Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 350 of 362
Found at i:116053741 original size:12 final size:13
Alignment explanation
Indices: 116053695--116053756 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 13
116053685 TATTAGTACC
* *
116053695 GATAATAATAACA
1 GATATTAATAATA
*
116053708 GAATATTGATAATA
1 G-ATATTAATAATA
116053722 GATA-TAATAAT-
1 GATATTAATAATA
116053733 GATATTAATAA-A
1 GATATTAATAATA
*
116053745 -ATATAAATAATA
1 GATATTAATAATA
116053757 TTAAAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
11 13 0.32
12 13 0.32
13 4 0.10
14 10 0.25
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (13 bp):
GATATTAATAATA
Found at i:116053759 original size:20 final size:20
Alignment explanation
Indices: 116053734--116053774 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
116053724 TATAATAATG
116053734 ATATT-AATAAAATATAAATA
1 ATATTAAATAAAATA-AAATA
116053754 ATATTAAAATAAAATAAAATA
1 ATATT-AAATAAAATAAAATA
116053775 CGTAAAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 5 0.26
22 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATTAAATAAAATAAAATA
Found at i:116055589 original size:22 final size:22
Alignment explanation
Indices: 116055564--116055605 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
116055554 AACATTACTC
* *
116055564 TTTTCTAAAA-AATAATTTATG
1 TTTTTTAAAATAATAAATTATG
116055585 TTTTTTAAAATAATAAATTAT
1 TTTTTTAAAATAATAAATTAT
116055606 TTTACAAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTTTAAAATAATAAATTATG
Found at i:116063442 original size:50 final size:50
Alignment explanation
Indices: 116063379--116063552 Score: 258
Period size: 50 Copynumber: 3.5 Consensus size: 50
116063369 TGACAACAAA
* *
116063379 TGATAAGTGATAGCTTCGGCCACACTTATCCGATCAAGGACAAATGAAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAG
* *
116063429 TGATAAGTAATAGCTTCGGCTACAATTATCTGATCAAGGACAAATGAAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAG
* *
116063479 TGATAAGTGATAGCTTCGGCTACACTTATCTAATCAATGACAAATGACAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA-AAG
* * *
116063530 TGAAAAGTGGTAGCTTCAGCTAC
1 TGATAAGTGATAGCTTCGGCTAC
116063553 CTGATCAGTG
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 89 0.79
51 23 0.21
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (50 bp):
TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAG
Found at i:116063566 original size:31 final size:31
Alignment explanation
Indices: 116063528--116063645 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
116063518 ACAAATGACA
116063528 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
116063559 AGTGAAAAGTGGTAGCTTCTGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
116063590 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
116063621 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
116063646 AAGTGACAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:116063809 original size:49 final size:47
Alignment explanation
Indices: 116063705--116063876 Score: 214
Period size: 49 Copynumber: 3.7 Consensus size: 47
116063695 TGCTACTGTA
* * * *
116063705 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
116063751 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CGTG
*
116063800 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTCGTG
116063842 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
116063877 AGATGTGTAA
Statistics
Matches: 116, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
41 1 0.01
42 35 0.30
44 1 0.01
45 1 0.01
46 25 0.22
47 1 0.01
48 14 0.12
49 38 0.33
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
Found at i:116063843 original size:42 final size:43
Alignment explanation
Indices: 116063748--116063911 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 43
116063738 TATGTGATTC
*
116063748 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
116063795 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
116063839 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
** **
116063881 GTGTAAGACCATAATTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
116063912 GAAAACGAAG
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
41 1 0.01
42 63 0.61
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 30 0.29
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:116065642 original size:23 final size:23
Alignment explanation
Indices: 116065614--116065690 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 23
116065604 CAATCAAATT
116065614 AAAAATAAAATTTATAATATATA
1 AAAAATAAAATTTATAATATATA
* * * * *
116065637 AAAAATTAAATCTATATTCTTCAAA
1 AAAAATAAAATTTATAAT-AT-ATA
*
116065662 AAAAACAAAATTTATAATA-ATA
1 AAAAATAAAATTTATAATATATA
*
116065684 AATAATA
1 AAAAATA
116065691 CTATAATGTA
Statistics
Matches: 39, Mismatches: 13, Indels: 5
0.68 0.23 0.09
Matches are distributed among these distances:
22 7 0.18
23 15 0.38
24 1 0.03
25 16 0.41
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAAATAAAATTTATAATATATA
Found at i:116065772 original size:24 final size:24
Alignment explanation
Indices: 116065742--116065790 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
116065732 AAAATTTTAA
116065742 TAAATTAAAAAAAATATTAAA-ATT
1 TAAATTAAAAAAAATA-TAAATATT
*
116065766 TAAATTAAAAATAATATAAATATT
1 TAAATTAAAAAAAATATAAATATT
116065790 T
1 T
116065791 TATTCAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAATTAAAAAAAATATAAATATT
Found at i:116070183 original size:25 final size:25
Alignment explanation
Indices: 116070155--116070204 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
116070145 TTGAATTATA
116070155 ATAATAAAA-ATGCAAAATCAAGCAC
1 ATAA-AAAATATGCAAAATCAAGCAC
116070180 ATAAAAAATATGCAAAATCAAGCAC
1 ATAAAAAATATGCAAAATCAAGCAC
116070205 TTAACATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (25 bp):
ATAAAAAATATGCAAAATCAAGCAC
Found at i:116072852 original size:10 final size:10
Alignment explanation
Indices: 116072839--116072867 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
116072829 TCTTCAACAT
116072839 TCTTCTTTCC
1 TCTTCTTTCC
116072849 TCTTCTTTCC
1 TCTTCTTTCC
116072859 TCTTCTTTC
1 TCTTCTTTC
116072868 TTTGGTGCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TCTTCTTTCC
Found at i:116086233 original size:9 final size:9
Alignment explanation
Indices: 116086219--116086297 Score: 97
Period size: 9 Copynumber: 8.8 Consensus size: 9
116086209 TAAAATTAGT
116086219 CGAATTAAC
1 CGAATTAAC
*
116086228 CAAATTAAC
1 CGAATTAAC
116086237 CGAATTAAC
1 CGAATTAAC
* *
116086246 TGAATTACC
1 CGAATTAAC
116086255 CGAATT-AC
1 CGAATTAAC
*
116086263 TCAAATTAAC
1 -CGAATTAAC
116086273 CGAATTAAC
1 CGAATTAAC
*
116086282 TGAATTAAC
1 CGAATTAAC
116086291 CGAATTA
1 CGAATTA
116086298 TTTGTATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
8 1 0.02
9 55 0.95
10 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (9 bp):
CGAATTAAC
Found at i:116086259 original size:36 final size:37
Alignment explanation
Indices: 116086219--116086297 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 37
116086209 TAAAATTAGT
*
116086219 CGAATTAAC-CAAATTAACCGAATTAACTGAATTACC
1 CGAATTAACTCAAATTAACCGAATTAACTGAATTAAC
116086255 CGAATT-ACTCAAATTAACCGAATTAACTGAATTAAC
1 CGAATTAACTCAAATTAACCGAATTAACTGAATTAAC
116086291 CGAATTA
1 CGAATTA
116086298 TTTGTATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (37 bp):
CGAATTAACTCAAATTAACCGAATTAACTGAATTAAC
Found at i:116086331 original size:6 final size:6
Alignment explanation
Indices: 116086320--116086358 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
116086310 TATATGTTTC
*
116086320 TTTATT TTTATT TTTAGTT TTAGATT TTTATT TTTATT T
1 TTTATT TTTATT TTTA-TT TT-TATT TTTATT TTTATT T
116086359 ATTAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 20 0.69
7 8 0.28
8 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:116092533 original size:10 final size:10
Alignment explanation
Indices: 116092513--116092555 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
116092503 AACCCAAAAT
116092513 AAAAAAT-AA
1 AAAAAATAAA
116092522 AAAAAATAAA
1 AAAAAATAAA
116092532 AAAAAATAAA
1 AAAAAATAAA
* *
116092542 GAAAAAGAAA
1 AAAAAATAAA
116092552 AAAA
1 AAAA
116092556 CCTAACCTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:116092535 original size:19 final size:20
Alignment explanation
Indices: 116092513--116092555 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
116092503 AACCCAAAAT
*
116092513 AAAAAATAAA-AAAAATAAA
1 AAAAAATAAAGAAAAAGAAA
116092532 AAAAAATAAAGAAAAAGAAA
1 AAAAAATAAAGAAAAAGAAA
116092552 AAAA
1 AAAA
116092556 CCTAACCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (20 bp):
AAAAAATAAAGAAAAAGAAA
Found at i:116105943 original size:47 final size:47
Alignment explanation
Indices: 116105892--116106028 Score: 121
Period size: 47 Copynumber: 3.0 Consensus size: 47
116105882 TCAGGCGGGG
*
116105892 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTATGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* * * * *
116105939 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATTAGGCG-GGG
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTTGA
*
116105980 AGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
116106027 AG
1 AG
116106029 TAAATCCAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 24
0.65 0.12 0.24
Matches are distributed among these distances:
39 3 0.05
40 6 0.09
41 20 0.30
42 3 0.05
46 4 0.06
47 21 0.32
48 6 0.09
49 3 0.05
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (47 bp):
AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
Found at i:116106005 original size:88 final size:88
Alignment explanation
Indices: 116105856--116106079 Score: 342
Period size: 88 Copynumber: 2.6 Consensus size: 88
116105846 AGCTGAAGAT
* *
116105856 ATCCAAGATGATTTGGCATTTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTAATTTGGCT
* *
116105921 TTCACGTGTTTATGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAA
*
116105944 ATCCAAGATGATTTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTAATTTGGCT
*
116106009 TTCACGTGTTTACGTTGAAGTAA
66 TTCACGTGTTTACGTTGAAGCAA
* * * * *
116106032 ATCCAAGATGATTTGGCGTCTCTATAGC-GGCAGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGA
116106080 TAACAGATTT
Statistics
Matches: 124, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
87 18 0.15
88 106 0.85
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTAATTTGGCT
TTCACGTGTTTACGTTGAAGCAA
Found at i:116106095 original size:44 final size:44
Alignment explanation
Indices: 116106041--116107013 Score: 1459
Period size: 44 Copynumber: 22.4 Consensus size: 44
116106031 AATCCAAGAT
* *
116106041 GATTTGGCGTCTCTATAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
116106085 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGGTCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
116106129 GATTTGGCGTCTCTGTAGCAGCGGAGAGTA-AGTCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA-TCGAAGATAACA
*
116106173 GATTTGTCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
116106213 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
116106257 GATTTGGCATCTCTGTAGCGGTGGAAAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
116106301 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** *
116106345 GATTTGGCGTCTCTGTAGCGGCTTAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
116106389 GATTTGGCGCCTCTGTAGCGGCGAAGAGCAGATCGAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
116106433 GATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* **
116106477 GATTTGGCGTCTCTGTAGTGGTAGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
116106517 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
116106561 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
116106605 AATTTGGCGTCTCTGTAGCGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
116106649 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
116106693 AATTTAGCGTCTCTATAGCGACAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
116106737 GATTTGACGTCTCTGTAGCGGCGAAGAGTAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
116106777 GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
116106821 GATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
116106865 GATTTGGCGTCTCCGTAGCGGTGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
116106909 GATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
116106953 GATTTTGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
116106997 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
116107014 TTAGACAGGA
Statistics
Matches: 837, Mismatches: 78, Indels: 28
0.89 0.08 0.03
Matches are distributed among these distances:
40 110 0.13
44 726 0.87
45 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:116106405 original size:260 final size:257
Alignment explanation
Indices: 116106041--116107013 Score: 1450
Period size: 260 Copynumber: 3.7 Consensus size: 257
116106031 AATCCAAGAT
* *
116106041 GATTTGGCGTCTCTATAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
116106106 CGGAGAGCAGGTCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGTA-AGTCGAAGATA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGA-TCGAAGATA
*
116106170 ACAGATTTGTCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-GATTTGGCATCTCTGTAGCGG
130 ACAGATTTGTCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGG
* *
116106234 CGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGTGGAAAGCAGATCGAAGATAA
195 CGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
116106299 CA
256 CA
*
116106301 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
** * * * * *
116106366 CTTAGAGCAGATCAAAGATAACAGATTTGGCGCCTCTGTAGCGGCGAAGAGCAGATCGAAAATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAA
* *
116106431 CAGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGT
131 CAGATTTGTCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAGC
** *
116106496 GGTAGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
193 GGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
116106561 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAATTTGGCGTCTCTGTAGCGA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
116106626 CGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAA
* * * * *
116106691 CAAATTTAG-CGTCTCTATAGCGACAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAG
131 CAGATTT-GTCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCGTCTCTGTAG
* * *
116106755 CGGCGAAGAGTAGATCGAAGATGATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAAC
192 CGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC
116106820 A
257 A
* *
116106821 GATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
116106886 TGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCAAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAA
116106951 CAGATTT-TGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTA
131 CAGATTTGT-CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-A--GATTTGGCGTCTCTGTA
116107014 TTAGACAGGA
Statistics
Matches: 647, Mismatches: 56, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
258 1 0.00
260 608 0.94
261 2 0.00
264 36 0.06
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.22
Consensus pattern (257 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAA
CAGATTTGTCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCGTCTCTGTAGCGGC
GGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:116106506 original size:304 final size:304
Alignment explanation
Indices: 116106041--116107013 Score: 1508
Period size: 304 Copynumber: 3.2 Consensus size: 304
116106031 AATCCAAGAT
* *
116106041 GATTTGGCGTCTCTATAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * * *
116106106 CGGAGAGCAGGTCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGTA-AGTCGAAGATA
66 CGAAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGTAGA-TCGAAGATA
*
116106170 ACAGATTTGTCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGC
130 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGC
* *
116106235 GGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGTGGAAAGCAGATCGAAGATAAC
195 GGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAAC
*
116106300 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
260 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** * *
116106345 GATTTGGCGTCTCTGTAGCGGCTTAGAGCAGATCAAAGATAACAGATTTGGCGCCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
116106410 CGAAGAGCAGATCGAAAATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
66 CGAAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAA
* ** *
116106475 CAGATTTGGCGTCTCTGTAGTGGTAGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCA
131 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCG
*
116106540 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
196 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACA
* * *
116106605 AATTTGGCGTCTCTGTAGCGACGGGGAGCAGATCGAAGATAACA
261 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
116106649 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAAATTTAGCGTCTCTATAGCGA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
116106714 C-AGAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGAAGAGTAGATCGAAGAT-
66 CGA-AGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATA
* * * *
116106777 ---GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAG
130 ACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAG
*
116106839 CGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCGTAGCGGTGGAGAGCAGATCGAAGA
191 CGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGA
* *
116106904 TAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCAAAGATAACA
256 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
116106953 GATTTTGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
116107014 TTAGACAGGA
Statistics
Matches: 609, Mismatches: 54, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
300 35 0.06
303 1 0.00
304 572 0.94
305 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.22
Consensus pattern (304 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
CGAAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAA
CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCG
GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACA
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:116107319 original size:10 final size:10
Alignment explanation
Indices: 116107304--116107330 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
116107294 AATACAACCC
116107304 AAAAAAAAAT
1 AAAAAAAAAT
116107314 AAAAAAAAAT
1 AAAAAAAAAT
116107324 AAAAAAA
1 AAAAAAA
116107331 TGAAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:116107329 original size:18 final size:18
Alignment explanation
Indices: 116107306--116107348 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
116107296 TACAACCCAA
*
116107306 AAAAAAATAAAAAAAAAT
1 AAAAAAATAAAAAAAAAG
* *
116107324 AAAAAAATGAAGAAAAAG
1 AAAAAAATAAAAAAAAAG
116107342 AAAAAAA
1 AAAAAAA
116107349 AACCTAACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAAAATAAAAAAAAAG
Found at i:116108535 original size:19 final size:19
Alignment explanation
Indices: 116108511--116108548 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
116108501 TTGAGATTGC
*
116108511 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
116108530 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
116108549 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:116109822 original size:27 final size:28
Alignment explanation
Indices: 116109731--116109836 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 28
116109721 TAGTGTTAAT
* * *
116109731 TGGGCCTTAGCCCATATCAATATTAATC
1 TGGGCCATAGCCCATATCAGTATCAATC
* *
116109759 TGGGCCATAGCCCCT-TACAGTAACAGAGTATAC
1 TGGGCCATAGCCCATAT-CAGTATC--A--AT-C
116109792 TGGGCC-TAGCCCATATCAGTATCAATC
1 TGGGCCATAGCCCATATCAGTATCAATC
*
116109819 TGGGCC-TTGCCCATATCA
1 TGGGCCATAGCCCATATCA
116109837 ATACAGTTGG
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
27 19 0.30
28 19 0.30
30 2 0.03
32 15 0.24
33 8 0.13
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (28 bp):
TGGGCCATAGCCCATATCAGTATCAATC
Found at i:116109857 original size:20 final size:19
Alignment explanation
Indices: 116109827--116109872 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
116109817 TCTGGGCCTT
116109827 GCCCATATCAATACAGTTG
1 GCCCATATCAATACAGTTG
*
116109846 GACCCATTTCAATACAGTTG
1 G-CCCATATCAATACAGTTG
116109866 GCCCATA
1 GCCCATA
116109873 ACAAAATAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (19 bp):
GCCCATATCAATACAGTTG
Found at i:116113757 original size:15 final size:17
Alignment explanation
Indices: 116113740--116113771 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
116113730 CGATATCAAT
116113740 AAAAAT-TATAAAAATA
1 AAAAATATATAAAAATA
116113756 AAAAATATATAAAAAT
1 AAAAATATATAAAAAT
116113772 GGTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAATATATAAAAATA
Found at i:116114575 original size:27 final size:29
Alignment explanation
Indices: 116114542--116114601 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
116114532 AGTTCCATGA
* *
116114542 TTTTATTTTGTTCA-TTT-TTTTATAATT
1 TTTTATTTTATCCACTTTATTTTATAATT
*
116114569 TTTTATTTTATCCACTTTATTTTTTAATT
1 TTTTATTTTATCCACTTTATTTTATAATT
116114598 TTTT
1 TTTT
116114602 TAAAAGTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 12 0.43
28 3 0.11
29 13 0.46
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTTATTTTATCCACTTTATTTTATAATT
Found at i:116118924 original size:30 final size:30
Alignment explanation
Indices: 116118855--116118928 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
116118845 ATTGAGCTAA
* *
116118855 AAACTTTTATAAAAATGCTCAAATAAAGATG
1 AAACTTTT-TTAAAATGATCAAATAAAGATG
*
116118886 AAAC-TTTTTAAAATGATCAAATAAGAGCT-
1 AAACTTTTTTAAAATGATCAAATAA-AGATG
116118915 AAACTTTTTTAAAA
1 AAACTTTTTTAAAA
116118929 GCACTTGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 19 0.50
30 15 0.39
31 4 0.11
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.32
Consensus pattern (30 bp):
AAACTTTTTTAAAATGATCAAATAAAGATG
Found at i:116125963 original size:11 final size:11
Alignment explanation
Indices: 116125947--116125971 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
116125937 AAGTCTTGTC
116125947 TTACATAAATA
1 TTACATAAATA
116125958 TTACATAAATA
1 TTACATAAATA
116125969 TTA
1 TTA
116125972 TGGTATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (11 bp):
TTACATAAATA
Found at i:116134029 original size:12 final size:13
Alignment explanation
Indices: 116134012--116134048 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
116134002 GAACCGGACA
116134012 CGAACCGAA-CTC
1 CGAACCGAAGCTC
116134024 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
116134036 CGAACCGTAGCTC
1 CGAACCGAAGCTC
116134049 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:116136815 original size:13 final size:13
Alignment explanation
Indices: 116136797--116136828 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
116136787 ACCATCACAA
116136797 GAAGAAAGAAGTT
1 GAAGAAAGAAGTT
116136810 GAAGAAAGAAGTT
1 GAAGAAAGAAGTT
116136823 GAAGAA
1 GAAGAA
116136829 TGGATGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.12
Consensus pattern (13 bp):
GAAGAAAGAAGTT
Found at i:116137131 original size:17 final size:18
Alignment explanation
Indices: 116137084--116137120 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
116137074 TTATTTTTAA
*
116137084 AAAATAATATAATATAAT
1 AAAATCATATAATATAAT
116137102 AAAATCATATAAT-TAAT
1 AAAATCATATAATATAAT
116137119 AA
1 AA
116137121 TTATATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATCATATAATATAAT
Found at i:116137147 original size:30 final size:30
Alignment explanation
Indices: 116137086--116137163 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
116137076 ATTTTTAAAA
* *
116137086 AATAATATAATATAATAAAATCATATAATT
1 AATAATATAATATAATAAAAGCAAATAATT
116137116 AATAAT-TATATATAATAAAAGCAAA-ATATT
1 AATAATATA-ATATAATAAAAGCAAATA-ATT
* *
116137146 AATATATTTAATAAAATA
1 AATA-ATATAATATAATA
116137164 TTTAATTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 3 0.07
30 27 0.66
31 9 0.22
32 2 0.05
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (30 bp):
AATAATATAATATAATAAAAGCAAATAATT
Found at i:116140229 original size:16 final size:17
Alignment explanation
Indices: 116140208--116140242 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
116140198 TTAGCACTCA
116140208 TTTAA-TATAAAATATT
1 TTTAATTATAAAATATT
*
116140224 TTTAATTATTAAATATT
1 TTTAATTATAAAATATT
116140241 TT
1 TT
116140243 ATGTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATTATAAAATATT
Found at i:116152851 original size:18 final size:20
Alignment explanation
Indices: 116152832--116152868 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
116152822 TTTTTTCATA
116152832 TTAATTTTTAAAT-TTGTAT
1 TTAATTTTTAAATATTGTAT
*
116152851 TTCATTTTTAAATATTGT
1 TTAATTTTTAAATATTGT
116152869 TAAAAGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (20 bp):
TTAATTTTTAAATATTGTAT
Found at i:116164786 original size:18 final size:19
Alignment explanation
Indices: 116164740--116164789 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
116164730 TAATGTAATG
116164740 TTATTTTTTAAAAATCATAA
1 TTATTTTTTAAAAA-CATAA
116164760 TT-TTTTTTAAAAA-A-AA
1 TTATTTTTTAAAAACATAA
116164776 TTATTTGTTTAAAA
1 TTATTT-TTTAAAA
116164790 TTTTAGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 7 0.25
19 11 0.39
20 2 0.07
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTTTTTAAAAACATAA
Found at i:116170406 original size:23 final size:21
Alignment explanation
Indices: 116170374--116170418 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
116170364 TTAAGAGATT
*
116170374 ATTATGTGTTCTATTTATTTTTA
1 ATTATGTGTT-T-TTAATTTTTA
*
116170397 ATTATTTGTTTTTAATTTTTA
1 ATTATGTGTTTTTAATTTTTA
116170418 A
1 A
116170419 ATTCACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
ATTATGTGTTTTTAATTTTTA
Found at i:116170408 original size:14 final size:14
Alignment explanation
Indices: 116170385--116170417 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
116170375 TTATGTGTTC
116170385 TATTTATTTTTAAT
1 TATTTATTTTTAAT
*
116170399 TATTTGTTTTTAAT
1 TATTTATTTTTAAT
116170413 T-TTTA
1 TATTTA
116170418 AATTCACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TATTTATTTTTAAT
Found at i:116179071 original size:17 final size:18
Alignment explanation
Indices: 116179038--116179071 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
116179028 TAGTCCTCAT
*
116179038 TTTAATTTTTGCCATTTA
1 TTTAATTTTTGCAATTTA
116179056 TTTAATTTTT-CAATTT
1 TTTAATTTTTGCAATTT
116179072 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTAATTTTTGCAATTTA
Found at i:116180716 original size:22 final size:21
Alignment explanation
Indices: 116180686--116180728 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
116180676 AATTAAAAAG
*
116180686 TTTTAATTTTTTTTTTGATAAT
1 TTTTAATTTTTTTATT-ATAAT
*
116180708 TTTTTATTTTTTTATTATAAT
1 TTTTAATTTTTTTATTATAAT
116180729 GGTCGCGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTAATTTTTTTATTATAAT
Found at i:116182582 original size:19 final size:21
Alignment explanation
Indices: 116182536--116182585 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
116182526 TTATATGAAG
116182536 ATAAAAAAATTATTAAAAATT
1 ATAAAAAAATTATTAAAAATT
*
116182557 A-ATAAAATATT-TT-AAAATT
1 ATA-AAAAAATTATTAAAAATT
116182576 ATAAAAAAAT
1 ATAAAAAAAT
116182586 CACGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.52
20 4 0.16
21 8 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAAAAAAATTATTAAAAATT
Found at i:116182583 original size:10 final size:10
Alignment explanation
Indices: 116182499--116182583 Score: 52
Period size: 10 Copynumber: 8.7 Consensus size: 10
116182489 AGATAATCAC
*
116182499 TAAAAAATTT
1 TAAAAAATTA
116182509 TAAAAAATTA
1 TAAAAAATTA
* *
116182519 TGAATAATTA
1 TAAAAAATTA
* *
116182529 TATGAAGA-TA
1 TA-AAAAATTA
116182539 -AAAAAATTA
1 TAAAAAATTA
*
116182548 TTAAAAATTAA
1 TAAAAAATT-A
*
116182559 TAAAATATT-
1 TAAAAAATTA
*
116182568 T-TAAAATTA
1 TAAAAAATTA
116182577 TAAAAAA
1 TAAAAAA
116182584 ATCACGTTTA
Statistics
Matches: 54, Mismatches: 15, Indels: 12
0.67 0.19 0.15
Matches are distributed among these distances:
8 8 0.15
9 5 0.09
10 31 0.57
11 10 0.19
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:116185497 original size:31 final size:31
Alignment explanation
Indices: 116185457--116185525 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
116185447 TTATAAATTT
*
116185457 GTCATTAAACAATTCAG-AAGTTTTCATTTAA
1 GTCACTAAACAATT-AGAAAGTTTTCATTTAA
* * *
116185488 GTTACTAAACTATTTGAAAGTTTTCATTTAA
1 GTCACTAAACAATTAGAAAGTTTTCATTTAA
116185519 GTCACTA
1 GTCACTA
116185526 GGCTGTTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (31 bp):
GTCACTAAACAATTAGAAAGTTTTCATTTAA
Found at i:116188293 original size:20 final size:21
Alignment explanation
Indices: 116188265--116188310 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
116188255 ACTCTTGTTT
* * *
116188265 TATTGTTAATTTTTTA-AATA
1 TATTTTTAATTTGTTAGAAAA
116188285 TATTTTTAATTTGTTAGAAAA
1 TATTTTTAATTTGTTAGAAAA
116188306 TATTT
1 TATTT
116188311 ATTTTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
TATTTTTAATTTGTTAGAAAA
Found at i:116188920 original size:20 final size:20
Alignment explanation
Indices: 116188895--116188945 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
116188885 GAAACCAGTT
116188895 TTTTGAAAACGGGAACCGAC
1 TTTTGAAAACGGGAACCGAC
*
116188915 TTTTGAAAACGGGAATCGAC
1 TTTTGAAAACGGGAACCGAC
116188935 TTTTGAAAACG
1 TTTTGAAAACG
116188946 AAAGTTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (20 bp):
TTTTGAAAACGGGAACCGAC
Found at i:116189827 original size:22 final size:23
Alignment explanation
Indices: 116189793--116189837 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
116189783 ATACACGTAG
116189793 AATAATATGGAAACAA-TAATAA
1 AATAATATGGAAACAATTAATAA
116189815 AATATATAT-GAAACAATTAATAA
1 AATA-ATATGGAAACAATTAATAA
116189838 CGTTGTGCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (23 bp):
AATAATATGGAAACAATTAATAA
Found at i:116195592 original size:22 final size:22
Alignment explanation
Indices: 116195567--116195609 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
116195557 TTAGCATATT
116195567 ATTTATTAATTAT-TTTCTTTTA
1 ATTTATTAATTATATTT-TTTTA
* *
116195589 ATTTTTTATTTATATTTTTTT
1 ATTTATTAATTATATTTTTTT
116195610 GTAAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
ATTTATTAATTATATTTTTTTA
Found at i:116195633 original size:12 final size:12
Alignment explanation
Indices: 116195616--116195656 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
116195606 TTTTGTAAAT
116195616 ATATTAAATTAA
1 ATATTAAATTAA
116195628 ATATT-AATATAA
1 ATATTAAAT-TAA
116195640 ATA-TAAATTAA
1 ATATTAAATTAA
116195651 TATATT
1 -ATATT
116195657 TTATTCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 7 0.28
12 17 0.68
13 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATTAAATTAA
Found at i:116196244 original size:85 final size:82
Alignment explanation
Indices: 116196101--116196316 Score: 254
Period size: 84 Copynumber: 2.6 Consensus size: 82
116196091 AAGCAAGGGA
* *
116196101 CTTGGT-CCCTTGGTTTGGTAAATATTCCTCTTTTAGTCCTCTAAATTTATAAGCTTGTCAGTTA
1 CTTGGTCCCCTTGGTTTGGTAAA-ATTCCTC-TTTAGTCCTCAAAATTTATAAGCTTGTCAGCTA
116196165 ATTAAATGGTAAAAATAAAC
64 ATTAAATGG-AAAAATAAAC
* * * *
116196185 TTTGGTCCCCTTGATTTGGTAAAATTCCTCATTTAGGTCCTCAAAATTTGTAATCTTGTCAGCTA
1 CTTGGTCCCCTTGGTTTGGTAAAATTCCTC-TTTA-GTCCTCAAAATTTATAAGCTTGTCAGCTA
* **
116196250 ATTCAATGGAAAAATGTAC
64 ATTAAATGGAAAAATAAAC
** *
116196269 CTTGAACCCATTGGTTTGGTAAAATTCCTCTTGTAGTCCTCCAAAATT
1 CTTGGTCCCCTTGGTTTGGTAAAATTCCTCTT-TAGTCCT-CAAAATT
116196317 GTTAACTTGA
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
83 7 0.06
84 58 0.51
85 48 0.42
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (82 bp):
CTTGGTCCCCTTGGTTTGGTAAAATTCCTCTTTAGTCCTCAAAATTTATAAGCTTGTCAGCTAAT
TAAATGGAAAAATAAAC
Found at i:116198850 original size:14 final size:14
Alignment explanation
Indices: 116198831--116198860 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
116198821 ACTCTAATAA
*
116198831 TTTATTTATTTGTT
1 TTTATTTATTTATT
116198845 TTTATTTATTTATT
1 TTTATTTATTTATT
116198859 TT
1 TT
116198861 ATGAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:116203503 original size:17 final size:17
Alignment explanation
Indices: 116203481--116203516 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
116203471 ACATCATCAC
116203481 TTAAAAAATTATATAAT
1 TTAAAAAATTATATAAT
116203498 TTAAAAAATTATATAAT
1 TTAAAAAATTATATAAT
116203515 TT
1 TT
116203517 TTTAAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAAAATTATATAAT
Found at i:116209661 original size:53 final size:53
Alignment explanation
Indices: 116209581--116209686 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
116209571 AAAAAAGCGA
116209581 CTAAAACTAAGCCCAACCGATTTCTGTCCAAGCACAAATTGAATGAATCTATG
1 CTAAAACTAAGCCCAACCGATTTCTGTCCAAGCACAAATTGAATGAATCTATG
116209634 CTAAAACTAAGCCCAACCGATTTCTGTCCAAGCACAAATTGAATGAATCTATG
1 CTAAAACTAAGCCCAACCGATTTCTGTCCAAGCACAAATTGAATGAATCTATG
116209687 ATGAACATAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (53 bp):
CTAAAACTAAGCCCAACCGATTTCTGTCCAAGCACAAATTGAATGAATCTATG
Found at i:116210110 original size:21 final size:21
Alignment explanation
Indices: 116210086--116210130 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
116210076 AACTTTTGAT
116210086 ATTAAATATGATT-ATAGAAAA
1 ATTAAA-ATGATTAATAGAAAA
* *
116210107 ATTAAAATGGTTAATATAAAA
1 ATTAAAATGATTAATAGAAAA
116210128 ATT
1 ATT
116210131 TTAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (21 bp):
ATTAAAATGATTAATAGAAAA
Found at i:116211003 original size:10 final size:10
Alignment explanation
Indices: 116210988--116211013 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
116210978 CTTCGGCCAC
116210988 AAAAAAGAAA
1 AAAAAAGAAA
116210998 AAAAAAGAAA
1 AAAAAAGAAA
116211008 AAAAAA
1 AAAAAA
116211014 AGGGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:116211009 original size:11 final size:11
Alignment explanation
Indices: 116210988--116211025 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
116210978 CTTCGGCCAC
116210988 AAAAAAG-AAA
1 AAAAAAGAAAA
116210998 AAAAAAGAAAA
1 AAAAAAGAAAA
116211009 AAAAAAGGGAAAA
1 AAAAAA--GAAAA
116211022 AAAA
1 AAAA
116211026 CCTTTGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 7 0.28
11 9 0.36
13 9 0.36
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:116220534 original size:188 final size:188
Alignment explanation
Indices: 116220197--116220546 Score: 594
Period size: 188 Copynumber: 1.9 Consensus size: 188
116220187 TCCAGTAAGG
* * *
116220197 AATCTGAAAGAACAACCTTCAGACAACTTAACCTCCGATTTGAGGGATAAAAGTAGAAGTCTATG
1 AATCTAAAAGAACAACCTTCAGACAACTTAACCTCCAATTCGAGGGATAAAAGTAGAAGTCTATG
* *
116220262 ATCTAACTTGACCCTCAAGAGGTAAGTGACTGAGCAATACGGAAAAGGCCTTATCCAAGCATCGT
66 ATCTAACTTGACCCTCAAGAGGTAAGTGACTGAGCAATACAGAAAAGGCCTCATCCAAGCATCGT
*
116220327 TACCAATTGCCCTATCAAGTCTTTCATAAAGCCCGGGTATTCAATTCAGCCAATTAGA
131 TACCAATTGCCCTATCAAGTCATTCATAAAGCCCGGGTATTCAATTCAGCCAATTAGA
* *
116220385 AATCTAAAAGGAA-AACCTTTAGACAACTTAACCTCCAATTCGAGGGATAAAAGTAGAGGTCTAT
1 AATCTAAAA-GAACAACCTTCAGACAACTTAACCTCCAATTCGAGGGATAAAAGTAGAAGTCTAT
*
116220449 GATCTAACTTGACCCTCAAGAGGTAAGTGACTGAGCAATATAGAAAAGGCCTCATCCAAGCATCG
65 GATCTAACTTGACCCTCAAGAGGTAAGTGACTGAGCAATACAGAAAAGGCCTCATCCAAGCATCG
*
116220514 TTACCAATTTCCCTATCAAGTCATTCATAAAGC
130 TTACCAATTGCCCTATCAAGTCATTCATAAAGC
116220547 TCACCTCGAT
Statistics
Matches: 151, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
188 148 0.98
189 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (188 bp):
AATCTAAAAGAACAACCTTCAGACAACTTAACCTCCAATTCGAGGGATAAAAGTAGAAGTCTATG
ATCTAACTTGACCCTCAAGAGGTAAGTGACTGAGCAATACAGAAAAGGCCTCATCCAAGCATCGT
TACCAATTGCCCTATCAAGTCATTCATAAAGCCCGGGTATTCAATTCAGCCAATTAGA
Found at i:116222916 original size:47 final size:45
Alignment explanation
Indices: 116222812--116223024 Score: 175
Period size: 47 Copynumber: 4.6 Consensus size: 45
116222802 TACGCGTGCT
** * * * *
116222812 GATGCATGTCCCAGACATATCTTACACTAGCACAACTCT-TAG-TC
1 GATGCATGTCCCAGACACGTCTTACACTGGC-TATCTCTGTAGACC
*
116222856 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCAAGACC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGT--AGACC
* *
116222903 GATGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTGT-G-CC
1 GATGCATGTCCCAGACACGTCTTACACTGG--CT-ATCTCTGTAGACC
* * * **
116222949 GATACCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGATT
1 GAT-GCATGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTA-GACC
116222997 GATGCATGTCCCAGACACGTCTTACACT
1 GATGCATGTCCCAGACACGTCTTACACT
116223025 AACCCTCGTC
Statistics
Matches: 138, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
43 5 0.04
44 28 0.20
45 5 0.04
46 20 0.14
47 56 0.41
48 14 0.10
49 2 0.01
50 8 0.06
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTGTAGACC
Found at i:116223010 original size:94 final size:93
Alignment explanation
Indices: 116222757--116223118 Score: 317
Period size: 94 Copynumber: 3.9 Consensus size: 93
116222747 ATGGGATATA
* * *
116222757 GTGTCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTG-CTGATGCATG
1 GTGTCGAT-CCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA----TGACCGATGCATG
* *
116222820 TCCCAGACATATCTTACACTAGCA--CAACTCT
61 TCCCAGACATGTCTTACACTAGCACTCATCTCT
* * * * *
116222851 -TAGTCGATGCGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCAAGACCGATGCATGTC
1 GT-GTCGATCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT-ATGACCGATGCATGTC
* *
116222913 CCAGACATGTCTTACATTGGCACTCATCTCT
63 CCAGACATGTCTTACACTAGCACTCATCTCT
* **
116222944 GTGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGATTGATGCATGTCCC
1 GTGTCGAT-CCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGACCGATGCATGTCCC
* * * * *
116223009 AGACACGTCTTACACTAACCCTCGTCT-G
65 AGACATGTCTTACACTAGCACTCATCTCT
* * * * * * * *
116223037 GATGTCGATGCCACGTCCCAAACATGGTCTTACGCTGGCTCTCATAATGTGGCCGAAGCATGTCC
1 G-TGTCGAT-CCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGACCGATGCATGTCC
116223102 CAGACATGTCTTACACT
64 CAGACATGTCTTACACT
116223119 GGCGCACAAA
Statistics
Matches: 216, Mismatches: 40, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
90 1 0.00
91 31 0.14
92 16 0.07
93 25 0.12
94 123 0.57
95 19 0.09
96 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
GTGTCGATCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGACCGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTCT
Found at i:116223952 original size:13 final size:13
Alignment explanation
Indices: 116223934--116223958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116223924 ATGATATTTT
116223934 AGATGGAGAAGAG
1 AGATGGAGAAGAG
116223947 AGATGGAGAAGA
1 AGATGGAGAAGA
116223959 AAGAAATGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.44, T:0.08
Consensus pattern (13 bp):
AGATGGAGAAGAG
Found at i:116243108 original size:37 final size:37
Alignment explanation
Indices: 116243001--116243109 Score: 102
Period size: 37 Copynumber: 3.0 Consensus size: 37
116242991 AAATAATAAC
116243001 TAAAAATAATTTATCATTCAATATGGTAAATAATTT-
1 TAAAAATAATTTATCATTCAATATGGTAAATAATTTA
* * ** * * *
116243037 TAAATGATCATAAAACATT-TA-AT--TAAAGATATTTA
1 TAAA-AATAATTTATCATTCAATATGGTAAATA-ATTTA
116243072 TAAAAATAATTTATCATTCAATATGGTAAATAATTTA
1 TAAAAATAATTTATCATTCAATATGGTAAATAATTTA
116243109 T
1 T
116243110 CCATAATTTT
Statistics
Matches: 52, Mismatches: 14, Indels: 13
0.66 0.18 0.16
Matches are distributed among these distances:
33 5 0.10
34 13 0.25
35 7 0.13
36 7 0.13
37 15 0.29
38 5 0.10
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (37 bp):
TAAAAATAATTTATCATTCAATATGGTAAATAATTTA
Found at i:116252178 original size:31 final size:31
Alignment explanation
Indices: 116252140--116252204 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
116252130 TCTCTCTCTC
116252140 TCTCTCTCTTCACATTAGTTCACCCGTGGTT
1 TCTCTCTCTTCACATTAGTTCACCCGTGGTT
*
116252171 TCTCTCTCTTCACATTAGTTCACTCGTGGTT
1 TCTCTCTCTTCACATTAGTTCACCCGTGGTT
116252202 TCT
1 TCT
116252205 ATGTGATGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.12, C:0.31, G:0.12, T:0.45
Consensus pattern (31 bp):
TCTCTCTCTTCACATTAGTTCACCCGTGGTT
Found at i:116257547 original size:13 final size:13
Alignment explanation
Indices: 116257527--116257565 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
116257517 TTTTTTTTAC
116257527 TTTTTTTTTATGT
1 TTTTTTTTTATGT
116257540 TTTGTTTTTTATGT
1 TTT-TTTTTTATGT
*
116257554 TTATTTATTTAT
1 TT-TTTTTTTAT
116257566 TTATTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 19 0.83
15 1 0.04
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTATGT
Found at i:116257611 original size:32 final size:31
Alignment explanation
Indices: 116257575--116257766 Score: 110
Period size: 31 Copynumber: 6.0 Consensus size: 31
116257565 TTTATTTATA
*
116257575 AAATTAAATCATAATTTAAAATATTATAAAAT
1 AAATTAAATAAT-ATTTAAAATATTATAAAAT
116257607 AAATTAAATAATATTTAAAATATTATAAAATT
1 AAATTAAATAATATTTAAAATATTATAAAA-T
**
116257639 AATAACAAATTTGAA-AGTTTAAAATATT-T-AAAT
1 AA-ATTAAA--T-AATA-TTTAAAATATTATAAAAT
** * * * *
116257672 --ATTTTATATTATTAAAAATATATTTAATATT
1 AAATTAAATAATATTTAAAATAT-TATAA-AAT
* *
116257703 AAA--AAATAATATTTAAAATTTTAAAAAAT
1 AAATTAAATAATATTTAAAATATTATAAAAT
* *
116257732 AATTTCAAAATATATATTTAAAATATTAAAAAAT
1 AAATT--AAATA-ATATTTAAAATATTATAAAAT
116257766 A
1 A
116257767 TATATAAAAT
Statistics
Matches: 122, Mismatches: 20, Indels: 34
0.69 0.11 0.19
Matches are distributed among these distances:
27 10 0.08
28 3 0.02
29 5 0.04
30 6 0.05
31 33 0.27
32 14 0.11
33 11 0.09
34 24 0.20
35 3 0.02
36 13 0.11
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (31 bp):
AAATTAAATAATATTTAAAATATTATAAAAT
Found at i:116257696 original size:21 final size:22
Alignment explanation
Indices: 116257669--116257734 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 22
116257659 AAAATATTTA
*
116257669 AATATTTTATATTATTAAAAAT
1 AATATTTAATATTATTAAAAAT
116257691 -ATATTTAATATTA--AAAAAT
1 AATATTTAATATTATTAAAAAT
*
116257710 AATATTTAAAATT-TTAAAAAAT
1 AATATTTAATATTATT-AAAAAT
116257732 AAT
1 AAT
116257735 TTCAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 6 0.16
20 11 0.29
21 12 0.32
22 9 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATTTAATATTATTAAAAAT
Found at i:116257726 original size:22 final size:22
Alignment explanation
Indices: 116257681--116257744 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
116257671 TATTTTATAT
116257681 TATT-AAAAAT-ATATTT--AA
1 TATTAAAAAATAATATTTAAAA
116257699 TATTAAAAAATAATATTTAAAA
1 TATTAAAAAATAATATTTAAAA
* *
116257721 TTTTAAAAAATAAT-TTCAAAA
1 TATTAAAAAATAATATTTAAAA
116257742 TAT
1 TAT
116257745 ATATTTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 4 0.10
19 6 0.15
20 6 0.15
21 8 0.21
22 15 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TATTAAAAAATAATATTTAAAA
Found at i:116257784 original size:23 final size:21
Alignment explanation
Indices: 116257738--116257779 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
116257728 AAATAATTTC
* *
116257738 AAAATATATATTTAAAATATT
1 AAAAAATATATATAAAATATT
116257759 AAAAAATATATATAAAATATT
1 AAAAAATATATATAAAATATT
116257780 CTAAATTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAAATATATATAAAATATT
Found at i:116257825 original size:17 final size:18
Alignment explanation
Indices: 116257803--116257846 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
116257793 ATTTAATAAT
116257803 AATAAACAAATAAA-ATA
1 AATAAACAAATAAACATA
*
116257820 AATAAATAAATAAACATA
1 AATAAACAAATAAACATA
116257838 AA-AAACAAA
1 AATAAACAAA
116257847 ACATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (18 bp):
AATAAACAAATAAACATA
Found at i:116272224 original size:3 final size:3
Alignment explanation
Indices: 116272216--116272399 Score: 60
Period size: 3 Copynumber: 62.0 Consensus size: 3
116272206 ATATATGTAT
* * * * * *
116272216 ATA ATA ATA ATA GTA AT- ATA ATG GTG ATA ACA A-A A-A ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
116272261 AAA ATA ATA A-A GATA GTA ATA ATG ATA ATA ATA ATA GTA ACGA A-A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
** * * * ** * *
116272306 GATA ATA AGG AGA ATA ACA ATA GTGA A-A ATA GCA ATA A-A ACA AAA
1 -ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* *
116272351 ATA ATA ATA ATA ATA GTA AGTA A-A ACAA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA A-TA ATA ATA ATA ATA ATA ATA
116272397 ATA
1 ATA
116272400 GTAGCAAATG
Statistics
Matches: 133, Mismatches: 35, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
2 14 0.11
3 109 0.82
4 10 0.08
ACGTcount: A:0.63, C:0.03, G:0.10, T:0.24
Consensus pattern (3 bp):
ATA
Found at i:116272504 original size:20 final size:19
Alignment explanation
Indices: 116272481--116272522 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 19
116272471 AATAAAATGT
116272481 AATA-AAATAGTTTGAAATAA
1 AATAGAAATAG-TT-AAATAA
116272501 AATAGGAAATAGTTAAATAA
1 AATA-GAAATAGTTAAATAA
116272521 AA
1 AA
116272523 ATTAAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (19 bp):
AATAGAAATAGTTAAATAA
Found at i:116273303 original size:21 final size:21
Alignment explanation
Indices: 116273278--116273317 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
116273268 CCTTTTTTAG
* *
116273278 AATACCATCGGTTCCCCCTAA
1 AATACAATCGATTCCCCCTAA
116273299 AATACAATCGATTCCCCCT
1 AATACAATCGATTCCCCCT
116273318 TTGAAATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.38, G:0.07, T:0.25
Consensus pattern (21 bp):
AATACAATCGATTCCCCCTAA
Found at i:116273972 original size:21 final size:21
Alignment explanation
Indices: 116273948--116274015 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
116273938 TTTTTTTTAC
116273948 TGTTATTTTGCTATCCTTTGT
1 TGTTATTTTGCTATCCTTTGT
* * *
116273969 TGTTA-TTTGCTGTCATTTTGA
1 TGTTATTTTGCTATC-CTTTGT
* *
116273990 TGTTGTTTTGCTA-CCATT-T
1 TGTTATTTTGCTATCCTTTGT
116274009 TGTTATT
1 TGTTATT
116274016 AGTGTTTAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
19 6 0.17
20 10 0.28
21 14 0.39
22 6 0.17
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.60
Consensus pattern (21 bp):
TGTTATTTTGCTATCCTTTGT
Found at i:116274188 original size:41 final size:41
Alignment explanation
Indices: 116274115--116274361 Score: 302
Period size: 41 Copynumber: 6.3 Consensus size: 41
116274105 CAGAGCAATA
* *
116274115 GCCGCTAAAA-ACTGAGCAATAGCGGCGCTTTTGGTAAAAC
1 GCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAAC
* *
116274155 GCCGCTAAAAGACAGAGCTTTAGCGGCGTTTTTGGTAAAA-
1 GCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAAC
116274195 ----C----AGACAGAG-ATTTAGCGGCGCTTTTGGTAAAAC
1 GCCGCTAAAAGACAGAGCA-TTAGCGGCGCTTTTGGTAAAAC
** *
116274228 GCCGCTAAAAGACAGCA-CATTAGCGATGCTTTTAGTAAAAC
1 GCCGCTAAAAGACAG-AGCATTAGCGGCGCTTTTGGTAAAAC
* * *
116274269 GTCGCTAAAAGACAGAGCAGTAGCGGCGCTTTTAGTAAAAC
1 GCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAAC
116274310 GCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAAC
1 GCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAAC
116274351 GCCGCTAAAAG
1 GCCGCTAAAAG
116274362 TCATATAACT
Statistics
Matches: 177, Mismatches: 16, Indels: 27
0.80 0.07 0.12
Matches are distributed among these distances:
32 28 0.16
36 1 0.01
37 1 0.01
40 11 0.06
41 134 0.76
42 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (41 bp):
GCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAAC
Found at i:116274209 original size:32 final size:32
Alignment explanation
Indices: 116274164--116274227 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
116274154 CGCCGCTAAA
* *
116274164 AGACAGAGCTTTAGCGGCGTTTTTGGTAAAAC
1 AGACAGAGATTTAGCGGCGCTTTTGGTAAAAC
116274196 AGACAGAGATTTAGCGGCGCTTTTGGTAAAAC
1 AGACAGAGATTTAGCGGCGCTTTTGGTAAAAC
116274228 GCCGCTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (32 bp):
AGACAGAGATTTAGCGGCGCTTTTGGTAAAAC
Found at i:116275005 original size:24 final size:24
Alignment explanation
Indices: 116274978--116275026 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
116274968 CGTATATTTA
*
116274978 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
116275002 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
116275026 T
1 T
116275027 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:116275367 original size:7 final size:7
Alignment explanation
Indices: 116275308--116275460 Score: 58
Period size: 7 Copynumber: 21.6 Consensus size: 7
116275298 GAGTTACTAT
*
116275308 TTTAAGG
1 TTTATGG
*
116275315 TTTATGA
1 TTTATGG
*
116275322 ATTATGG
1 TTTATGG
*
116275329 ATTATGGG
1 TTTAT-GG
116275337 TTTATGG
1 TTTATGG
*
116275344 ATTATGG
1 TTTATGG
**
116275351 TTTACAG
1 TTTATGG
116275358 TTTATGG
1 TTTATGG
*
116275365 TTTAAGG
1 TTTATGG
* **
116275372 GTTGGGG
1 TTTATGG
*
116275379 TTTAAGG
1 TTTATGG
116275386 TTTA-GG
1 TTTATGG
*
116275392 TGTTAGGG
1 T-TTATGG
*
116275400 GTTATGG
1 TTTATGG
* *
116275407 GTTAGGG
1 TTTATGG
*
116275414 GTTATGG
1 TTTATGG
*
116275421 GTTATGG
1 TTTATGG
*
116275428 ATTTAAGG
1 -TTTATGG
*
116275436 GTTAT-G
1 TTTATGG
*
116275442 TTGTATGA
1 TT-TATGG
*
116275450 TTTAGGG
1 TTTATGG
116275457 TTTA
1 TTTA
116275461 GGGGATAAAA
Statistics
Matches: 110, Mismatches: 30, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
6 5 0.05
7 90 0.82
8 15 0.14
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (7 bp):
TTTATGG
Found at i:116275381 original size:21 final size:21
Alignment explanation
Indices: 116275359--116275439 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
116275349 GGTTTACAGT
116275359 TTATGGTTTAAGGGTT-GGGG
1 TTATGGTTTAAGGGTTAGGGG
*
116275379 TTTAAGGTTT-AGGTGTTAGGGG
1 -TTATGGTTTAAGG-GTTAGGGG
* * *
116275401 TTATGGGTTAGGGGTTATGGG
1 TTATGGTTTAAGGGTTAGGGG
116275422 TTATGGATTTAAGGGTTA
1 TTATGG-TTTAAGGGTTA
116275440 TGTTGTATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.06
21 31 0.63
22 15 0.31
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (21 bp):
TTATGGTTTAAGGGTTAGGGG
Found at i:116275412 original size:14 final size:14
Alignment explanation
Indices: 116275393--116275424 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
116275383 AGGTTTAGGT
116275393 GTTAGGGGTTATGG
1 GTTAGGGGTTATGG
116275407 GTTAGGGGTTATGG
1 GTTAGGGGTTATGG
116275421 GTTA
1 GTTA
116275425 TGGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.38
Consensus pattern (14 bp):
GTTAGGGGTTATGG
Found at i:116275606 original size:14 final size:14
Alignment explanation
Indices: 116275589--116275648 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
116275579 GGTAAAATGT
116275589 TTTCTGGAAAATAA
1 TTTCTGGAAAATAA
116275603 TTTCTGGAAAATAA
1 TTTCTGGAAAATAA
* *
116275617 TTTCTTGAAAAATGA
1 TTTC-TGGAAAATAA
* *
116275632 TTTATGGAAAATGA
1 TTTCTGGAAAATAA
116275646 TTT
1 TTT
116275649 ACTTTTCTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 30 0.73
15 11 0.27
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATAA
Found at i:116275649 original size:14 final size:14
Alignment explanation
Indices: 116275582--116275649 Score: 64
Period size: 14 Copynumber: 4.8 Consensus size: 14
116275572 GTTTGCAGGT
* *
116275582 AAAATGTTTTCTGG
1 AAAATGATTTATGG
* *
116275596 AAAATAATTTCTGG
1 AAAATGATTTATGG
* * *
116275610 AAAATAATTTCTTGA
1 AAAATGATTT-ATGG
116275625 AAAATGATTTATGG
1 AAAATGATTTATGG
116275639 AAAATGATTTA
1 AAAATGATTTA
116275650 CTTTTCTGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
14 35 0.76
15 11 0.24
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (14 bp):
AAAATGATTTATGG
Found at i:116275912 original size:18 final size:18
Alignment explanation
Indices: 116275889--116275925 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
116275879 TTGCTGCTGG
*
116275889 TGCTCTATTTGAAATTCT
1 TGCTCTATTTGAAAATCT
*
116275907 TGCTCTTTTTGAAAATCT
1 TGCTCTATTTGAAAATCT
116275925 T
1 T
116275926 ACTTTACCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (18 bp):
TGCTCTATTTGAAAATCT
Found at i:116276205 original size:21 final size:20
Alignment explanation
Indices: 116276175--116276222 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
116276165 TATAAAAAAA
116276175 TTAAAAATTAATCTAATTATT
1 TTAAAAATTAAT-TAATTATT
* * *
116276196 TTAAATATTACTTAATTTTT
1 TTAAAAATTAATTAATTATT
116276216 TTAAAAA
1 TTAAAAA
116276223 AATTATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAAATTAATTAATTATT
Found at i:116276245 original size:22 final size:23
Alignment explanation
Indices: 116276220--116276278 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
116276210 ATTTTTTTAA
*
116276220 AAAAATTATTTAAAATT-AATAT
1 AAAAATTATTAAAAATTCAATAT
116276242 AAAAGA-TA-TAAAAATTCAATAT
1 AAAA-ATTATTAAAAATTCAATAT
*
116276264 AAAAATTATAAAAAA
1 AAAAATTATTAAAAA
116276279 AGTCAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 8 0.26
22 17 0.55
23 6 0.19
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAATTATTAAAAATTCAATAT
Found at i:116276357 original size:38 final size:40
Alignment explanation
Indices: 116276293--116276397 Score: 160
Period size: 38 Copynumber: 2.7 Consensus size: 40
116276283 AAAAATTAGT
*
116276293 GGCGTTTATGATAAAAACGCCCCAAAAGACAAGCAATAGC
1 GGCGTTTATGATAAAAACGCCACAAAAGACAAGCAATAGC
* * *
116276333 GGCGTTTAT-AT-AAAACGCCGCAAAAGGCAATCAATAGC
1 GGCGTTTATGATAAAAACGCCACAAAAGACAAGCAATAGC
116276371 GGCGTTTATGATAAAAACGCCACAAAA
1 GGCGTTTATGATAAAAACGCCACAAAA
116276398 AGTAATTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
38 33 0.56
39 4 0.07
40 22 0.37
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (40 bp):
GGCGTTTATGATAAAAACGCCACAAAAGACAAGCAATAGC
Found at i:116276702 original size:35 final size:34
Alignment explanation
Indices: 116276620--116276703 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
116276610 TGACTAAGCC
* *
116276620 ATTTGCCTAAATCATAGTTCCCCCGAAACCCTCA
1 ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
* *
116276654 TTTTCTCTCAAATCATAGTTCCCCCAAAACCC-CAAA
1 ATTTCCCT-AAATCATAGTTCCCCCAAAACCCTC--A
116276690 ATTTCCCTAAATCA
1 ATTTCCCTAAATCA
116276704 AACCCATTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
34 6 0.15
35 28 0.68
36 7 0.17
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.29
Consensus pattern (34 bp):
ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
Found at i:116279408 original size:241 final size:242
Alignment explanation
Indices: 116278974--116279409 Score: 829
Period size: 241 Copynumber: 1.8 Consensus size: 242
116278964 GTCTGAATTA
*
116278974 ATTTTATTACTATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
1 ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
116279039 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
66 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
*
116279104 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
131 AGCTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
116279169 TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAAT
196 TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAAT
116279216 ATTTT-TTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
1 ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
*
116279280 TTTTTTTAAATATTTTAAAGATTCAAGGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
66 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
*
116279345 AGCTATAAGATATAATGGATCTTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
131 AGCTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
116279410 AACTTACATA
Statistics
Matches: 190, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
241 185 0.97
242 5 0.03
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (242 bp):
ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
AGCTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAAT
Found at i:116279422 original size:9 final size:9
Alignment explanation
Indices: 116279408--116279466 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
116279398 ATCTTAAAAA
116279408 ATAACTTAC
1 ATAACTTAC
*
116279417 ATAACTCAC
1 ATAACTTAC
116279426 ATAACTTAC
1 ATAACTTAC
*
116279435 ATAATTTAC
1 ATAACTTAC
*
116279444 ATAACTCAC
1 ATAACTTAC
*
116279453 ATAACGTAC
1 ATAACTTAC
116279462 ATAAC
1 ATAAC
116279467 AACTTACGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:116279446 original size:27 final size:27
Alignment explanation
Indices: 116279408--116279466 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
116279398 ATCTTAAAAA
*
116279408 ATAACTTACATAACTCACATAACTTAC
1 ATAACTTACATAACTCACATAACGTAC
*
116279435 ATAATTTACATAACTCACATAACGTAC
1 ATAACTTACATAACTCACATAACGTAC
116279462 ATAAC
1 ATAAC
116279467 AACTTACGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (27 bp):
ATAACTTACATAACTCACATAACGTAC
Found at i:116280268 original size:43 final size:43
Alignment explanation
Indices: 116280221--116280334 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 43
116280211 GTAGTAAAAG
** * * * *
116280221 CGCCGCTAAAAGCCGTGACTTTTAGCGGCGTTTTTTCAATCAA
1 CGCCGCTAAAAGCCAAGACTTTCAGCGGCGCTTTTCCAATAAA
* *
116280264 CGCCGCTAAAAGTCAAGGCTTTCAGCGGCGCTTTTCCAATAAA
1 CGCCGCTAAAAGCCAAGACTTTCAGCGGCGCTTTTCCAATAAA
* * * *
116280307 TGCCGCTAAAAGTCAAGGCTTTTAGCGG
1 CGCCGCTAAAAGCCAAGACTTTCAGCGG
116280335 ACTTTTAGCG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAAGCCAAGACTTTCAGCGGCGCTTTTCCAATAAA
Found at i:116281948 original size:28 final size:27
Alignment explanation
Indices: 116281893--116281950 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
116281883 TGCCATTAAC
*
116281893 TTTGGGGTTAATAATAATTTTCATAAT
1 TTTGGGGTTAATAATAATTTTCAAAAT
116281920 TTTGGGGTTTAATTAA-AATGTTT-AAAAT
1 TTTGGGG-TTAA-TAATAAT-TTTCAAAAT
116281948 TTT
1 TTT
116281951 TAAGAGGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 7 0.26
28 14 0.52
29 6 0.22
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.50
Consensus pattern (27 bp):
TTTGGGGTTAATAATAATTTTCAAAAT
Found at i:116282317 original size:19 final size:21
Alignment explanation
Indices: 116282277--116282318 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
116282267 GGTATAAAAG
116282277 AAATAATTTTACATATTAATA
1 AAATAATTTTACATATTAATA
*
116282298 AAAT-ATTTTATATA-TAATA
1 AAATAATTTTACATATTAATA
116282317 AA
1 AA
116282319 TTTTAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATAATTTTACATATTAATA
Found at i:116285186 original size:27 final size:30
Alignment explanation
Indices: 116285156--116285224 Score: 99
Period size: 27 Copynumber: 2.4 Consensus size: 30
116285146 TATAATTAAA
*
116285156 TTATCACTTTGGTATATGTACT-T-TTTT-
1 TTATCAATTTGGTATATGTACTCTATTTTG
*
116285183 TTATCAATTTGGTATTTGTACTCTATTTTG
1 TTATCAATTTGGTATATGTACTCTATTTTG
116285213 TTATCAATTTGG
1 TTATCAATTTGG
116285225 CCATTGTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 20 0.54
28 1 0.03
29 4 0.11
30 12 0.32
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (30 bp):
TTATCAATTTGGTATATGTACTCTATTTTG
Found at i:116285232 original size:30 final size:31
Alignment explanation
Indices: 116285178--116285244 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
116285168 TATATGTACT
* *
116285178 TTTTTTTATCAATTTGGTATTTGTACTCT-A
1 TTTTGTTATCAATTTGGCATTTGTACTCTCA
*
116285208 TTTTGTTATCAATTTGGCCA-TTGTACTTTCA
1 TTTTGTTATCAATTTGG-CATTTGTACTCTCA
116285239 TTTTGT
1 TTTTGT
116285245 ATACCCCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (31 bp):
TTTTGTTATCAATTTGGCATTTGTACTCTCA
Found at i:116287607 original size:17 final size:17
Alignment explanation
Indices: 116287564--116287598 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
116287554 CCGAGGTAAG
116287564 TACATATGTAAATAATA
1 TACATATGTAAATAATA
116287581 TACATATGTAAATAATA
1 TACATATGTAAATAATA
116287598 T
1 T
116287599 GTCATTGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (17 bp):
TACATATGTAAATAATA
Found at i:116292099 original size:2 final size:2
Alignment explanation
Indices: 116292092--116292137 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
116292082 CTACTCATTG
116292092 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
116292134 CT CT
1 CT CT
116292138 GGGGTTCTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:116294519 original size:25 final size:25
Alignment explanation
Indices: 116294484--116294534 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
116294474 AATTAAACAA
116294484 ATATTAAATAAATAAAATATTATAT
1 ATATTAAATAAATAAAATATTATAT
* *
116294509 ATATTATATAAATAAAATATTTTAT
1 ATATTAAATAAATAAAATATTATAT
116294534 A
1 A
116294535 ATTTTAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTAAATAAATAAAATATTATAT
Found at i:116295608 original size:16 final size:16
Alignment explanation
Indices: 116295587--116295630 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
116295577 CTAGCAGCCC
*
116295587 TTTTAATTTTTTAAAA
1 TTTTAATTTTATAAAA
*
116295603 TTTTAATTTAATAAAA
1 TTTTAATTTTATAAAA
*
116295619 GTTTAATTTTAT
1 TTTTAATTTTAT
116295631 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTAATTTTATAAAA
Found at i:116305919 original size:14 final size:13
Alignment explanation
Indices: 116305898--116305923 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116305888 ACACATTCAT
116305898 TAAATTTTTATCA
1 TAAATTTTTATCA
116305911 TAAATTTTTATCA
1 TAAATTTTTATCA
116305924 CATATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATTTTTATCA
Found at i:116305997 original size:19 final size:22
Alignment explanation
Indices: 116305955--116305997 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 22
116305945 ACTCGATAGC
*
116305955 AAATACAAAAGTTGTTAATTTA
1 AAATACAAAAGTTGTTAATATA
116305977 AAAT-CAAAA-TT-TTAATATA
1 AAATACAAAAGTTGTTAATATA
116305996 AA
1 AA
116305998 TAGATTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 5 0.25
22 4 0.20
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (22 bp):
AAATACAAAAGTTGTTAATATA
Found at i:116306920 original size:18 final size:18
Alignment explanation
Indices: 116306899--116306954 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
116306889 TGGTGGTGGG
116306899 GGTGGTGCCCGCCATGGT
1 GGTGGTGCCCGCCATGGT
* *
116306917 GGTGGTGCCCGCCGTGGC
1 GGTGGTGCCCGCCATGGT
* *
116306935 GGTGATGGCCGCCATGGT
1 GGTGGTGCCCGCCATGGT
116306953 GG
1 GG
116306955 GGCTTAGGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.05, C:0.27, G:0.48, T:0.20
Consensus pattern (18 bp):
GGTGGTGCCCGCCATGGT
Found at i:116307648 original size:3 final size:3
Alignment explanation
Indices: 116307640--116307676 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
116307630 TTAGTTTTAA
116307640 ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
116307677 AAACCATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:116308681 original size:21 final size:21
Alignment explanation
Indices: 116308664--116308708 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
116308654 CATATTTATA
116308664 AATTTAAAAAATTAATTTTAG
1 AATTTAAAAAATTAATTTTAG
* * *
116308685 AATTTTAAAAATTAAGTCTAG
1 AATTTAAAAAATTAATTTTAG
116308706 AAT
1 AAT
116308709 GAATTTGGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTTAAAAAATTAATTTTAG
Found at i:116312564 original size:3 final size:3
Alignment explanation
Indices: 116312558--116312587 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
116312548 CCAAGTTTTA
116312558 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
116312588 GAAATCAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
TGC
Found at i:116313718 original size:13 final size:13
Alignment explanation
Indices: 116313700--116313726 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
116313690 GGTGTCTTCC
116313700 TTCAATTCTTTGT
1 TTCAATTCTTTGT
116313713 TTCAATTCTTTGT
1 TTCAATTCTTTGT
116313726 T
1 T
116313727 AGATCCCAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (13 bp):
TTCAATTCTTTGT
Found at i:116322001 original size:120 final size:120
Alignment explanation
Indices: 116321700--116322081 Score: 712
Period size: 120 Copynumber: 3.2 Consensus size: 120
116321690 TTTTCAAGTT
116321700 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
116321765 TAATATAAGAATATTAATTATTAAG-ATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
116321819 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
116321884 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
116321939 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * * *
116322004 TAATATAAGAATATTAATTATTAAGAATTTTAATAAAATAAATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
116322059 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
116322082 TAAATATGAT
Statistics
Matches: 257, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
119 90 0.35
120 167 0.65
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:116322066 original size:16 final size:16
Alignment explanation
Indices: 116322030--116322071 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
116322020 ATTATTAAGA
116322030 ATTTTAATAAAATAAAT
1 ATTTTAATAAAAT-AAT
116322047 ATTTTAATTAAAAT-AT
1 ATTTTAA-TAAAATAAT
116322063 A-TTTAATAA
1 ATTTTAATAA
116322072 TAATTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 5 0.21
16 3 0.12
17 7 0.29
18 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAATAAAATAAT
Found at i:116322321 original size:16 final size:16
Alignment explanation
Indices: 116322300--116322367 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
116322290 GATTTGCTAT
116322300 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
116322316 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
116322332 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
116322348 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
116322364 TACA
1 TACA
116322368 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:116323530 original size:16 final size:16
Alignment explanation
Indices: 116323509--116323567 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
116323499 TTAGTTAACA
116323509 ATTTAAAATTAAAAAT
1 ATTTAAAATTAAAAAT
*
116323525 ATTT--AACTAAAAATT
1 ATTTAAAATTAAAAA-T
* *
116323540 AATGAAAA-TAAAAAT
1 ATTTAAAATTAAAAAT
*
116323555 ATTAAAAATTAAA
1 ATTTAAAATTAAA
116323568 TTTAATATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 8 0.24
15 10 0.29
16 14 0.41
17 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (16 bp):
ATTTAAAATTAAAAAT
Found at i:116329388 original size:10 final size:10
Alignment explanation
Indices: 116329373--116329398 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
116329363 AATGTCGAGT
116329373 TAACTTGTGA
1 TAACTTGTGA
116329383 TAACTTGTGA
1 TAACTTGTGA
116329393 TAACTT
1 TAACTT
116329399 ATGGAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (10 bp):
TAACTTGTGA
Found at i:116335269 original size:83 final size:83
Alignment explanation
Indices: 116335129--116335289 Score: 225
Period size: 83 Copynumber: 1.9 Consensus size: 83
116335119 GTTTAAGTTA
* * *
116335129 GATTATTTTAGGTTTTAGTTGTTTCTAGTTGAACTCACTTCAAACTATGATAATTATGGTTAATC
1 GATTATTTTAGGTTTTAGTTGTTTCAAGTTGAACTCACTTCAAACTATGATAATTATGATTAACC
*
116335194 ATGTGTCCTTTGAGTTTT
66 ATGGGTCCTTTGAGTTTT
* * * * *
116335212 GATTATTTTAGGTTTTAGTTGTTTCAAGTTTAATTCACTTTAAACTAT-AGTAGTTATGATTTAC
1 GATTATTTTAGGTTTTAGTTGTTTCAAGTTGAACTCACTTCAAACTATGA-TAATTATGATTAAC
116335276 CATGGGTCCTTTGA
65 CATGGGTCCTTTGA
116335290 ATTCGAGCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 1 0.01
83 67 0.99
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.48
Consensus pattern (83 bp):
GATTATTTTAGGTTTTAGTTGTTTCAAGTTGAACTCACTTCAAACTATGATAATTATGATTAACC
ATGGGTCCTTTGAGTTTT
Found at i:116335986 original size:20 final size:21
Alignment explanation
Indices: 116335948--116335987 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
116335938 ATAATAAGTC
*
116335948 TAAAAATTATAATTTATTAAA
1 TAAAAATTATAATTAATTAAA
*
116335969 TAAAAATTAT-CTTAATTAA
1 TAAAAATTATAATTAATTAA
116335988 TATTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAATTATAATTAATTAAA
Found at i:116349193 original size:16 final size:16
Alignment explanation
Indices: 116349172--116349204 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
116349162 TTTTTCTATT
*
116349172 ATTTTAATATTAAATA
1 ATTTTAAAATTAAATA
116349188 ATTTTAAAATTAAATA
1 ATTTTAAAATTAAATA
116349204 A
1 A
116349205 AATTAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAAAATTAAATA
Found at i:116351426 original size:21 final size:21
Alignment explanation
Indices: 116351382--116351419 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
116351372 TAATTCGTAA
116351382 TAAATTATTAATAATATTATT
1 TAAATTATTAATAATATTATT
116351403 TAAATTA-TAAT-ATATTA
1 TAAATTATTAATAATATTA
116351420 ATATTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAATTATTAATAATATTATT
Found at i:116351474 original size:16 final size:16
Alignment explanation
Indices: 116351453--116351483 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
116351443 TGCTTTTTTT
*
116351453 ATTTTAATATTAAATA
1 ATTTTAAAATTAAATA
116351469 ATTTTAAAATTAAAT
1 ATTTTAAAATTAAAT
116351484 GAAATTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTTAAAATTAAATA
Found at i:116356725 original size:20 final size:20
Alignment explanation
Indices: 116356702--116356763 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 20
116356692 TTTTTTAACA
116356702 TTTAAAAATATTTTTATATT
1 TTTAAAAATATTTTTATATT
*
116356722 TTT-AATA-ATTTTTA-ATT
1 TTTAAAAATATTTTTATATT
*
116356739 TTTAAAAATAGTGTTTATAATT
1 TTTAAAAATA-TTTTTAT-ATT
116356761 TTT
1 TTT
116356764 TGAATTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 6 0.18
18 10 0.29
19 4 0.12
20 8 0.24
22 6 0.18
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTAAAAATATTTTTATATT
Found at i:116356733 original size:38 final size:39
Alignment explanation
Indices: 116356684--116356763 Score: 101
Period size: 37 Copynumber: 2.1 Consensus size: 39
116356674 CAGGTCAATA
* *
116356684 TTTAATTATTTTTTAACATTTAAAAATA-TTTTTAT-ATT
1 TTTAA-TAATTTTTAACATTTAAAAATAGTGTTTATAATT
**
116356722 TTTAATAATTTTTAATTTTTAAAAATAGTGTTTATAATT
1 TTTAATAATTTTTAACATTTAAAAATAGTGTTTATAATT
116356761 TTT
1 TTT
116356764 TGAATTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 19 0.53
38 11 0.31
39 6 0.17
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (39 bp):
TTTAATAATTTTTAACATTTAAAAATAGTGTTTATAATT
Found at i:116356743 original size:37 final size:39
Alignment explanation
Indices: 116356684--116356784 Score: 104
Period size: 38 Copynumber: 2.6 Consensus size: 39
116356674 CAGGTCAATA
* *
116356684 TTTAATTATTTTTTAACA-TTTAAAAATA-TTTTTAT-ATT
1 TTTAA-TAATTTTTAA-ATTTTAAAAATAGTGTTTATAATT
*
116356722 TTTAATAATTTTTAATTTTTAAAAATAGTGTTTATAATT
1 TTTAATAATTTTTAAATTTTAAAAATAGTGTTTATAATT
*
116356761 TTT--TGAATTTTAAAATTTTAAAAA
1 TTTAAT-AATTTTTAAATTTTAAAAA
116356785 AACTAATTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
37 20 0.37
38 28 0.52
39 6 0.11
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (39 bp):
TTTAATAATTTTTAAATTTTAAAAATAGTGTTTATAATT
Found at i:116357581 original size:13 final size:13
Alignment explanation
Indices: 116357563--116357588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116357553 ATTTCAGAAT
116357563 TTAGGTTTTATTG
1 TTAGGTTTTATTG
116357576 TTAGGTTTTATTG
1 TTAGGTTTTATTG
116357589 ACAAATAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (13 bp):
TTAGGTTTTATTG
Found at i:116358322 original size:15 final size:16
Alignment explanation
Indices: 116358302--116358342 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
116358292 TCACTTTTAA
116358302 TATTAAAT-TAATTTT
1 TATTAAATATAATTTT
116358317 TATTAAAAATATAATTTT
1 TATT--AAATATAATTTT
116358335 T-TTAAATA
1 TATTAAATA
116358343 ATATTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.39
17 6 0.26
18 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTAAATATAATTTT
Found at i:116358331 original size:18 final size:17
Alignment explanation
Indices: 116358306--116358346 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
116358296 TTTTAATATT
116358306 AAAT-TAATTTTTATTAA
1 AAATATAATTTTT-TTAA
116358323 AAATATAATTTTTTTAA
1 AAATATAATTTTTTTAA
116358340 ATAATAT
1 A-AATAT
116358347 TAAATCTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATATAATTTTTTTAA
Done.