCAGCTCGTAAGAGCGTACTGT
1 TATCAGCTCGTAAGAGCTTATTGT
* * **
20107363 TTTCAACTCGTCGGAGCTTAT
1 TATCAGCTCGTAAGAGCTTAT
20107384 CATTTCAGCT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (24 bp):
TATCAGCTCGTAAGAGCTTATTGT
Found at i:20107419 original size:25 final size:25
Alignment explanation
Indices: 20107388--20107452 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
20107378 GCTTATCATT
*
20107388 TCAGCTCAATAGAGCTTACTG-TCCA
1 TCAGCTCAAAAGAGCTTACTGAT-CA
* *
20107413 TCAGCTCAGGAGGAGCTTACTGATCA
1 TCAGCTCA-AAAGAGCTTACTGATCA
20107439 T-AGCTCAAAAGAGC
1 TCAGCTCAAAAGAGC
20107453 AGAAATGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 5 0.15
25 14 0.42
26 13 0.39
27 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (25 bp):
TCAGCTCAAAAGAGCTTACTGATCA
Found at i:20119494 original size:41 final size:40
Alignment explanation
Indices: 20119408--20119503 Score: 111
Period size: 41 Copynumber: 2.4 Consensus size: 40
20119398 GATAATGTTT
** * * * *
20119408 AGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATAC
1 AGCACTTAGTGTGCGAACTAAGATAGCTTCAGCTAGATAA
* *
20119448 GGCACTTAGTGTGCGAGACTAAGATAGCTTCAGCTAGGTAA
1 AGCACTTAGTGTGCGA-ACTAAGATAGCTTCAGCTAGATAA
20119489 AGCACTTAGTGTGCG
1 AGCACTTAGTGTGCG
20119504 GAATTATAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 15 0.33
41 31 0.67
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (40 bp):
AGCACTTAGTGTGCGAACTAAGATAGCTTCAGCTAGATAA
Found at i:20119605 original size:70 final size:70
Alignment explanation
Indices: 20119492--20119627 Score: 227
Period size: 70 Copynumber: 1.9 Consensus size: 70
20119482 TAGGTAAAGC
* * * *
20119492 ACTTAGTGTGCGGAATTATAATAGCTTTGGCTATGCGATGGCACTTAGTGTGCGAAACATCGAGT
1 ACTTAGTGTGCAGAATTATAAAAGCTTCGGCTATGCGATGGCACTTAGTGTACGAAACATCGAGT
20119557 AAGGA
66 AAGGA
*
20119562 ACTTAGTGTGCAGAATTATAAAAGCTTCGGCTATTCGATGGCACTTAGTGTACGAAACATCGAGT
1 ACTTAGTGTGCAGAATTATAAAAGCTTCGGCTATGCGATGGCACTTAGTGTACGAAACATCGAGT
20119627 A
66 A
20119628 TTTGACAGTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (70 bp):
ACTTAGTGTGCAGAATTATAAAAGCTTCGGCTATGCGATGGCACTTAGTGTACGAAACATCGAGT
AAGGA
Found at i:20125996 original size:74 final size:74
Alignment explanation
Indices: 20125836--20125984 Score: 201
Period size: 74 Copynumber: 2.0 Consensus size: 74
20125826 ATATTAATTC
* * *
20125836 ACATACTGTAAATACCAAAAATAATATTAAAATATTTTTTACTCGAATTAGTGGTCCTAAAACCA
1 ACATACTCTAAACACCAAAAATAATATTAAAATATTTTTTACTCGAATTAGTGGTCCCAAAACCA
* **
20125901 CTATTTTGA
66 CTAGTTCCA
* * * *
20125910 ACATACTGTAAACACCAAAAATAATATTAAAATATTTTTTACTCGAATTTGTGGTCCCGAAACTA
1 ACATACTCTAAACACCAAAAATAATATTAAAATATTTTTTACTCGAATTAGTGGTCCCAAAACCA
20125975 CT-GTTCCA
66 CTAGTTCCA
20125983 AC
1 AC
20125985 TAGGGTCTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 5 0.07
74 62 0.93
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (74 bp):
ACATACTCTAAACACCAAAAATAATATTAAAATATTTTTTACTCGAATTAGTGGTCCCAAAACCA
CTAGTTCCA
Found at i:20132714 original size:34 final size:34
Alignment explanation
Indices: 20132661--20132728 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
20132651 AGAGTAGTAG
*
20132661 GGTCAATCCTACAAGGACTGGGATTCTTAATTTT
1 GGTCAATCCCACAAGGACTGGGATTCTTAATTTT
*
20132695 GGTCGATCCCACAAGGACTGGGATTCTTAATTTT
1 GGTCAATCCCACAAGGACTGGGATTCTTAATTTT
20132729 CCTGTTTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (34 bp):
GGTCAATCCCACAAGGACTGGGATTCTTAATTTT
Found at i:20141075 original size:25 final size:25
Alignment explanation
Indices: 20141041--20141091 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
20141031 GCAACTGTAA
20141041 AATACATATTTCCATCTTATATGAT
1 AATACATATTTCCATCTTATATGAT
20141066 AATACATATTTCCATCTTATATGAT
1 AATACATATTTCCATCTTATATGAT
20141091 A
1 A
20141092 CATCAGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (25 bp):
AATACATATTTCCATCTTATATGAT
Found at i:20141598 original size:47 final size:47
Alignment explanation
Indices: 20141516--20141705 Score: 236
Period size: 47 Copynumber: 4.0 Consensus size: 47
20141506 TAAAGATGAG
* * * * *
20141516 ATTGTTCGCACGATTTATAGCCATTTCTACTGAAGTTTCATTGTGAT
1 ATTGTTAGCACGATTTATAGCCATTTCTCCAGAAGTTGCACTGTGAT
*
20141563 ATAGTTAGCACGATTTATAGCCATTTCTCCAGAAGTTGCACTGTGAT
1 ATTGTTAGCACGATTTATAGCCATTTCTCCAGAAGTTGCACTGTGAT
* ** * *
20141610 ATTGTTAGCATGATTTATAGCTGTTTTTCCAGAAGTTGCACTGTAAT
1 ATTGTTAGCACGATTTATAGCCATTTCTCCAGAAGTTGCACTGTGAT
* * * * *
20141657 ATTGTTCGCACTATTTATAGCCATTTCTCCAAAAATTACACTGTGAT
1 ATTGTTAGCACGATTTATAGCCATTTCTCCAGAAGTTGCACTGTGAT
20141704 AT
1 AT
20141706 GGGTTCTCTT
Statistics
Matches: 121, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 121 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.39
Consensus pattern (47 bp):
ATTGTTAGCACGATTTATAGCCATTTCTCCAGAAGTTGCACTGTGAT
Found at i:20142732 original size:29 final size:30
Alignment explanation
Indices: 20142689--20142747 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
20142679 TAATTGGGTC
*
20142689 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTGCACA
*
20142719 AAATC-AAAGTTCATGTATACAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTGCACA
20142748 TTAAATATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTGCACA
Found at i:20143744 original size:16 final size:16
Alignment explanation
Indices: 20143714--20143780 Score: 73
Period size: 16 Copynumber: 4.2 Consensus size: 16
20143704 TGGTTCACTA
*
20143714 TAATGGAATAAAGCTG
1 TAATTGAATAAAGCTG
* *
20143730 AAATTGAATAGAGCTG
1 TAATTGAATAAAGCTG
**
20143746 TAA-TGAATGGAGCTG
1 TAATTGAATAAAGCTG
*
20143761 TAATGGAATAAAGCTG
1 TAATTGAATAAAGCTG
20143777 TAAT
1 TAAT
20143781 CAGTAATTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
15 14 0.33
16 28 0.67
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.27
Consensus pattern (16 bp):
TAATTGAATAAAGCTG
Found at i:20144022 original size:58 final size:58
Alignment explanation
Indices: 20143960--20144081 Score: 165
Period size: 58 Copynumber: 2.1 Consensus size: 58
20143950 TTTGAAAGAT
* * *
20143960 TATTATTAAAAATAATTTGATAAATATAATAAATAATTTAATCATATT-TTAACATAAC
1 TATTATTAAAAATAATTTAATAAA-ATAATAAATAATTTAATAAAATTCTTAACATAAC
* * * *
20144018 TATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATAAT
1 TATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATAAC
20144076 TATTAT
1 TATTAT
20144082 ATGAATTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 20 0.36
58 36 0.64
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (58 bp):
TATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATAAC
Found at i:20145910 original size:27 final size:28
Alignment explanation
Indices: 20145865--20145921 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
20145855 TAATTATTTT
*
20145865 TTTATAGTATAATAGCTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
*
20145893 TTTATA-TTTAATAACTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
20145920 TT
1 TT
20145922 CCATTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTATAGTATAATAACTAGAACTAATTA
Found at i:20146039 original size:15 final size:17
Alignment explanation
Indices: 20146019--20146050 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20146009 TCATTTCATT
20146019 TATAT-AAT-CATAAAA
1 TATATAAATGCATAAAA
20146034 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
20146051 AGATTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:20146202 original size:17 final size:17
Alignment explanation
Indices: 20146180--20146218 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
20146170 AATTTAGATG
*
20146180 TAAAATATACTA-AAATA
1 TAAAATAAACTAGAAA-A
20146197 TAAAATAAACTAGAAAA
1 TAAAATAAACTAGAAAA
20146214 TAAAA
1 TAAAA
20146219 ATGGAGTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAATAAACTAGAAAA
Found at i:20146310 original size:19 final size:20
Alignment explanation
Indices: 20146288--20146340 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
20146278 ATAAAAAAAG
*
20146288 ATATTAAATATAT-ATAAAT
1 ATATTAAATAAATAATAAAT
*
20146307 ATA-TAGATAAATAATAAAT
1 ATATTAAATAAATAATAAAT
*
20146326 ATATATTAATAAATA
1 ATAT-TAAATAAATA
20146341 TATATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.26
19 12 0.44
21 8 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATATTAAATAAATAATAAAT
Found at i:20146322 original size:25 final size:23
Alignment explanation
Indices: 20146294--20146356 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 23
20146284 AAAGATATTA
20146294 AATATATATAAATATATAGATAAAT
1 AATATATATAAATAT-TA-ATAAAT
*
20146319 AATA-A-ATATATATTAATAAAT
1 AATATATATAAATATTAATAAAT
*
20146340 -ATATATA-AAATTTTAAT
1 AATATATATAAATATTAAT
20146357 TTAAAACGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.09
21 15 0.45
22 3 0.09
23 7 0.21
24 1 0.03
25 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
AATATATATAAATATTAATAAAT
Found at i:20146446 original size:14 final size:14
Alignment explanation
Indices: 20146427--20146468 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
20146417 TCTACCATTA
20146427 TTATATTAAATATG
1 TTATATTAAATATG
*
20146441 TTATATTTATATAT-
1 TTATA-TTAAATATG
*
20146455 TTATATTAAGTATG
1 TTATATTAAATATG
20146469 GCATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.26
14 10 0.43
15 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATATTAAATATG
Found at i:20146530 original size:13 final size:13
Alignment explanation
Indices: 20146514--20146541 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20146504 ATTCGAGTCT
20146514 ATAATTCATATTA
1 ATAATTCATATTA
20146527 ATAATTCATATTA
1 ATAATTCATATTA
20146540 AT
1 AT
20146542 TATGAATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATTCATATTA
Found at i:20146734 original size:16 final size:16
Alignment explanation
Indices: 20146713--20146763 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
20146703 TTTCTAGTAT
* *
20146713 TTTATTTCCTAGCGTG
1 TTTATTTACTAGCGTA
20146729 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
20146745 TTTATTTACTAGCGTA
1 TTTATTTACTAGCGTA
20146761 TTT
1 TTT
20146764 GCTCTTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTATTTACTAGCGTA
Found at i:20150688 original size:21 final size:24
Alignment explanation
Indices: 20150662--20150707 Score: 71
Period size: 21 Copynumber: 2.0 Consensus size: 24
20150652 GGGTTCTTTA
20150662 TCATTT-TCATT-TTTTA-ATGAT
1 TCATTTCTCATTCTTTTATATGAT
20150683 TCATTTCTCATTCTTTTATATGAT
1 TCATTTCTCATTCTTTTATATGAT
20150707 T
1 T
20150708 TTTATGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 5 0.23
23 5 0.23
24 6 0.27
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.61
Consensus pattern (24 bp):
TCATTTCTCATTCTTTTATATGAT
Found at i:20159575 original size:25 final size:24
Alignment explanation
Indices: 20159522--20159575 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
20159512 ACCAAGATTG
*
20159522 ATAAA-AAAAATCTAGAATCTAAT
1 ATAAATAAAAAACTAGAATCTAAT
*
20159545 AAAAATAAAAAACATAGAATACTAA-
1 ATAAATAAAAAAC-TAGAAT-CTAAT
20159570 ATAAAT
1 ATAAAT
20159576 TTTTTAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 4 0.16
24 6 0.24
25 11 0.44
26 4 0.16
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (24 bp):
ATAAATAAAAAACTAGAATCTAAT
Found at i:20168895 original size:7 final size:7
Alignment explanation
Indices: 20168883--20168915 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
20168873 TTAATTCAAA
20168883 AGGGTTT
1 AGGGTTT
20168890 AGGGTTT
1 AGGGTTT
20168897 AGGGTTT
1 AGGGTTT
20168904 AGGGTTT
1 AGGGTTT
20168911 AGGGT
1 AGGGT
20168916 ATATCGCCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.39
Consensus pattern (7 bp):
AGGGTTT
Found at i:20178840 original size:40 final size:40
Alignment explanation
Indices: 20178773--20178949 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
20178763 ACCCAAGTAT
*
20178773 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
20178812 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * * *
20178852 CTTCGAGTCTTAGCCCGAATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
20178892 CTTCGGGACATAGCCCGAATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
20178932 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
20178950 TTATCATCCG
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 100 0.86
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:20199888 original size:31 final size:31
Alignment explanation
Indices: 20199850--20199911 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
20199840 ACACCATACA
20199850 TAGCTTTGAAACATTACATCATAATCATTTT
1 TAGCTTTGAAACATTACATCATAATCATTTT
20199881 TAGCTTTGAAACATTACATCATAATCATTTT
1 TAGCTTTGAAACATTACATCATAATCATTTT
20199912 CCTAATACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (31 bp):
TAGCTTTGAAACATTACATCATAATCATTTT
Found at i:20206924 original size:16 final size:18
Alignment explanation
Indices: 20206898--20206933 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
20206888 ATTATTAAAT
20206898 TTGAATATTAAAATT-TA
1 TTGAATATTAAAATTATA
20206915 TTGAAT-TTAAAATTATA
1 TTGAATATTAAAATTATA
20206932 TT
1 TT
20206934 ATTTATGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TTGAATATTAAAATTATA
Found at i:20206945 original size:24 final size:24
Alignment explanation
Indices: 20206910--20206956 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
20206900 GAATATTAAA
20206910 ATTTATTGAATTTAAAATTATATT
1 ATTTATTGAATTTAAAATTATATT
**
20206934 ATTTA-TGCAATTTTGAATTATAT
1 ATTTATTG-AATTTAAAATTATAT
20206957 AGTTTAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.53
Consensus pattern (24 bp):
ATTTATTGAATTTAAAATTATATT
Found at i:20219755 original size:21 final size:21
Alignment explanation
Indices: 20219731--20219807 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
20219721 CCTTAATTTG
*
20219731 AGTTCTTGAACCCTCCTAATA
1 AGTTCTTAAACCCTCCTAATA
* * * *
20219752 AGTTTTTAAACCCATGTCT-TTG
1 AGTTCTTAAACCC-T-CCTAATA
*
20219774 AGTTCTTGAACCCTCCTAATA
1 AGTTCTTAAACCCTCCTAATA
*
20219795 AGTTTTTAAACCC
1 AGTTCTTAAACCC
20219808 ATGTCAATTA
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
20 2 0.05
21 24 0.59
22 13 0.32
23 2 0.05
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (21 bp):
AGTTCTTAAACCCTCCTAATA
Found at i:20219777 original size:43 final size:43
Alignment explanation
Indices: 20219727--20219812 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
20219717 CTAGCCTTAA
20219727 TTTGAGTTCTTGAACCCTCCTAATAAGTTTTTAAACCCATGTC
1 TTTGAGTTCTTGAACCCTCCTAATAAGTTTTTAAACCCATGTC
20219770 TTTGAGTTCTTGAACCCTCCTAATAAGTTTTTAAACCCATGTC
1 TTTGAGTTCTTGAACCCTCCTAATAAGTTTTTAAACCCATGTC
20219813 AATTATGGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.40
Consensus pattern (43 bp):
TTTGAGTTCTTGAACCCTCCTAATAAGTTTTTAAACCCATGTC
Found at i:20220939 original size:29 final size:28
Alignment explanation
Indices: 20220897--20220955 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 28
20220887 TATCGAGGGG
*
20220897 ATTGGTGATTTTATCGCATATTATATGTT
1 ATTGGTGATTTTATCACAT-TTATATGTT
*
20220926 ATTGGTGATTTTATCACATTTGTATGTT
1 ATTGGTGATTTTATCACATTTATATGTT
20220954 AT
1 AT
20220956 ACGAAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.53
Consensus pattern (28 bp):
ATTGGTGATTTTATCACATTTATATGTT
Found at i:20224990 original size:16 final size:16
Alignment explanation
Indices: 20224969--20225001 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20224959 AAACATGGAG
20224969 TATGTTAGGTGAGGCA
1 TATGTTAGGTGAGGCA
20224985 TATGTTAGGTGAGGCA
1 TATGTTAGGTGAGGCA
20225001 T
1 T
20225002 TGGCCATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.36, T:0.33
Consensus pattern (16 bp):
TATGTTAGGTGAGGCA
Found at i:20226910 original size:40 final size:40
Alignment explanation
Indices: 20226856--20226973 Score: 209
Period size: 40 Copynumber: 3.0 Consensus size: 40
20226846 CGGATGTAAC
* *
20226856 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
20226896 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAGT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
20226936 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
20226974 TTTTTTTTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:20230941 original size:58 final size:57
Alignment explanation
Indices: 20230849--20231050 Score: 271
Period size: 58 Copynumber: 3.5 Consensus size: 57
20230839 TTTGATGGTA
*
20230849 AAAAGGATCTAG-CTCGGACGGGTGATCCTGATATAATCCCTCACGAAGAATATGTGTG
1 AAAAGGATCTAGCCT-GGACGGGTGATCCTGATATAAGCCCTC-CGAAGAATATGTGTG
* * *
20230907 AAAAGGATCTAGCCTAGACGAGTGATCCTAATATAAGCCCTCCTGAAGAATATGTGTG
1 AAAAGGATCTAGCCTGGACGGGTGATCCTGATATAAGCCCTCC-GAAGAATATGTGTG
* *
20230965 AAAAGGATCTAGCCCGGACGGGTGATCCTGATATAAGCCTTCCCGAAGAATATGTGTG
1 AAAAGGATCTAGCCTGGACGGGTGATCCTGATATAAGCCCT-CCGAAGAATATGTGTG
* * * *
20231023 AAATGGATTTAGCCCGGACGGGTAATCC
1 AAAAGGATCTAGCCTGGACGGGTGATCC
20231051 GAAGTAAATG
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
57 1 0.01
58 124 0.96
59 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (57 bp):
AAAAGGATCTAGCCTGGACGGGTGATCCTGATATAAGCCCTCCGAAGAATATGTGTG
Found at i:20231297 original size:67 final size:66
Alignment explanation
Indices: 20231177--20231307 Score: 194
Period size: 67 Copynumber: 2.0 Consensus size: 66
20231167 CATATGTTAC
20231177 AGGGGATTTAGCCTGGACTAGTAATCTCGCTGTAAGAAATGAGGTTCATGGGAGTGTGCTCTCTT
1 AGGGGATTTAGCCTGGACTAGTAATCTCGCTGTAAGAAATGAGGTTCA-GGGAGTGTGCTCTCTT
20231242 AT
65 AT
* *
20231244 AGGGGATTTAGCCTGGACTGGTAATC-CTGCTGTAAGAAATGAGGCTTGC-GGGAGTGTGTTCTC
1 AGGGGATTTAGCCTGGACTAGTAATCTC-GCTGTAAGAAATGAGG-TT-CAGGGAGTGTGCTCTC
20231307 T
63 T
20231308 GAAAAGGACT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
66 1 0.02
67 55 0.93
68 2 0.03
69 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.31
Consensus pattern (66 bp):
AGGGGATTTAGCCTGGACTAGTAATCTCGCTGTAAGAAATGAGGTTCAGGGAGTGTGCTCTCTTA
T
Found at i:20232565 original size:14 final size:15
Alignment explanation
Indices: 20232546--20232579 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
20232536 TAAAATATTT
20232546 AAATAAATAAA-TAA
1 AAATAAATAAATTAA
20232560 AAATAAATAAATTAA
1 AAATAAATAAATTAA
20232575 AAATA
1 AAATA
20232580 TTCTCCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATAAATTAA
Found at i:20233259 original size:18 final size:18
Alignment explanation
Indices: 20233236--20233272 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20233226 TAAAATTTTC
20233236 TTGTTATAAATATTTACT
1 TTGTTATAAATATTTACT
20233254 TTGTTATAAATATTTACT
1 TTGTTATAAATATTTACT
20233272 T
1 T
20233273 ATTCTACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
TTGTTATAAATATTTACT
Found at i:20238103 original size:46 final size:44
Alignment explanation
Indices: 20238011--20238103 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
20238001 TTACAACATT
* *
20238011 ATTCCATTCAACCAAATACAAGAATACTATTACAGTTCTATTCC
1 ATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTCC
*** *
20238055 ATTCCATTCAACCAAACAGTTGAATTACTTATTATAGCTCTATTCC
1 ATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGCTCTATTCC
20238101 ATT
1 ATT
20238104 ACAGCTCTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 20 0.49
45 3 0.07
46 18 0.44
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (44 bp):
ATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTCC
Found at i:20238109 original size:16 final size:16
Alignment explanation
Indices: 20238085--20238139 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
20238075 TGAATTACTT
*
20238085 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
20238101 ATTACAGCTCTGTTCC
1 ATTACAGCTCTATTCC
* *
20238117 ATTACAACCCTATTCC
1 ATTACAGCTCTATTCC
20238133 ATTACAG
1 ATTACAG
20238140 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:20238406 original size:29 final size:30
Alignment explanation
Indices: 20238363--20238443 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
20238353 GAATTGGATC
*
20238363 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATC-AAAGTTCATGTATAAAATTGCACAT
*
20238393 AAATCAAAGTTCATGTATACAATTGCACATT
1 AAATCAAAGTTCATGTATAAAATTGCACA-T
* *
20238424 AAACCATAGTTCATGTATAA
1 AAATCAAAGTTCATGTATAA
20238444 TTTTGAGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 22 0.50
30 5 0.11
31 17 0.39
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTGCACAT
Found at i:20238907 original size:54 final size:55
Alignment explanation
Indices: 20238839--20238971 Score: 139
Period size: 54 Copynumber: 2.5 Consensus size: 55
20238829 TGCCAGGCCA
* * *
20238839 TGTAAC-TTTCGAAATGATGCCACACGGCCATGTCGCTAGCTGA-GCGCTAGTACG
1 TGTAACATTTCGAAATAACGCCACACGGCCATGTCGCTAGCT-ACGCGCTAGCACG
* * * * *
20238893 TGTAACATTT-GAAATAACGCCACACGGTCGTGTCGCTGGCTACGTGCTAGCCCG
1 TGTAACATTTCGAAATAACGCCACACGGCCATGTCGCTAGCTACGCGCTAGCACG
* *
20238947 TGTAACA-TTCAAAATAACACCACAC
1 TGTAACATTTCGAAATAACGCCACAC
20238972 AGTCGTGTCG
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
53 3 0.05
54 60 0.91
55 3 0.05
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (55 bp):
TGTAACATTTCGAAATAACGCCACACGGCCATGTCGCTAGCTACGCGCTAGCACG
Found at i:20240688 original size:18 final size:18
Alignment explanation
Indices: 20240652--20240768 Score: 157
Period size: 18 Copynumber: 6.5 Consensus size: 18
20240642 AATCATATCT
*
20240652 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
20240671 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
20240689 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
20240706 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
20240724 TCTAAGATTGC-CTCATA
1 TCTAAGATTGCAATCATA
* *
20240741 TCTAAGATTCCATATCACA
1 TCTAAGATTGCA-ATCATA
20240760 TCTAAGATT
1 TCTAAGATT
20240769 TCATATCATT
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
17 31 0.35
18 33 0.38
19 24 0.27
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:20240710 original size:35 final size:35
Alignment explanation
Indices: 20240652--20240768 Score: 171
Period size: 35 Copynumber: 3.3 Consensus size: 35
20240642 AATCATATCT
20240652 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
20240689 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
** * *
20240724 TCTAAGATTGCCTCATATCTAAGATTCCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
20240760 TCTAAGATT
1 TCTAAGATT
20240769 TCATATCATT
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
35 51 0.68
36 14 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:20241622 original size:207 final size:207
Alignment explanation
Indices: 20241165--20242298 Score: 1874
Period size: 207 Copynumber: 5.5 Consensus size: 207
20241155 AAATCTGCTT
* * * *
20241165 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * * *
20241230 GCGAAAGGCAAATCAGCTATGTCTTCAATTTTCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * *
20241295 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
20241359 GGAGACACCAAA
196 GGAGACGCCAAA
*
20241371 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
20241436 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCTAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
20241501 GGATCTTGCTTCAGTATAAACACCTGAAGGCCAAATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
20241566 GGAGACGCCAAA
196 GGAGACGCCAAA
*
20241578 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGGCTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
** *
20241643 GTGAAAGCCAAATCAGCTATGTCTTCGATTTATTCCTTGTAAGCACAAGGATGTCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
20241708 GGATTTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
20241773 GGAGACGCCAAA
196 GGAGACGCCAAA
* * *
20241785 CTTCGATTTGTTCTCTAACAATACAGAGATGTCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
20241850 GTGAAAGCCAAATAAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
20241915 GGATTTTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
20241980 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
20241992 CTTCGATTTGTTCTCTGACAATACAGAGATGGCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * *
20242057 GTGAAAGCCAAATAAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
20242122 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTTCTATGTGTCTGCCCTCCATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
20242187 GGAGACGCCAAA
196 GGAGACGCCAAA
*
20242199 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
20242264 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
20242299 TCCGTTGAAT
Statistics
Matches: 875, Mismatches: 52, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
206 123 0.14
207 752 0.86
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:20242619 original size:84 final size:84
Alignment explanation
Indices: 20242417--20242622 Score: 308
Period size: 84 Copynumber: 2.5 Consensus size: 84
20242407 TCTGCTATAC
*
20242417 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGACGCATCTTCGATCTACTCGACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTACTCGACTACTGCTTA
* *
20242482 TGGAGATAAGATCCGCAAT
66 GGGAGATAAGATCCGCAAA
* * *
20242501 TTTGACCTATTACCCTACTGCTTAGGGGGTTAAGGCG-AGTCTTCGATCTGCTTC-ACTACTGCT
1 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTAC-TCGACTACTGCT
*
20242564 TAGGGAGATAAGATCTGCAAA
64 TAGGGAGATAAGATCCGCAAA
*
20242585 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGC
20242623 TGAATTTTGT
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
83 1 0.01
84 106 0.97
85 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCATCTTCGATCTACTCGACTACTGCTTA
GGGAGATAAGATCCGCAAA
Found at i:20243582 original size:7 final size:7
Alignment explanation
Indices: 20243570--20243635 Score: 66
Period size: 7 Copynumber: 9.4 Consensus size: 7
20243560 CGCCTCTCCA
20243570 TTTTTCT
1 TTTTTCT
20243577 TTTTTCT
1 TTTTTCT
20243584 TTTTTCT
1 TTTTTCT
*
20243591 CTTTTTAT
1 -TTTTTCT
20243599 TTTCTT-T
1 TTT-TTCT
20243606 TATTTTCT
1 T-TTTTCT
20243614 TTTTTC-
1 TTTTTCT
*
20243620 TTCTTCT
1 TTTTTCT
20243627 TTTTT-T
1 TTTTTCT
20243633 TTT
1 TTT
20243636 GAAATAGAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
6 9 0.18
7 30 0.59
8 12 0.24
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:20243603 original size:20 final size:21
Alignment explanation
Indices: 20243578--20243631 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
20243568 CATTTTTCTT
20243578 TTTTCTTTTTTCTC-TTTTTA
1 TTTTCTTTTTTCTCTTTTTTA
* *
20243598 TTTTCTTTTATTTTCTTTTTTC
1 TTTTCTTTT-TTCTCTTTTTTA
20243620 TTCTTCTTTTTT
1 TT-TTCTTTTTT
20243632 TTTTGAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 9 0.31
21 4 0.14
22 9 0.31
23 7 0.24
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTCTTTTTTCTCTTTTTTA
Found at i:20243611 original size:23 final size:23
Alignment explanation
Indices: 20243585--20243634 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
20243575 CTTTTTTCTT
20243585 TTTTCTCTTTTTATT-TTCTTTTA
1 TTTTCT-TTTTTATTCTTCTTTTA
* *
20243608 TTTTCTTTTTTCTTCTTCTTTTT
1 TTTTCTTTTTTATTCTTCTTTTA
20243631 TTTT
1 TTTT
20243635 TGAAATAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTCTTTTTTATTCTTCTTTTA
Found at i:20243623 original size:10 final size:9
Alignment explanation
Indices: 20243576--20243635 Score: 59
Period size: 10 Copynumber: 6.2 Consensus size: 9
20243566 TCCATTTTTC
20243576 TTTTTTCTT
1 TTTTTTCTT
*
20243585 TTTTCTCTTT
1 TTTTTTC-TT
20243595 TTATTTTCTT
1 TT-TTTTCTT
20243605 TTATTTTCTT
1 TT-TTTTCTT
20243615 TTTTCTTCTT
1 TTTT-TTCTT
20243625 CTTTTTT-TT
1 -TTTTTTCTT
20243634 TT
1 TT
20243636 GAAATAGAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
8 2 0.04
9 10 0.22
10 25 0.56
11 8 0.18
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:20245395 original size:24 final size:24
Alignment explanation
Indices: 20245345--20245425 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
20245335 CTGGAGGCCT
*
20245345 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAAGAACTGGGGCATA
*
20245369 AGCCCTTTTCAGAACTGGGGCATA
1 AGCCCTTTTAAGAACTGGGGCATA
*
20245393 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAAGAACTGGGGCATA
20245417 AGCCCTTTT
1 AGCCCTTTT
20245426 GTACTTCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 16 0.31
24 36 0.69
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAAGAACTGGGGCATA
Found at i:20245500 original size:20 final size:20
Alignment explanation
Indices: 20245475--20245541 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
20245465 TTATGAATAC
*
20245475 ATCATGTGCATATCATCCAG
1 ATCATGTGCATATCATACAG
*
20245495 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAG
20245515 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAG
20245535 ATCATGT
1 ATCATGT
20245542 ATATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAG
Found at i:20245509 original size:11 final size:11
Alignment explanation
Indices: 20245475--20245530 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
20245465 TTATGAATAC
20245475 ATCATGTGCAT
1 ATCATGTGCAT
* *
20245486 ATCA--TCCAG
1 ATCATGTGCAT
20245495 ATCATGTGCAT
1 ATCATGTGCAT
*
20245506 ATCA--TACAT
1 ATCATGTGCAT
20245515 ATCATGTGCAT
1 ATCATGTGCAT
20245526 ATCAT
1 ATCAT
20245531 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:20251903 original size:24 final size:24
Alignment explanation
Indices: 20251839--20251933 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
20251829 GCTTTATCAT
*
20251839 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
20251864 ATAACTGGGGCA-AAGCCCTTTTC
1 ATAACTGGGGCATAAGCCCTTTTA
*
20251887 ATAACTGGGGCATAAGCTCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
20251911 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
20251934 GTACTTCCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.27
24 38 0.60
25 8 0.13
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:20251910 original size:47 final size:49
Alignment explanation
Indices: 20251839--20251933 Score: 151
Period size: 47 Copynumber: 2.0 Consensus size: 49
20251829 GCTTTATCAT
*
20251839 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTC
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTC
20251887 ATAACTGG-GGCATAAG-CTCTTTTAATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTTT
20251934 GTACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 24 0.55
48 20 0.45
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTC
Found at i:20252008 original size:20 final size:20
Alignment explanation
Indices: 20251983--20252029 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
20251973 TTATGAATAC
20251983 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
20252002 GATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
20252023 ATCATGT
1 ATCATGT
20252030 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:20258839 original size:35 final size:35
Alignment explanation
Indices: 20258781--20258898 Score: 182
Period size: 35 Copynumber: 3.3 Consensus size: 35
20258771 AATCATATCT
20258781 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
20258818 TCTAAGATTGTATCATATCTAAGATTGAAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
20258853 TCTAAGATTGTATCATATCTAAGATTCCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
20258889 TCTAAGATTG
1 TCTAAGATTG
20258899 CATATCATTG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
35 51 0.67
36 15 0.20
37 10 0.13
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:20265218 original size:16 final size:17
Alignment explanation
Indices: 20265184--20265219 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
20265174 TTCCTTTGGT
20265184 TTTACTTTAATCTAAAA
1 TTTACTTTAATCTAAAA
20265201 TTTACTTTAATC-AAAA
1 TTTACTTTAATCTAAAA
20265217 TTT
1 TTT
20265220 TAACAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTACTTTAATCTAAAA
Found at i:20270225 original size:16 final size:17
Alignment explanation
Indices: 20270204--20270237 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20270194 AATTTCTAGA
20270204 AAAATTA-TTAATTGAG
1 AAAATTACTTAATTGAG
20270220 AAAATTATCTTAATTGAG
1 AAAATTA-CTTAATTGAG
20270238 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAATTACTTAATTGAG
Found at i:20271380 original size:50 final size:51
Alignment explanation
Indices: 20271303--20271431 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
20271293 GACCATGGCA
20271303 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
* *
20271354 A-AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
20271404 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
20271432 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:20271445 original size:31 final size:31
Alignment explanation
Indices: 20271407--20271585 Score: 281
Period size: 31 Copynumber: 5.8 Consensus size: 31
20271397 ACAAATGACA
20271407 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
20271438 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
20271469 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CAGCTACCTGATC
*
20271500 AGTG-AAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
20271530 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
20271561 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
20271586 AAGTGACAAG
Statistics
Matches: 136, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
30 28 0.21
31 108 0.79
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:20271521 original size:92 final size:93
Alignment explanation
Indices: 20271407--20271575 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 93
20271397 ACAAATGACA
* * *
20271407 AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAATGGTAGCTCCAGCTACCTGATCAGT
20271472 GAAAAGTGGTAGTTCCGGCTACCTGATC
66 GAAAAGTGGTAGTTCCGGCTACCTGATC
*
20271500 AGTG-AAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAATGGTAGCTCCAGCTACCTGATCAGT
*
20271564 GAATAGTGGTAG
66 GAAAAGTGGTAG
20271576 CTTCAGCTAC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 67 0.94
93 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (93 bp):
AGTGAAAAGTGGTAGCTCCAGCTACCTGATCAGTGAAAAATGGTAGCTCCAGCTACCTGATCAGT
GAAAAGTGGTAGTTCCGGCTACCTGATC
Found at i:20271537 original size:61 final size:61
Alignment explanation
Indices: 20271407--20271585 Score: 288
Period size: 61 Copynumber: 2.9 Consensus size: 61
20271397 ACAAATGACA
*
20271407 AGTGAAAAGTGGTAGCTT-CAGCTACCTGATCAGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATCAGTG-AAAGTGGTAGCTTCAGCTACCTGATC
*
20271469 AGTGAAAAGTGGTAGTTCCGGCTACCTGATCAGTGAAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGTTCCGGCTACCTGATCAGTGAAAGTGGTAGCTTCAGCTACCTGATC
* *
20271530 AGTGAAAAATGGTAGCTCCGGCTACCTGATCAGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGTTCCGGCTACCTGATCAGTGAA-AGTGGTAGCTTCAGCTAC
20271586 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
61 62 0.56
62 48 0.44
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (61 bp):
AGTGAAAAGTGGTAGTTCCGGCTACCTGATCAGTGAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:20271681 original size:47 final size:46
Alignment explanation
Indices: 20271612--20271774 Score: 147
Period size: 47 Copynumber: 3.6 Consensus size: 46
20271602 GTGATTTCCA
* *
20271612 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATAC-G
* * * *
20271659 TATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTCG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACG
* * * * *
20271705 TGTAAGACCATAGCTGGGCTAGGGCATC-----GATATATGAATATG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATACG
* * *
20271747 TGTAAGACCATAGCTGGGCTATGGCATC
1 TATAAGACCATATCTGGGATATGGCATC
20271775 ATTATGTGAA
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 7 0.07
42 30 0.30
46 24 0.24
47 39 0.39
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACG
Found at i:20271811 original size:42 final size:42
Alignment explanation
Indices: 20271704--20271818 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
20271694 TATGTGATTC
* *
20271704 GTGTAAGACCATAGCTGGGCTAGGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
*
20271746 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
* * **
20271788 GTGTAAGTCCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
20271819 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:20272897 original size:20 final size:20
Alignment explanation
Indices: 20272872--20272951 Score: 121
Period size: 20 Copynumber: 4.2 Consensus size: 20
20272862 TATCTTACAT
**
20272872 GCCCGTGTGCAACTTCACAC
1 GCCCGTGTGCGTCTTCACAC
20272892 GCCCGTGTGCGTCTTCACAC
1 GCCCGTGTGCGTCTTCACAC
20272912 GCCCGTGTGCGTCTTCACA-
1 GCCCGTGTGCGTCTTCACAC
20272931 --CCGTGTGCGTCTTCACAC
1 GCCCGTGTGCGTCTTCACAC
20272949 GCC
1 GCC
20272952 TGGTGCATGG
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 17 0.31
20 38 0.69
ACGTcount: A:0.12, C:0.40, G:0.24, T:0.24
Consensus pattern (20 bp):
GCCCGTGTGCGTCTTCACAC
Found at i:20272928 original size:40 final size:37
Alignment explanation
Indices: 20272864--20272951 Score: 115
Period size: 37 Copynumber: 2.3 Consensus size: 37
20272854 CGTATGACTA
*
20272864 TCTT-ACATGCCCGTGTGCAACTTCACACGCCCGTGTGCG
1 TCTTCACACGCCCGTGTGCAACTTCACA---CCGTGTGCG
**
20272903 TCTTCACACGCCCGTGTGCGTCTTCACACCGTGTGCG
1 TCTTCACACGCCCGTGTGCAACTTCACACCGTGTGCG
20272940 TCTTCACACGCC
1 TCTTCACACGCC
20272952 TGGTGCATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
37 21 0.47
39 4 0.09
40 20 0.44
ACGTcount: A:0.14, C:0.39, G:0.22, T:0.26
Consensus pattern (37 bp):
TCTTCACACGCCCGTGTGCAACTTCACACCGTGTGCG
Found at i:20272936 original size:17 final size:17
Alignment explanation
Indices: 20272894--20272948 Score: 83
Period size: 17 Copynumber: 3.1 Consensus size: 17
20272884 CTTCACACGC
20272894 CCGTGTGCGTCTTCACA
1 CCGTGTGCGTCTTCACA
20272911 CGCCCGTGTGCGTCTTCACA
1 ---CCGTGTGCGTCTTCACA
20272931 CCGTGTGCGTCTTCACA
1 CCGTGTGCGTCTTCACA
20272948 C
1 C
20272949 GCCTGGTGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 18 0.51
20 17 0.49
ACGTcount: A:0.11, C:0.38, G:0.24, T:0.27
Consensus pattern (17 bp):
CCGTGTGCGTCTTCACA
Found at i:20274247 original size:83 final size:83
Alignment explanation
Indices: 20274106--20274284 Score: 272
Period size: 83 Copynumber: 2.2 Consensus size: 83
20274096 ATGCTTTGGG
* *
20274106 ACACGCCCGTGTCCCTTACCTGTGTGGAATTTTATGAATTTATTTTTCATTTCGAACCTATAGGG
1 ACACGCCCGTGTCCCTTACCTGTGTGGAATTTTATGAATTTATTTTTCATTTCAAACCTACAGGG
20274171 GTTTTCACAC-GACCAAGC
66 GTTTTCACACAG-CCAAGC
* *
20274189 ACACGCCTGTGTCCCTTACCTGTGTGGAATTTT-TAGAATTTATTTTTGATTTCAAACCTACAGG
1 ACACGCCCGTGTCCCTTACCTGTGTGGAATTTTAT-GAATTTATTTTTCATTTCAAACCTACAGG
*
20274253 GTTTTTCACACAGCCAAGC
65 GGTTTTCACACAGCCAAGC
*
20274272 ACATGCCCGTGTC
1 ACACGCCCGTGTC
20274285 ATCACCCGTG
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
82 1 0.01
83 85 0.98
84 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (83 bp):
ACACGCCCGTGTCCCTTACCTGTGTGGAATTTTATGAATTTATTTTTCATTTCAAACCTACAGGG
GTTTTCACACAGCCAAGC
Found at i:20275586 original size:51 final size:51
Alignment explanation
Indices: 20275531--20275630 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
20275521 CTGCCACATA
*
20275531 ACATGTAA-CACATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGTT
1 ACATG-AATCACATCCACAATGAACTCAGACCTCTCAACAAGCTCGGATGTT
* * * *
20275582 ACATGAATCACATCTACCATGAACTCGGACCTCTCAACGAGCTCGGATG
1 ACATGAATCACATCCACAATGAACTCAGACCTCTCAACAAGCTCGGATG
20275631 CTTGCATCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (51 bp):
ACATGAATCACATCCACAATGAACTCAGACCTCTCAACAAGCTCGGATGTT
Found at i:20278503 original size:16 final size:16
Alignment explanation
Indices: 20278478--20278520 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
20278468 AGTTTATACA
20278478 CAAAATAAAA-AAAAT
1 CAAAATAAAATAAAAT
20278493 CAAATATAAAATAAAAT
1 CAAA-ATAAAATAAAAT
* *
20278510 AAAAACAAAAT
1 CAAAATAAAAT
20278521 TATGATTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.17
16 12 0.50
17 8 0.33
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (16 bp):
CAAAATAAAATAAAAT
Found at i:20283422 original size:29 final size:30
Alignment explanation
Indices: 20283379--20283437 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
20283369 GAATTGGATC
* *
20283379 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
*
20283409 AAATC-AAAGTTCATGTATACAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
20283438 TTAAACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:20289488 original size:5 final size:5
Alignment explanation
Indices: 20289478--20289549 Score: 65
Period size: 5 Copynumber: 13.8 Consensus size: 5
20289468 CAACCCAATC
** *
20289478 TTTAT TTTATT TTTATT TATTAT TTTCC TTTAT TTTCT TTTAT TATT-T
1 TTTAT TTTA-T TTTA-T T-TTAT TTTAT TTTAT TTTAT TTTAT T-TTAT
*
20289526 ATTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTA
20289550 GTTAAATATT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
4 2 0.04
5 38 0.69
6 12 0.22
7 3 0.05
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:20289526 original size:30 final size:29
Alignment explanation
Indices: 20289477--20289549 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
20289467 GCAACCCAAT
* *
20289477 CTTTATTTTATTT-TTATTTATTATTTTC
1 CTTTATTTTTTTTATTATTTATTATTTTA
20289505 CTTTATTTTCTTTTATTATTTATTATTTTA
1 CTTTATTTT-TTTTATTATTTATTATTTTA
*
20289535 TTTTATTTTATTTTA
1 CTTTATTTT-TTTTA
20289550 GTTAAATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 9 0.23
29 3 0.08
30 27 0.69
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.75
Consensus pattern (29 bp):
CTTTATTTTTTTTATTATTTATTATTTTA
Found at i:20289745 original size:42 final size:42
Alignment explanation
Indices: 20289656--20289761 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
20289646 TATCCATGGT
**
20289656 ACCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTATT
1 ACCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTACA
* * * * *
20289698 GCCAAACAGTTCTATTCCAGCCCAGAATGTCATATCTCTGCA
1 ACCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTACA
* *
20289740 ACCAAACAATCCTATTCCAGCC
1 ACCAAACAGTTCTATTCCAGCC
20289762 TTAGAATCCC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.32, C:0.34, G:0.09, T:0.25
Consensus pattern (42 bp):
ACCAAACAGTTCTATTCCAGCCCAAAATGCCATATCCCTACA
Found at i:20290777 original size:118 final size:118
Alignment explanation
Indices: 20290550--20290762 Score: 354
Period size: 118 Copynumber: 1.8 Consensus size: 118
20290540 TGTTTTCCAT
* * *
20290550 GGTTATGAGTACAGCTTAGATCGTGGCTGACTGAGTAACCGGGGTAGGGTGATTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGATTGGGTTGTCATT
* *
20290615 TTACTTTGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGTTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGTTAGCCGA
** *
20290668 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGATTGGGTTGTCATT
20290733 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
20290763 TTGGGTAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 87 1.00
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.30
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGATTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGTTAGCCGA
Found at i:20296591 original size:22 final size:22
Alignment explanation
Indices: 20296539--20296615 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
20296529 GTTCTAGTAC
*
20296539 GATATATGATAAGCTCTGATACT
1 GATATATGATATGCTCTGATA-T
* * *
20296562 -TTACATGATATGCTTTGATAT
1 GATATATGATATGCTCTGATAT
*
20296583 GATATATGACATGCTCTGATAT
1 GATATATGATATGCTCTGATAT
20296605 G-TAATATGATA
1 GAT-ATATGATA
20296616 CGAAATTTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.05
22 41 0.95
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (22 bp):
GATATATGATATGCTCTGATAT
Found at i:20297449 original size:12 final size:12
Alignment explanation
Indices: 20297432--20297457 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20297422 TATTTGTTTC
20297432 TTGTTTTAATAT
1 TTGTTTTAATAT
20297444 TTGTTTTAATAT
1 TTGTTTTAATAT
20297456 TT
1 TT
20297458 TTAAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:20297470 original size:24 final size:25
Alignment explanation
Indices: 20297441--20297487 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
20297431 CTTGTTTTAA
*
20297441 TATTTGTTTTAATAT-TTTTAAATG
1 TATTTGATTTAATATATTTTAAATG
*
20297465 TATTTGATTTATTATATTTTAAA
1 TATTTGATTTAATATATTTTAAA
20297488 AATTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (25 bp):
TATTTGATTTAATATATTTTAAATG
Found at i:20297846 original size:26 final size:26
Alignment explanation
Indices: 20297810--20297919 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
20297800 TGATACAAAT
20297810 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
20297836 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
20297862 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
20297888 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
20297914 TGATAA
1 TGATAA
20297920 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:20299432 original size:26 final size:26
Alignment explanation
Indices: 20299403--20299455 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
20299393 TTTACAGTTT
20299403 TACCTCTAGGAGATAAATT-ACCGAAA
1 TACCTCTAGG-GATAAATTGACCGAAA
* *
20299429 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCTCTAGGGATAAATTGACCGAAA
20299455 T
1 T
20299456 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
TACCTCTAGGGATAAATTGACCGAAA
Found at i:20302775 original size:20 final size:21
Alignment explanation
Indices: 20302735--20302795 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
20302725 TTTTTTATAC
20302735 TTTATTT-TTTCTTTGTATTTA
1 TTTATTTATTTCTTT-TATTTA
20302756 TTTATTTATTT-TTTTATTTA
1 TTTATTTATTTCTTTTATTTA
** *
20302776 TACATTTATTTGTTTTATTT
1 TTTATTTATTTCTTTTATTT
20302796 TTTCTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.42
21 18 0.50
22 3 0.08
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTATTTATTTCTTTTATTTA
Found at i:20302832 original size:18 final size:19
Alignment explanation
Indices: 20302811--20302855 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
20302801 TTTTTTCACA
20302811 ATTATTATTAT-TTTATAT
1 ATTATTATTATATTTATAT
20302829 ATTATTATT-TATTTATAT
1 ATTATTATTATATTTATAT
20302847 ATT-TTATTA
1 ATTATTATTA
20302856 CAAATTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTATTATTATATTTATAT
Found at i:20307602 original size:19 final size:19
Alignment explanation
Indices: 20307574--20307613 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
20307564 GCCGAAATTC
*
20307574 TCTTTTTTTTTCCTCTTCT
1 TCTTTATTTTTCCTCTTCT
*
20307593 TCTTTATTTTTCTTCTTCT
1 TCTTTATTTTTCCTCTTCT
20307612 TC
1 TC
20307614 AATTAGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTTTATTTTTCCTCTTCT
Found at i:20308685 original size:40 final size:40
Alignment explanation
Indices: 20308622--20308697 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
20308612 TACGGTTCCT
* * *
20308622 TATGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCATA
1 TATGGTGTGCAAGGATGGATGGGTCGATTATATCCCCATA
* *
20308662 TATGGTGTGCAAGGATGGGTGGGTCGATTTTATCCC
1 TATGGTGTGCAAGGATGGATGGGTCGATTATATCCC
20308698 TGCATGGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.18, C:0.13, G:0.34, T:0.34
Consensus pattern (40 bp):
TATGGTGTGCAAGGATGGATGGGTCGATTATATCCCCATA
Found at i:20315477 original size:94 final size:94
Alignment explanation
Indices: 20315316--20315645 Score: 446
Period size: 94 Copynumber: 3.5 Consensus size: 94
20315306 GAGAAACCAT
* *
20315316 AAATCCTATACCCCTGAAGTTACAGTGGGATAGATCGAAGTTATCATGG-AAAGTCTTATCTCTC
1 AAATCCTATACCCCTGAAGTTACAGTGGGACAGATCGAAGTTATCATGGTGAA-TCTTATCTCTC
* *
20315380 TGAAGTTGTAGTGGAGCAGATTAAAGCCAA
65 TGAAGTTGCAGTGGAGAAGATTAAAGCCAA
* * *
20315410 AAATCCTATACCCCTGAAGTTACAGTAGGACAAATCGAAGTTATCATGGTGAATCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTACAGTGGGACAGATCGAAGTTATCATGGTGAATCTTATCTCTCT
* * *
20315475 GAAGTAGCAGTGGAGTAGATTAAAGCCAT
66 GAAGTTGCAGTGGAGAAGATTAAAGCCAA
* * * * * *
20315504 AAATCCTATACCCCTAAAGTTGCAATGGGACAGATAGAAGTTATCATGGTGAATCTCATATCTCT
1 AAATCCTATACCCCTGAAGTTACAGTGGGACAGATCGAAGTTATCATGGTGAATCTTATCTCTCT
*
20315569 GAAGTTGCAGTGGAGAAGATTAAAGCCAC
66 GAAGTTGCAGTGGAGAAGATTAAAGCCAA
* * * * *
20315598 AAATCCCATACCTCTGAAGTTGCAGTGGTACAGATTGAAGTTATCATG
1 AAATCCTATACCCCTGAAGTTACAGTGGGACAGATCGAAGTTATCATG
20315646 TATCTCTCCC
Statistics
Matches: 208, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
94 206 0.99
95 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (94 bp):
AAATCCTATACCCCTGAAGTTACAGTGGGACAGATCGAAGTTATCATGGTGAATCTTATCTCTCT
GAAGTTGCAGTGGAGAAGATTAAAGCCAA
Found at i:20315830 original size:44 final size:44
Alignment explanation
Indices: 20315764--20315942 Score: 105
Period size: 44 Copynumber: 3.9 Consensus size: 44
20315754 GATACGGGCG
* *
20315764 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGTT-GATTAAAGCC
1 ACAAATCTTATCTCTCTAAAGTTGCAGTAG-GTTGGATTAAAGCC
* * *
20315808 ACAAGTCTTATAC-CTCTAAAGTTGTAGTAGGTTGGATTAAATCTAC
1 ACAAATCTTAT-CTCTCTAAAGTTGCAGTAGGTTGGATTAAAGC--C
* * * * ** *
20315854 TGTGGCGAATCTTATCTCCCTAAAGTTGTAGTAGAG-CAGATTAAAGCG
1 ----ACAAATCTTATCTCTCTAAAGTTGCAGTAG-GTTGGATTAAAGCC
* * *
20315902 ACAAATCCTATAC-CTCTAAAGTTGCAGTGGGTAGGATTAAA
1 ACAAATCTTAT-CTCTCTAAAGTTGCAGTAGGTTGGATTAAA
20315943 TCTATCGTAG
Statistics
Matches: 102, Mismatches: 21, Indels: 24
0.69 0.14 0.16
Matches are distributed among these distances:
43 4 0.04
44 61 0.60
45 2 0.02
46 1 0.01
49 1 0.01
50 32 0.31
51 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
ACAAATCTTATCTCTCTAAAGTTGCAGTAGGTTGGATTAAAGCC
Found at i:20315900 original size:94 final size:94
Alignment explanation
Indices: 20315767--20315946 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 94
20315757 ACGGGCGACA
* * * ** * *
20315767 AATCTTATCTCTCTGAAGTTGCAGTGGAGTTGATTAAAGCCACAAGTCTTATACCTCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCTCTAAAGTTG
* *
20315832 TAGTAGGTTGGATTAAATCTACTGTGGCG
66 CAGTAGGTAGGATTAAATCTACTGTGGCG
* *
20315861 AATCTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAGCGACAAATCCTATACCTCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCTCTAAAGTTG
*
20315926 CAGTGGGTAGGATTAAATCTA
66 CAGTAGGTAGGATTAAATCTA
20315947 TCGTAGCAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (94 bp):
AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCTCTAAAGTTG
CAGTAGGTAGGATTAAATCTACTGTGGCG
Found at i:20315961 original size:94 final size:94
Alignment explanation
Indices: 20315767--20315978 Score: 250
Period size: 94 Copynumber: 2.3 Consensus size: 94
20315757 ACGGGCGACA
* * * ** * *
20315767 AATCTTATCTCTCTGAAGTTGCAGTGGAGTTGATTAAAGCCACAAGTCTTATACCTCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCTCTAAAGTTG
* * *
20315832 TAGTAGGTTGGATTAAATCTACTGTGGCG
66 CAGTAGGTAGGATTAAATCTACTGTAGCG
* *
20315861 AATCTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAGCGACAAATCCTATACCTCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCTCTAAAGTTG
*
20315926 CAGTGGGTAGGATTAAATCTA-TCGTAGC-
66 CAGTAGGTAGGATTAAATCTACT-GTAGCG
* *
20315954 AAGTCTTATTTCCCAAAAG-TGCAGT
1 AA-TCTTATCTCCCTAAAGTTGCAGT
20315979 GAAATAGATT
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 8 0.08
94 92 0.92
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (94 bp):
AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCTCTAAAGTTG
CAGTAGGTAGGATTAAATCTACTGTAGCG
Found at i:20316069 original size:45 final size:44
Alignment explanation
Indices: 20315997--20316499 Score: 230
Period size: 45 Copynumber: 11.3 Consensus size: 44
20315987 TTAAAGCTAC
* *
20315997 AAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTG
1 AAGTTACAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTA
* * *
20316041 AAGTTAGCAAATCTTATCTATCC-AAAGTTGCAATAGAACAGATTA
1 AAGTTA-CAAATCTTATCT-TCCTAAAGTTGCAGTGGAGCAGATTA
* * * * * *
20316086 AAGCTACAAACCTTATCTCCCTAAAGTTACAGTGAAGCAGGTTA
1 AAGTTACAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTA
* * * *
20316130 AAGATAACAAATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTG
1 AAG-TTACAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTA
* * * * * * *
20316175 AAGTTAGCGAATCTTATCTTTCTGAAGTTGTAGTAGAACATATTA
1 AAGTTA-CAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTA
** * * * *
20316220 AAACTACAAA-CATTATCTCCCTAAAGTTGTAATGGAACATG-TTA
1 AAGTTACAAATC-TTATCTTCCTAAAGTTGCAGTGGAGCA-GATTA
* * * * ** * * *
20316264 AAGATAAAAACTCTCATC-TCCTTGAAGTTAAAATGGAGCAGACTG
1 AAGTTACAAA-TCTTATCTTCC-TAAAGTTGCAGTGGAGCAGATTA
* * * * * **
20316309 AAGATACGAATCTTAT-TTCTCTGAAGTTGCGGTAGAATAGATTA
1 AAGTTACAAATCTTATCTTC-CTAAAGTTGCAGTGGAGCAGATTA
* * ** * * * * * *
20316353 CAGCTATGAATCTTTTCTTCCTATATTTGCAATGGAGTAGATTG
1 AAGTTACAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTA
** * * * *
20316397 AAGACAACAAATGTTATC-TCTCTGAAGTTGCAGTGGCGCAGATTG
1 AAG-TTACAAATCTTATCTTC-CTAAAGTTGCAGTGGAGCAGATTA
* * * *
20316442 AAGATAACAAATCTTATC-TCTCTGAAA-TTACAGTAGAGTAGATTA
1 AAG-TTACAAATCTTATCTTC-CT-AAAGTTGCAGTGGAGCAGATTA
* *
20316487 AAGCTATAAATCT
1 AAGTTACAAATCT
20316500 CAACTCTCTT
Statistics
Matches: 342, Mismatches: 100, Indels: 34
0.72 0.21 0.07
Matches are distributed among these distances:
43 3 0.01
44 136 0.40
45 197 0.58
46 6 0.02
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (44 bp):
AAGTTACAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTA
Found at i:20316203 original size:134 final size:134
Alignment explanation
Indices: 20316002--20316492 Score: 497
Period size: 134 Copynumber: 3.7 Consensus size: 134
20315992 GCTACAAGTT
* * * **
20316002 ACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAATCTTATCTATCCAAA
1 ACAAATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTTTCTGAA
* * *
20316067 GTTGCAATAGAACAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTACAGTGAAGCAGGTTAAA
66 GTTGCAGTAGAACAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTGCAATGAAGCAGGTTAAA
20316132 GATA
131 GATA
* *
20316136 ACAAATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCGAATCTTATCTTTCTGAA
1 ACAAATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTTTCTGAA
* * * * * *
20316201 GTTGTAGTAGAACATATTAAAACTACAAACATTATCTCCCTAAAGTTGTAATGGAA-CATGTTAA
66 GTTGCAGTAGAACAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTGCAAT-GAAGCAGGTTAA
20316265 AGATA
130 AGATA
* * ** * * *
20316270 A-AAACTCTCATCTCCTTGAAGTTAAAATGGAGCAGACTGAAGATA-CGAATCTTAT-TTCTCTG
1 ACAAA-TCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTT-TCTG
* * * ** * * * * * * * * *
20316332 AAGTTGCGGTAGAATAGATTACAGCTATGAATCTTTTCTTCCTATATTTGCAATGGAGTAGATTG
64 AAGTTGCAGTAGAACAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTGCAATGAAGCAGGTTA
*
20316397 AAGACA
129 AAGATA
* * * *
20316403 ACAAATGTTATC-TCTCTGAAGTTGCAGTGGCGCAGATTGAAGATAACAAATCTTATCTCTCTGA
1 ACAAATCTTATCTTCT-TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTTTCTGA
* * **
20316467 AATTACAGTAGAGTAGATTAAAGCTA
65 AGTTGCAGTAGAACAGATTAAAGCTA
20316493 TAAATCTCAA
Statistics
Matches: 292, Mismatches: 57, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
132 6 0.02
133 94 0.32
134 188 0.64
135 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (134 bp):
ACAAATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTTTCTGAA
GTTGCAGTAGAACAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTGCAATGAAGCAGGTTAAA
GATA
Found at i:20321420 original size:26 final size:26
Alignment explanation
Indices: 20321384--20321467 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
20321374 CATGAAATTC
20321384 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
20321410 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
20321436 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
20321462 TTATCA
1 TTATCA
20321468 ATTTGTACCA
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:20343130 original size:41 final size:41
Alignment explanation
Indices: 20343072--20343154 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
20343062 TGGGTGGTTA
*
20343072 TATCAAAGGTGATAGAACGAAACATATTTCACCAAAATTAT
1 TATCAAAGGTGACAGAACGAAACATATTTCACCAAAATTAT
20343113 TATCAAAGGTGACAGAACGAAACATATTTCACCAAAATTAT
1 TATCAAAGGTGACAGAACGAAACATATTTCACCAAAATTAT
20343154 T
1 T
20343155 CTTCACTCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.27
Consensus pattern (41 bp):
TATCAAAGGTGACAGAACGAAACATATTTCACCAAAATTAT
Found at i:20344694 original size:9 final size:9
Alignment explanation
Indices: 20344680--20344706 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
20344670 TTTGGCTTGT
20344680 TTTTCACTC
1 TTTTCACTC
20344689 TTTTCACTC
1 TTTTCACTC
20344698 TTTTCACTC
1 TTTTCACTC
20344707 CCCTATGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTCACTC
Found at i:20346754 original size:15 final size:14
Alignment explanation
Indices: 20346740--20346783 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
20346730 AGTAAAATAA
*
20346740 AAATAAATAATATAAC
1 AAATAAA-AATA-AAT
20346756 AAATAATAAATAAAT
1 AAATAA-AAATAAAT
20346771 AAATAAAAATAAA
1 AAATAAAAATAAA
20346784 AATAGGGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 8 0.31
16 10 0.38
17 1 0.04
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:20347195 original size:30 final size:30
Alignment explanation
Indices: 20347155--20347216 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
20347145 GTTAATAACT
*
20347155 TACAAGAATTGGATC-AAATCAAAATTCCATG
1 TACAAGAATTGCA-CAAAATCAAAATT-CATG
*
20347186 TACAA-AATTGCACAAAATCAAAGTTCATG
1 TACAAGAATTGCACAAAATCAAAATTCATG
20347215 TA
1 TA
20347217 TACAATTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 7 0.25
30 16 0.57
31 5 0.18
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (30 bp):
TACAAGAATTGCACAAAATCAAAATTCATG
Found at i:20347215 original size:29 final size:30
Alignment explanation
Indices: 20347170--20347226 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
20347160 GAATTGGATC
20347170 AAATCAAAATTCCATGTACAAAATTGCACA
1 AAATCAAAATTCCATGTACAAAATTGCACA
* * *
20347200 AAATCAAAGTT-CATGTATACAATTGCA
1 AAATCAAAATTCCATGTACAAAATTGCA
20347227 TATTAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (30 bp):
AAATCAAAATTCCATGTACAAAATTGCACA
Found at i:20348305 original size:29 final size:29
Alignment explanation
Indices: 20348271--20348379 Score: 87
Period size: 29 Copynumber: 3.8 Consensus size: 29
20348261 ATATTATTGC
* *
20348271 TATTGTTATTATGTTTCTATTTATATTTA
1 TATTATTATTATATTTCTATTTATATTTA
* * * * *
20348300 TTTTGTTATTCTAATACTA-TTATTATTTA
1 TATTATTATTATATTTCTATTTA-TATTTA
* * * *
20348329 TCTAATTTTTAT-TTATCTATTTATATTTC
1 TATTATTATTATATT-TCTATTTATATTTA
20348358 TATTATTATTATATTTCTATTT
1 TATTATTATTATATTTCTATTT
20348380 CTTATATTTT
Statistics
Matches: 60, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
28 4 0.07
29 51 0.85
30 5 0.08
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (29 bp):
TATTATTATTATATTTCTATTTATATTTA
Found at i:20348342 original size:15 final size:14
Alignment explanation
Indices: 20348286--20348356 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
20348276 TTATTATGTT
*
20348286 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
20348300 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
20348314 TACTATTATTATTTA
1 T-CTATTTTTATTTA
20348329 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
*
20348344 TCTATTTATATTT
1 TCTATTTTTATTT
20348357 CTATTATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 6 0.13
13 2 0.04
14 14 0.30
15 15 0.33
16 2 0.04
17 7 0.15
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:20348363 original size:23 final size:25
Alignment explanation
Indices: 20348337--20348404 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 25
20348327 TATCTAATTT
20348337 TTATTTA-TCTATTTATATTTC-TA
1 TTATTTATTCTATTTATATTTCTTA
* *
20348360 TTA-TTATTATATTTCTATTTCTTA
1 TTATTTATTCTATTTATATTTCTTA
*
20348384 TATTTTTATTTCTATTTATAT
1 T-TATTTA-TTCTATTTATAT
20348405 ACTAATATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.09
23 15 0.43
24 3 0.09
25 1 0.03
26 3 0.09
27 10 0.29
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (25 bp):
TTATTTATTCTATTTATATTTCTTA
Found at i:20348394 original size:15 final size:15
Alignment explanation
Indices: 20348349--20348396 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
20348339 ATTTATCTAT
*
20348349 TTATATTTCTATTATTA
1 TTATATTTCTA-T-TTC
20348366 TTATATTTCTATTTC
1 TTATATTTCTATTTC
*
20348381 TTATATTTTTATTTC
1 TTATATTTCTATTTC
20348396 T
1 T
20348397 ATTTATATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATATTTCTATTTC
Found at i:20348794 original size:44 final size:44
Alignment explanation
Indices: 20348730--20348819 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
20348720 TCTTTTTATG
20348730 TATCATTTGCTTAGAATTGTTTTATACTTTATTTTAGATTTTCT
1 TATCATTTGCTTAGAATTGTTTTATACTTTATTTTAGATTTTCT
*
20348774 TATCATTTGCTTAGATTTGTTTTATACTTTATTTTAGATTTTCT
1 TATCATTTGCTTAGAATTGTTTTATACTTTATTTTAGATTTTCT
20348818 TA
1 TA
20348820 CTTTGTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.60
Consensus pattern (44 bp):
TATCATTTGCTTAGAATTGTTTTATACTTTATTTTAGATTTTCT
Found at i:20348812 original size:23 final size:23
Alignment explanation
Indices: 20348740--20348814 Score: 84
Period size: 22 Copynumber: 3.3 Consensus size: 23
20348730 TATCATTTGC
*
20348740 TTAGAATTGTTTTATACTTTATT
1 TTAGATTTGTTTTATACTTTATT
* **
20348763 TTAGATTT-TCTTAT-CATTT-GC
1 TTAGATTTGTTTTATAC-TTTATT
20348784 TTAGATTTGTTTTATACTTTATT
1 TTAGATTTGTTTTATACTTTATT
20348807 TTAGATTT
1 TTAGATTT
20348815 TCTTACTTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
21 9 0.22
22 16 0.39
23 16 0.39
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.61
Consensus pattern (23 bp):
TTAGATTTGTTTTATACTTTATT
Found at i:20355450 original size:44 final size:43
Alignment explanation
Indices: 20355365--20356877 Score: 196
Period size: 44 Copynumber: 34.5 Consensus size: 43
20355355 ATTCACTAGC
* *
20355365 CTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGAACAGGCTGAAAATTACAGAT
*
20355408 CTTATCTCCTTAAGCAGTAGGGAAACAGGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * * * * ** ** * *
20355452 ATTATCTCTCTAAGTAATAGTGGAGCA-AATCGAAGACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAA-A-ATTACAGAT
* * * * * *
20355496 CTTAACCCCCTAAACAGTAGAGAAACAGGTTGAAGATTACAGAT
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCTGAAAATTACAGAT
* * * ** * ** * *
20355540 CTTATCTCCCTAATCAATAGTGAAGTGGATCGAAGACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAGGGAACAGGCT-GAA-A-ATTACAGAT
* *
20355584 CTTAACT-CCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * ** * *
20355627 CTTATCTCCCTAAGCAGTAGTGGAGCA-GATCGAACACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAA-A-ATTACAGAT
* * **
20355671 CTTAAC-CCCTAAAGCAGTAGGGTAACAGGCTAAAAATTACATTT
1 CTTATCTCCCT-AAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * * * ** * *
20355715 CTTATCTCCCTAAGCAGTAGTGGAATAGACCGAACACGA-TGAGC
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCTGAAAATTACAGA-T
* * * *
20355759 CTTAACCCCCAAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * ** * *
20355803 CTTATCTCCCTAAGCAGTAGTGGAACA-GATCGAACACGA-TGAGC
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAAAATTACAGA-T
* * * *
20355847 CTTAAC-CCCTTAAGTAGTAGGGTAACAGGATGGAAATTACAGAT
1 CTTATCTCCC-TAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * * * * *
20355891 CTTATCTCCCTAAGAAGTAGTGGAGCA-GATCGAAAACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAAAA--TTACAGAT
* * * ** * *
20355935 CTTAACCCCCTAAACAGTAGAAAAATAGGCTGAAGATTACAGAT
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCTGAAAATTACAGAT
* *** ** * * * *
20355979 CATATCTCCCTAAATTGTAGTGG-AGTGGATCGAAGATGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAAAAT--TACAGAT
* *
20356023 CTTAAC-CCTCTAAGCAGTAGGGTAACAGGATGAAAATTACAGAT
1 CTTATCTCC-CTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * ** * ** * *
20356067 CTTATCTCCCTAAACAGTA-GTAGAGTGGATCGAAGACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAGGGA-ACAGGCT-GAA-A-ATTACAGAT
* * * *
20356111 CATAACCCCCTAAGCAGTAGGGTAACAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * * * * * *
20356155 CTTATCTTCCTAAGCAGTAGTGGACCA-GAT-CAAA-CACGGTGAGC
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCTGAAAATTAC--AGA-T
* * * *
20356199 CTTAACCCCCTGAGCAGTAGGGTAACAGGCTGGAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * * * * * *
20356243 CTTATTTCCCTAACCAGTAGTGGAGC-GGATCGAACACAGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAA-A-ATTACAGAT
* * * ** * * *
20356287 CATAAC-CCCACAAATAGTAGGGAAATAGGCTGAAGATTTCAGAT
1 CTTATCTCCC-TAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* ** * *
20356331 CTTATCTCCCTCAA-TAGTAGTGG---AGTGCATCGAAGACGGT-GAG-C
1 CTTATCTCCCT-AAGCAGTAG-GGAACAG-GC-T-GAA-A-ATTACAGAT
* * *
20356375 CTTAAC-CCCTAAGCAGTAGGGTAACGGGCTAAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * ** * ** *
20356418 TTTATCTCCCTAAGCAATAGTGGGGCA-GATCGAAGACGGT-GAG-T
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAA-A-ATTACAGAT
* * * *
20356462 CTTAACCCCCTAAGCAGTAGGCTAACAGGCTGGAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGG-GAACAGGCTGAAAATTACAGAT
* * * ** *
20356506 CTTATCTCCCTAAGCAGTAGTGGAGC-GGATCGAAGA-TAGTGAGC
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAAAATTACAGA-T
* * * * ** *
20356550 CTTAACCCCCTAAACAGTAGAGAAACAGGCTGAGGATTATAGAT
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCTGAAAATTACAGAT
* ** * ** * *
20356594 CTTATCTCCCTAAACAGTAGTGG-AGTGGATCGAAGACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAA-A-ATTACAGAT
* * * * *
20356638 CTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAAGTTATAGAT
1 CTTATCTCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * * *
20356682 CTTATCTCCCTAAGCAGTAGTGGAACA-GATCGAACACAGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAA-A-ATTACAGAT
* *
20356726 CTTAAC-CCTTGAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
1 CTTATCTCCCT-AAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
* * * ** *
20356770 CTTATCTCCCTAAGCAGTAGTGGAGCA-GATCGAACA-TAGTGAGC
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-GAAAATTACAGA-T
* * * *
20356814 CTTAACCCCCGAAGCAGTAGGGTAACAGGCTGAAAACTACAGAT
1 CTTATCTCCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGAT
*
20356858 CTTATCTCCCTAAGAAGTAG
1 CTTATCTCCCTAAGCAGTAG
20356878 TGGAGCAGAT
Statistics
Matches: 997, Mismatches: 343, Indels: 259
0.62 0.21 0.16
Matches are distributed among these distances:
41 6 0.01
42 28 0.03
43 164 0.16
44 660 0.66
45 120 0.12
46 17 0.02
47 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGTAGGGAACAGGCTGAAAATTACAGAT
Found at i:20355539 original size:88 final size:88
Alignment explanation
Indices: 20355418--20357854 Score: 2978
Period size: 88 Copynumber: 27.7 Consensus size: 88
20355408 CTTATCTCCT
* * * * * *
20355418 TAAGCAGTAGGGAAACAGGCTGAAAATTACAGATATTATCTCTCTAAGTAATAGTGGAGCAAATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
20355483 GAAGACGGTGAGCCTTAACCCCC
66 GAAGACGGTGAGCCTTAACCCCC
* * * * * * * * **
20355506 TAAACAGTAGAGAAACAGGTTGAAGATTACAGATCTTATCTCCCTAATCAATAGTGAAGTGGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
20355571 GAAGACGGTGAGCCTTAA-CTCC
66 GAAGACGGTGAGCCTTAACCCCC
*
20355593 TAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
20355658 GAACACGGTGAGCCTTAA-CCCC
66 GAAGACGGTGAGCCTTAACCCCC
* ** ** *
20355680 TAAAGCAGTAGGGTAACAGGCTAAAAATTACATTTCTTATCTCCCTAAGCAGTAGTGGAATAGAC
1 T-AAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
20355745 CGAACACGATGAGCCTTAACCCCC
65 CGAAGACGGTGAGCCTTAACCCCC
* * *
20355769 AAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
20355834 GAACACGATGAGCCTTAACCCCT
66 GAAGACGGTGAGCCTTAACCCCC
* * * *
20355857 TAAGTAGTAGGGTAACAGGATGGAAATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
20355922 GAAAACGGTGAGCCTTAACCCCC
66 GAAGACGGTGAGCCTTAACCCCC
* *** * * * *** **
20355945 TAAACAGTAGAAAAATAGGCTGAAGATTACAGATCATATCTCCCTAAATTGTAGTGGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
20356010 GAAGATGGTGAGCCTTAACCCTC
66 GAAGACGGTGAGCCTTAACCCCC
* * * **
20356033 TAAGCAGTAGGGTAACAGGATGAAAATTACAGATCTTATCTCCCTAAACAGTAGTAGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
20356098 GAAGACGGTGAGCCATAACCCCC
66 GAAGACGGTGAGCCTTAACCCCC
* * *
20356121 TAAGCAGTAGGGTAACAGGTTGAAAATTACAGATCTTATCTTCCTAAGCAGTAGTGGACCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
20356186 AAACACGGTGAGCCTTAACCCCC
66 GAAGACGGTGAGCCTTAACCCCC
* * * * *
20356209 TGAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATTTCCCTAACCAGTAGTGGAGCGGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
20356274 GAACACAGTGAGCCATAACCCCAC
66 GAAGACGGTGAGCCTTAACCCC-C
** * * * * * *
20356298 -AAATAGTAGGGAAATAGGCTGAAGATTTCAGATCTTATCTCCCTCAA-TAGTAGTGGAG-TGCA
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAG-A
20356360 TCGAAGACGGTGAGCCTTAA-CCCC
64 TCGAAGACGGTGAGCCTTAACCCCC
* * * * *
20356384 TAAGCAGTAGGGTAACGGGCTAAAAATTACAGATTTTATCTCCCTAAGCAATAGTGGGGCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
20356449 GAAGACGGTGAGTCTTAACCCCC
66 GAAGACGGTGAGCCTTAACCCCC
* * *
20356472 TAAGCAGTAGGCTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
**
20356537 GAAGATAGTGAGCCTTAACCCCC
66 GAAGACGGTGAGCCTTAACCCCC
* * * ** * * **
20356560 TAAACAGTAGAGAAACAGGCTGAGGATTATAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
20356625 GAAGACGGTGAGCCTTAACCCCC
66 GAAGACGGTGAGCCTTAACCCCC
* * * *
20356648 TAAGCAGTAGGGTAATAGGCTGAAAGTTATAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
20356713 GAACACAGTGAGCCTTAA-CCCT
66 GAAGACGGTGAGCCTTAACCCCC
20356735 TGAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 T-AAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* **
20356800 CGAACATAGTGAGCCTTAACCCCC
65 CGAAGACGGTGAGCCTTAACCCCC
* * *
20356824 GAAGCAGTAGGGTAACAGGCTGAAAACTACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
20356889 GAACAAGGTGAGCCTTAA-CCAC
66 GAAGACGGTGAGCCTTAACCCCC
* * * * * *
20356911 TAAGTAGAAGGGTAGCAGGCTGGAAATTACAGATCTTATCTCCTTAAGCTA-TAGTGGTGCAGAT
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGC-AGTAGTGGAGCAGAT
* * **
20356975 TGAACACGGTGAGCCTTAACCCTT
65 CGAAGACGGTGAGCCTTAACCCCC
* * * * *
20356999 TAAGTAATAGGGTAATAGGCT-AGAAATTACAGATCTTATTTCCCTAAGCAGTAGTGGAGCGGAT
1 TAAGCAGTAGGGTAACAGGCTGA-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* * *
20357063 CAAAGACAGTGAGCCTTAACCACC
65 CGAAGACGGTGAGCCTTAACCCCC
** * * *
20357087 TAAATAGTAGGGAAACAGGCT-AAAGATTACAGATCTTATCTCCCTAAACAGTAGTGGAG-TGAA
1 TAAGCAGTAGGGTAACAGGCTGAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG-A
*
20357150 TCGAAGACGGTGAGCCTTATCCCCC
64 TCGAAGACGGTGAGCCTTAACCCCC
* * * * *
20357175 TAAGCAATAGGGTAACAGGCT-AAAAGTTATAGATCTTATATCCCTAAGTAGTAGCGGAGCAGAT
1 TAAGCAGTAGGGTAACAGGCTGAAAA-TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* * *
20357239 TGAACATGGTGAGCCTTAACCCCC
65 CGAAGACGGTGAGCCTTAACCCCC
**
20357263 TAAGCAGTAGGGTAACAGGCT-AGAAATTACAGATCTTATCTCCCTAAGCAGTAGTAAAGCAGAT
1 TAAGCAGTAGGGTAACAGGCTGA-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
20357327 CGAACACGATGAGCCTTAACCCCC
65 CGAAGACGGTGAGCCTTAACCCCC
* * *
20357351 TAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCGCCTTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
20357416 AAAGACGGTGAGCCCTAACCCCC
66 GAAGACGGTGAGCCTTAACCCCC
* * * * *
20357439 TAAGCAGTAGGGTAATAGGATGGAAATTACAGATCTTATCTCCCTAAGCAGTAGAGGAGTAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
20357504 GAAGACGGTGAGCCTTAACCCCC
66 GAAGACGGTGAGCCTTAACCCCC
* *
20357527 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCACTAAGTAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
**
20357592 GAAGACGGTGAGCCCCAACCCCC
66 GAAGACGGTGAGCCTTAACCCCC
* * *
20357615 TAAGCAATAGGGTAACAGGCTGAAAATTATAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * *
20357680 GAAGAGGGTAAGCCTTGACCCCT
66 GAAGACGGTGAGCCTTAACCCCC
* **
20357703 TAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
** * *
20357768 GAAGATAGTGAGCCTTATCTCCC
66 GAAGACGGTGAGCCTTAACCCCC
* * ** * * * *
20357791 TGAGCAGCAGTGG-AGTAGGCTGAAGATTACAAATCATATCTCCCTAAGCAGTAGTGGAGTAGAT
1 TAAGCAGTAG-GGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
20357855 TGAAATGAAA
Statistics
Matches: 2025, Mismatches: 302, Indels: 44
0.85 0.13 0.02
Matches are distributed among these distances:
86 3 0.00
87 227 0.11
88 1779 0.88
89 16 0.01
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (88 bp):
TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
GAAGACGGTGAGCCTTAACCCCC
Found at i:20358221 original size:5 final size:5
Alignment explanation
Indices: 20358213--20358244 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
20358203 ATTTTTTTGT
20358213 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
20358245 ATTAAATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:20358827 original size:29 final size:29
Alignment explanation
Indices: 20358795--20358863 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 29
20358785 TATTCTAATA
20358795 CTATTATTATTTAT-CTATTTATTAT-TTAT
1 CTATTATTATTTATACTA-TTATTATATT-T
20358824 CTATT-TATATTTATACTATTATTATATTT
1 CTATTAT-TATTTATACTATTATTATATTT
20358853 CTATTTATTAT
1 CTA-TTATTAT
20358864 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
28 1 0.03
29 23 0.66
30 10 0.29
31 1 0.03
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (29 bp):
CTATTATTATTTATACTATTATTATATTT
Found at i:20358840 original size:44 final size:44
Alignment explanation
Indices: 20358755--20358898 Score: 154
Period size: 44 Copynumber: 3.3 Consensus size: 44
20358745 ATTGCTATTG
* * *
20358755 TTATTATGTTTCTATTTA-TATTTATT-TTGCTATTCTAATACTA
1 TTATTATATTTCTATTTATTATTTATTATTTCTATTAT-ATACTA
*
20358798 TTATTAT-TTATCTATTTATTATTTATCTATTTATATT-TATACTA
1 TTATTATATT-TCTATTTATTATTTAT-TATTTCTATTATATACTA
*
20358842 TTATTATATTTCTATTTATTATATTTTTATTTCTATTTATATACTA
1 TTATTATATTTCTATTTATTAT-TTATTATTTCTA-TTATATACTA
*
20358888 ATATTAT-TTTC
1 TTATTATATTTC
20358899 ATTATATATG
Statistics
Matches: 88, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
42 2 0.02
43 15 0.17
44 39 0.44
45 13 0.15
46 19 0.22
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (44 bp):
TTATTATATTTCTATTTATTATTTATTATTTCTATTATATACTA
Found at i:20358867 original size:15 final size:15
Alignment explanation
Indices: 20358798--20358863 Score: 93
Period size: 15 Copynumber: 4.5 Consensus size: 15
20358788 TCTAATACTA
20358798 TTATTATTTATCTAT
1 TTATTATTTATCTAT
20358813 TTATTATTTATCTAT
1 TTATTATTTATCTAT
20358828 TTA-TATTTATACTA-
1 TTATTATTTAT-CTAT
20358842 TTATTATATT-TCTAT
1 TTATTAT-TTATCTAT
20358857 TTATTAT
1 TTATTAT
20358864 ATTTTTATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.28
15 32 0.68
16 2 0.04
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTATTTATCTAT
Found at i:20358872 original size:15 final size:15
Alignment explanation
Indices: 20358799--20358873 Score: 62
Period size: 15 Copynumber: 4.7 Consensus size: 15
20358789 CTAATACTAT
*
20358799 TATTATTTATCTATT-
1 TATT-TTTATTTATTA
*
20358814 TATTATTTATCTATTTA
1 TATT-TTTATTTA-TTA
*
20358831 TATTTATACTATTATTA
1 TATTTTTA-T-TTATTA
*
20358848 TATTTCTATTTATTA
1 TATTTTTATTTATTA
20358863 TATTTTTATTT
1 TATTTTTATTT
20358874 CTATTTATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
15 29 0.56
16 6 0.12
17 15 0.29
18 2 0.04
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTATTTATTA
Found at i:20358874 original size:21 final size:22
Alignment explanation
Indices: 20358799--20358881 Score: 95
Period size: 21 Copynumber: 3.9 Consensus size: 22
20358789 CTAATACTAT
20358799 TATTATTTA--TCTATTTATTA
1 TATTATTTATTTCTATTTATTA
* *
20358819 T-TTATCTATTTATATTTA-TA
1 TATTATTTATTTCTATTTATTA
20358839 CTATTATTATATTTCTATTTATTA
1 -TATTATT-TATTTCTATTTATTA
20358863 TATT-TTTATTTCTATTTAT
1 TATTATTTATTTCTATTTAT
20358882 ATACTAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
19 6 0.11
20 3 0.06
21 21 0.40
22 6 0.11
23 15 0.28
24 2 0.04
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATTTATTTCTATTTATTA
Found at i:20359030 original size:25 final size:25
Alignment explanation
Indices: 20359002--20359119 Score: 89
Period size: 25 Copynumber: 4.7 Consensus size: 25
20358992 CTCATTTCAA
20359002 ATTTTTATATATTATTTACTTT-AAT
1 ATTTTTATATATTATTTA-TTTAAAT
* *
20359027 ATTTTCATATATTATGTATTTCAAACT
1 ATTTTTATATATTATTTATTT-AAA-T
* * * * *
20359054 TTTTTTACACATTATATATTTTGAAT
1 ATTTTTATATATTATTTA-TTTAAAT
* *
20359080 -TGTTTATATATTATTT-TTTAAAG
1 ATTTTTATATATTATTTATTTAAAT
*
20359103 AGTTTTATATATTATTT
1 ATTTTTATATATTATTT
20359120 TATCTTGAAT
Statistics
Matches: 72, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
23 5 0.07
24 17 0.24
25 28 0.39
26 3 0.04
27 16 0.22
28 3 0.04
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.59
Consensus pattern (25 bp):
ATTTTTATATATTATTTATTTAAAT
Found at i:20365692 original size:64 final size:64
Alignment explanation
Indices: 20365619--20365743 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 64
20365609 TCATTCATAA
*
20365619 CACATCTAGTAAGGAGCATTAGATTCA-TTTCGATCATAGCATCCTAATTATTTGACATAAGAAT
1 CACATCTAGTAAGGAGCATTAGATTCATTTTC-AACATAGCATCCTAATTATTTGACATAAGAAT
* * * *
20365683 CACATCTAGTTAGGAGCATTTGATTCATTTTCAACATAGTATCCTAATTATTTGGCATAAG
1 CACATCTAGTAAGGAGCATTAGATTCATTTTCAACATAGCATCCTAATTATTTGACATAAG
20365744 CATAGATACA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 51 0.93
65 4 0.07
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (64 bp):
CACATCTAGTAAGGAGCATTAGATTCATTTTCAACATAGCATCCTAATTATTTGACATAAGAAT
Found at i:20365879 original size:43 final size:44
Alignment explanation
Indices: 20365818--20365924 Score: 155
Period size: 44 Copynumber: 2.5 Consensus size: 44
20365808 ATTCACTAGC
* *
20365818 CTTATC-CCTCTAAGCAGTAG-GGAACAGGTTGAAAATTACAGAT
1 CTTATCTCCT-TAAGCAGTAGAGAAACAGGCTGAAAATTACAGAT
*
20365861 CTTATCTCCTTAAGCAGTAGAGAAACAGGCTGGAAATTACAGAT
1 CTTATCTCCTTAAGCAGTAGAGAAACAGGCTGAAAATTACAGAT
*
20365905 CTTATCTCCCTAAGCAGTAG
1 CTTATCTCCTTAAGCAGTAG
20365925 TGGAGCGGAG
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
43 16 0.28
44 42 0.72
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
CTTATCTCCTTAAGCAGTAGAGAAACAGGCTGAAAATTACAGAT
Done.