Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 39 of 185
Found at i:10950632 original size:22 final size:21
Alignment explanation
Indices: 10950589--10950655 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
10950579 TAAAACTTAG
*
10950589 AAAAA-TATATAAAAATCATAA
1 AAAAATTATAAAAAAATCAT-A
**
10950610 AAAAATTATAAAAAAATTGTA
1 AAAAATTATAAAAAAATCATA
**
10950631 AAAGTTTATAAAAAAAATCATA
1 AAAAATTAT-AAAAAAATCATA
10950653 AAA
1 AAA
10950656 GGCCCTTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 13 0.35
22 24 0.65
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (21 bp):
AAAAATTATAAAAAAATCATA
Found at i:10950633 original size:10 final size:11
Alignment explanation
Indices: 10950589--10950646 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
10950579 TAAAACTTAG
*
10950589 AAAAA-TATAT
1 AAAAATTATAA
*
10950599 AAAAATCATAA
1 AAAAATTATAA
10950610 AAAAATTATAA
1 AAAAATTATAA
*
10950621 AAAAATTGT-A
1 AAAAATTATAA
**
10950631 AAAGTTTATAA
1 AAAAATTATAA
10950642 AAAAA
1 AAAAA
10950647 ATCATAAAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
10 12 0.32
11 25 0.68
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:10950968 original size:27 final size:27
Alignment explanation
Indices: 10950938--10951054 Score: 69
Period size: 27 Copynumber: 4.3 Consensus size: 27
10950928 ATTTTTCAAT
10950938 TTTTATAAAATTTTAAAATTTTTATTA
1 TTTTATAAAATTTTAAAATTTTTATTA
* * * * *
10950965 TTTTTTTAATTTTTAATA-TTATATATA
1 TTTTATAAAATTTTAAAATTTTTAT-TA
* *
10950992 TTTTATTAAAA-TGTAATAATTTTTATGA
1 TTTTA-TAAAATTTTAA-AATTTTTATTA
* * ** *
10951020 TTTT-TTAACTTTTACTGATTTTTATTT
1 TTTTATAAAATTTTA-AAATTTTTATTA
10951047 TTTTATAA
1 TTTTATAA
10951055 TTTTTTTACC
Statistics
Matches: 63, Mismatches: 20, Indels: 13
0.66 0.21 0.14
Matches are distributed among these distances:
26 8 0.13
27 39 0.62
28 11 0.17
29 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTATAAAATTTTAAAATTTTTATTA
Found at i:10951049 original size:17 final size:17
Alignment explanation
Indices: 10951008--10951060 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
10950998 TAAAATGTAA
10951008 TAATTTTTATGATTTTT
1 TAATTTTTATGATTTTT
*
10951025 TAACTTTTACTGA-TTTT
1 TAATTTTTA-TGATTTTT
* *
10951042 TATTTTTTTATAATTTTT
1 TA-ATTTTTATGATTTTT
10951060 T
1 T
10951061 TACCGCATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (17 bp):
TAATTTTTATGATTTTT
Found at i:10964126 original size:27 final size:27
Alignment explanation
Indices: 10964096--10964206 Score: 89
Period size: 27 Copynumber: 4.1 Consensus size: 27
10964086 CATTGTAGAT
*
10964096 GTCCGATGGGACATTAAACATGGGATA
1 GTCCGATGGGACGTTAAACATGGGATA
* * * *
10964123 GTCCAATGTGACGTTAAACACGAGATA
1 GTCCGATGGGACGTTAAACATGGGATA
* ** *
10964150 GTCTGACAGGACGTTAATCATGGGATA
1 GTCCGATGGGACGTTAAACATGGGATA
** * *
10964177 GTTTGATAGGACGTTGAACATAGGGA-A
1 GTCCGATGGGACGTTAAACAT-GGGATA
10964204 GTC
1 GTC
10964207 TATCGAGACG
Statistics
Matches: 65, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
27 61 0.94
28 4 0.06
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.24
Consensus pattern (27 bp):
GTCCGATGGGACGTTAAACATGGGATA
Found at i:10967054 original size:45 final size:45
Alignment explanation
Indices: 10966977--10967067 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
10966967 AGATACTCGT
* *
10966977 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
* *
10967022 TGGAATCAGCACATAGCAACCACTTTACTAATCAATGATGTTCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
10967067 T
1 T
10967068 TCACATAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
Found at i:10967149 original size:51 final size:50
Alignment explanation
Indices: 10967069--10967207 Score: 161
Period size: 51 Copynumber: 2.7 Consensus size: 50
10967059 ATGTTCGGTT
* * *
10967069 CACATAGTAGCCTACATATAGTACTACACATGTGACCATTACCATTCGATA
1 CACATAGTAGCCTACACATAGTACTACACATGTGACCA-AACCATCCGATA
* * * * * *
10967120 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTA
1 CACATAGTAGCCTACACATAGTACTACACATGTGA-CCAAACCATCCGATA
* *
10967171 CGCATAGTAGCCTACACATAGTACTACACATGCGACC
1 CACATAGTAGCCTACACATAGTACTACACATGTGACC
10967208 TTTCATTCCT
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
50 1 0.01
51 69 0.96
52 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (50 bp):
CACATAGTAGCCTACACATAGTACTACACATGTGACCAAACCATCCGATA
Found at i:10980947 original size:76 final size:76
Alignment explanation
Indices: 10980797--10980958 Score: 193
Period size: 76 Copynumber: 2.1 Consensus size: 76
10980787 TCTGTTATCT
* *
10980797 CAGATTGCCTGACAATGATGGTTTATCGATTCAATCCTGTCATCCTGAGTTACCCGGCAAAGATG
1 CAGATTGCCTGACAATGATGGTTTATCGATTCAATCCTATCATCCTGAGTTACCCAGCAAAGATG
*
10980862 ACATGCCACCC
66 ACATCCCACCC
* * * * * * *
10980873 TAGATTGCTTGGCAATGATGGTTTATCGATTCAATTCTATCATCGC-GGGTTGCCCAGCAACA-T
1 CAGATTGCCTGACAATGATGGTTTATCGATTCAATCCTATCATC-CTGAGTTACCCAGCAA-AGA
*
10980936 TGACCTCCCACCC
64 TGACATCCCACCC
10980949 CAGATTGCCT
1 CAGATTGCCT
10980959 AGCAACGATG
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
76 69 0.97
77 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (76 bp):
CAGATTGCCTGACAATGATGGTTTATCGATTCAATCCTATCATCCTGAGTTACCCAGCAAAGATG
ACATCCCACCC
Found at i:10983159 original size:101 final size:102
Alignment explanation
Indices: 10983032--10983216 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
10983022 AAAGTGATGG
* *
10983032 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCCTATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCATATGTGTAGT
10983095 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * *
10983133 TCACATGTGTAGTATTATGTGCAGGCTACTATGTGTATCAGATAGTGATGGTCATATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCATATGTGTAGTA
10983198 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
10983217 TGAACTGGTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 38 0.49
102 35 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCATATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:10983217 original size:51 final size:52
Alignment explanation
Indices: 10983024--10983218 Score: 242
Period size: 51 Copynumber: 3.8 Consensus size: 52
10983014 TGAAAGTGAA
* *
10983024 AGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAT
* *
10983074 A-TGATAGGTC-CTATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGATAGGTCAC-ATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAT
* * * *
10983125 AGCT--TCGATCACATGTGTAGTATTATGTGCAGGCTACTATGTGTATCAGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAT
*
10983176 AGTGAT-GGTCATATGTGTAGTACTATGTGCAGGCTACTATGTG
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
10983219 AACTGGTATC
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
49 5 0.04
50 40 0.32
51 76 0.61
52 2 0.02
53 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAT
Found at i:10983243 original size:102 final size:101
Alignment explanation
Indices: 10983037--10983221 Score: 273
Period size: 102 Copynumber: 1.8 Consensus size: 101
10983027 GATGGTCACG
*
10983037 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCCTATGTGTAGTACTATGT
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCATATGTGTAGTACTATGT
* * *
10983102 GCAGGCTACTATGCGTACCGGATAGCTTCGATCACA
66 GCAGGCTACTATGCGAACCGGATAGCTTCAATCAAA
* * *
10983138 TGTGTAGTATTATGTGCAGGCTACTATGTGTATCAGATAGTGAT-GGTCATATGTGTAGTACTAT
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCATATGTGTAGTACTAT
*
10983202 GTGCAGGCTACTATGTGAAC
64 GTGCAGGCTACTATGCGAAC
10983222 TGGTATCATT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 34 0.45
102 38 0.50
103 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (101 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCATATGTGTAGTACTATGT
GCAGGCTACTATGCGAACCGGATAGCTTCAATCAAA
Found at i:10983423 original size:33 final size:33
Alignment explanation
Indices: 10983381--10983446 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
10983371 GATCATGTAA
10983381 CGATTAAGTGTGATTGAATGATGAATATATTTT
1 CGATTAAGTGTGATTGAATGATGAATATATTTT
10983414 CGATTAAGTGTGATTGAATGATGAATATATTTT
1 CGATTAAGTGTGATTGAATGATGAATATATTTT
10983447 TGGAATTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.42
Consensus pattern (33 bp):
CGATTAAGTGTGATTGAATGATGAATATATTTT
Found at i:10983496 original size:16 final size:16
Alignment explanation
Indices: 10983475--10983506 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10983465 TGATTGAAAG
*
10983475 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
10983491 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
10983507 GCAATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:11001467 original size:18 final size:19
Alignment explanation
Indices: 11001455--11001493 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
11001445 CATAAATATT
11001455 TTTAAAAATATAATAATAAA
1 TTTAAAAATAT-ATAATAAA
11001475 TTTAAAAATATATAA-AAA
1 TTTAAAAATATATAATAAA
11001493 T
1 T
11001494 AAAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 4 0.21
20 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTTAAAAATATATAATAAA
Found at i:11001483 original size:8 final size:10
Alignment explanation
Indices: 11001431--11001542 Score: 56
Period size: 10 Copynumber: 11.5 Consensus size: 10
11001421 AAATTAAAAG
11001431 AAATATATAA
1 AAATATATAA
*
11001441 AAA-ACATAA
1 AAATATATAA
* * *
11001450 ATATTTTTAA
1 AAATATATAA
11001460 AAATATAATAA
1 AAATAT-ATAA
11001471 TAAAT-T-TAA
1 -AAATATATAA
11001480 AAATATATAA
1 AAATATATAA
*
11001490 AAATA-AAAA
1 AAATATATAA
* *
11001499 ATAATCT-TGA
1 A-AATATATAA
** *
11001509 AACGAAATAA
1 AAATATATAA
*
11001519 TAATATAT-A
1 AAATATATAA
11001528 AAATATATAA
1 AAATATATAA
11001538 AAATA
1 AAATA
11001543 AATATTTTCA
Statistics
Matches: 71, Mismatches: 22, Indels: 18
0.64 0.20 0.16
Matches are distributed among these distances:
8 4 0.06
9 24 0.34
10 35 0.49
11 4 0.06
12 4 0.06
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (10 bp):
AAATATATAA
Found at i:11001555 original size:25 final size:24
Alignment explanation
Indices: 11001527--11001574 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
11001517 AATAATATAT
*
11001527 AAAATATATAAAAATAAATATTTTC
1 AAAAAATATAAAAATAAAT-TTTTC
*
11001552 AAAAAATATAATAATAAATTTTT
1 AAAAAATATAAAAATAAATTTTT
11001575 ATATTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAAATATAAAAATAAATTTTTC
Found at i:11001606 original size:25 final size:24
Alignment explanation
Indices: 11001573--11001621 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
11001563 TAATAAATTT
11001573 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
*
11001598 TTATCTTAATATTAAATAAAATAA
1 TTATATTAATATTAAATAAAATAA
11001622 AATAAAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:11009770 original size:15 final size:17
Alignment explanation
Indices: 11009750--11009782 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
11009740 GAGCAAGTAC
11009750 TGGAATC-GGA-AGAGA
1 TGGAATCTGGAGAGAGA
11009765 TGGAATCTGGAGAGAGA
1 TGGAATCTGGAGAGAGA
11009782 T
1 T
11009783 AAGGAGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.39, T:0.18
Consensus pattern (17 bp):
TGGAATCTGGAGAGAGA
Found at i:11026533 original size:16 final size:16
Alignment explanation
Indices: 11026514--11026549 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
11026504 ATAAAGTAAG
11026514 AATTAAATTAT-AAATT
1 AATTAAA-TATCAAATT
11026530 AATTAAATATCAAATT
1 AATTAAATATCAAATT
11026546 AATT
1 AATT
11026550 TAACTAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAAATATCAAATT
Found at i:11035986 original size:25 final size:25
Alignment explanation
Indices: 11035958--11036005 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11035948 ACAGTCTATC
* *
11035958 TATAGTAGTCTCAGTATATACTACG
1 TATAGCAGTCTCAGGATATACTACG
*
11035983 TATAGCAGTTTCAGGATATACTA
1 TATAGCAGTCTCAGGATATACTA
11036006 TCAAAAACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (25 bp):
TATAGCAGTCTCAGGATATACTACG
Found at i:11044548 original size:57 final size:59
Alignment explanation
Indices: 11044444--11044559 Score: 166
Period size: 57 Copynumber: 2.0 Consensus size: 59
11044434 GGTAAAAAGG
11044444 ATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGTGTGAAAAAT
1 ATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCAAAGAATATGTG-GAAAAAT
* *
11044506 ATCTAGCCCGGACTGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGGAAAA
1 ATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATATGTGGAAAA
11044560 TGGATTTAGC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
56 5 0.10
57 26 0.50
59 1 0.02
61 1 0.02
62 19 0.37
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (59 bp):
ATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATATGTGGAAAAAT
Found at i:11044719 original size:67 final size:67
Alignment explanation
Indices: 11044611--11044742 Score: 237
Period size: 67 Copynumber: 2.0 Consensus size: 67
11044601 GTTTATATTA
* *
11044611 CAGGGGATTTAGCCTGGACTGGTAATCTCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
11044676 TG
66 TG
*
11044678 CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTTCTCTCT
1 CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
11044743 GAATTGGAAG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (67 bp):
CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
TG
Found at i:11063570 original size:28 final size:28
Alignment explanation
Indices: 11063520--11063573 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
11063510 AGGTCTAACG
* *
11063520 CCTTTATTTATTAAGAAATGCCCAATAA
1 CCTTTATTGATTAACAAATGCCCAATAA
11063548 CCTTTATTGATGTAACAAA-GCCCAAT
1 CCTTTATTGAT-TAACAAATGCCCAAT
11063574 TTGGCCCACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (28 bp):
CCTTTATTGATTAACAAATGCCCAATAA
Found at i:11068853 original size:27 final size:27
Alignment explanation
Indices: 11068823--11068876 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
11068813 CACTTAATTG
*
11068823 TTTTCTAAAAAAGTTAAAACATAGTTA
1 TTTTCTAAAAAACTTAAAACATAGTTA
* ** *
11068850 TTTTTTAGTACACTTAAAACATAGTTA
1 TTTTCTAAAAAACTTAAAACATAGTTA
11068877 ATTAAATAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (27 bp):
TTTTCTAAAAAACTTAAAACATAGTTA
Found at i:11075354 original size:2 final size:2
Alignment explanation
Indices: 11075338--11075382 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
11075328 ATCATATACA
* * *
11075338 CT CT C- CT CA CT CT CT CT CT TT CT CT CT CT TT 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
11075379 CT CT
1 CT CT
11075383 ATATATATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:11076706 original size:5 final size:5
Alignment explanation
Indices: 11076698--11076723 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11076688 CAATATCGTA
11076698 TCAAT TCAAT TCAAT TCAAT TCAAT T
1 TCAAT TCAAT TCAAT TCAAT TCAAT T
11076724 AAATATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
TCAAT
Found at i:11077451 original size:66 final size:66
Alignment explanation
Indices: 11077345--11077479 Score: 270
Period size: 66 Copynumber: 2.0 Consensus size: 66
11077335 AGTTTGAAAC
11077345 CTTAGGCCGATTTCATGGCTTCTTCTTCTTGCAATTTCGGGGAAAGGATGAGGAAGGAAATGCTC
1 CTTAGGCCGATTTCATGGCTTCTTCTTCTTGCAATTTCGGGGAAAGGATGAGGAAGGAAATGCTC
11077410 T
66 T
11077411 CTTAGGCCGATTTCATGGCTTCTTCTTCTTGCAATTTCGGGGAAAGGATGAGGAAGGAAATGCTC
1 CTTAGGCCGATTTCATGGCTTCTTCTTCTTGCAATTTCGGGGAAAGGATGAGGAAGGAAATGCTC
11077476 T
66 T
11077477 CTT
1 CTT
11077480 TCCATCCACA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (66 bp):
CTTAGGCCGATTTCATGGCTTCTTCTTCTTGCAATTTCGGGGAAAGGATGAGGAAGGAAATGCTC
T
Found at i:11081774 original size:4 final size:4
Alignment explanation
Indices: 11081765--11081810 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
11081755 ATTTATCTTT
11081765 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
11081811 AGATTTTCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:11090322 original size:13 final size:13
Alignment explanation
Indices: 11090304--11090342 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
11090294 CGGCCTGCCC
11090304 ATATTATTTTTTT
1 ATATTATTTTTTT
11090317 ATATTATTATTTTT
1 ATATTATT-TTTTT
11090331 ATA-TATTTTTTT
1 ATATTATTTTTTT
11090343 TAAAAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.20
13 12 0.48
14 8 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATATTATTTTTTT
Found at i:11090326 original size:16 final size:16
Alignment explanation
Indices: 11090305--11090337 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11090295 GGCCTGCCCA
*
11090305 TATTATTTTTTTATAT
1 TATTATTTTTATATAT
11090321 TATTATTTTTATATAT
1 TATTATTTTTATATAT
11090337 T
1 T
11090338 TTTTTTAAAA
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTATTTTTATATAT
Found at i:11093309 original size:57 final size:58
Alignment explanation
Indices: 11093225--11093343 Score: 195
Period size: 57 Copynumber: 2.1 Consensus size: 58
11093215 ATAGAAATTG
* * *
11093225 TGAAAATGGAAAAATGGAAAACATTTGGAAATGAATGTGGTTTTTTCCAAAATGACAA
1 TGAAAATGGAAAAATAGAAAACATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
*
11093283 TGAAAATGGAGAAATAG-AAACATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAAAAATAGAAAACATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
11093340 TGAA
1 TGAA
11093344 CTGGAAATGA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
57 42 0.74
58 15 0.26
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (58 bp):
TGAAAATGGAAAAATAGAAAACATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
Found at i:11096169 original size:184 final size:184
Alignment explanation
Indices: 11095846--11096213 Score: 657
Period size: 184 Copynumber: 2.0 Consensus size: 184
11095836 CACCGATAGG
*
11095846 GCTAAACATAAAACTTTAAGATATTGTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
1 GCTAAACATAAAACTTTAAGATATTGTTACTCTACTTGAAAATAGTGAGAGCTTATTATCAAGTA
11095911 TTAAATCTATTTTTCGGAATAACAACTCTGTTGATTTCTATTAAGAAGAGATTTTCACCTTTACA
66 TTAAATCTATTTTTCGGAATAACAACTCTGTTGATTTCTATTAAGAAGAGATTTTCACCTTTACA
* * *
11095976 CTGAAAGTAGAGAGAACTATTTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
131 CTAAAAGTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
*
11096030 GCTAAACATAAAACTTTAAGATATTTTTACTCTACTTGAAAATAGTGAGAGCTTATTATCAAGTA
1 GCTAAACATAAAACTTTAAGATATTGTTACTCTACTTGAAAATAGTGAGAGCTTATTATCAAGTA
* *
11096095 TTAAATCTATTTTTTGGAATAACAACTCTGTTGATTTCTATTGAGAAGAGATTTTCA-CTTTCAC
66 TTAAATCTATTTTTCGGAATAACAACTCTGTTGATTTCTATTAAGAAGAGATTTTCACCTTT-AC
11096159 ACTAAAAGTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
130 ACTAAAAGTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
11096214 CCACAATCGA
Statistics
Matches: 176, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
183 4 0.02
184 172 0.98
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (184 bp):
GCTAAACATAAAACTTTAAGATATTGTTACTCTACTTGAAAATAGTGAGAGCTTATTATCAAGTA
TTAAATCTATTTTTCGGAATAACAACTCTGTTGATTTCTATTAAGAAGAGATTTTCACCTTTACA
CTAAAAGTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
Found at i:11096385 original size:6 final size:6
Alignment explanation
Indices: 11096374--11096410 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
11096364 ATTAGAAACC
11096374 AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA A
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA A
11096411 TCATATTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
AATCAA
Found at i:11097667 original size:19 final size:20
Alignment explanation
Indices: 11097625--11097667 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11097615 TCATGCTTTC
* *
11097625 TATTCACATTTTCATATTCA
1 TATTCACATTGTCAAATTCA
11097645 -ATTCACATTGTCAAATT-A
1 TATTCACATTGTCAAATTCA
11097663 TATTC
1 TATTC
11097668 CACAGTCGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (20 bp):
TATTCACATTGTCAAATTCA
Found at i:11098940 original size:41 final size:41
Alignment explanation
Indices: 11098859--11099092 Score: 378
Period size: 41 Copynumber: 5.7 Consensus size: 41
11098849 TTAATTTAAA
* * *
11098859 CAGATTCACTGGCACTTAGCCCTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAG-CCTGCTAGGCTTATAGCCTGATT
* *
11098902 CAGATCACCGACACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
11098943 TAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
11098984 CAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
11099025 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
11099066 CAGTTCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
11099093 TTTTAAAACC
Statistics
Matches: 179, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
41 163 0.91
42 12 0.07
43 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:11101407 original size:45 final size:45
Alignment explanation
Indices: 11101325--11101413 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
11101315 AATGGTAGTA
*
11101325 GTAACAGTATTCAACACACAAAGTGCTGAATCTATAACAGTAACG
1 GTAACAGTATTCAACACACAAAGTGCTGAATCGATAACAGTAACG
* * *
11101370 GTAACAGTATTCGACACACAAAGTG-TCGAGTCGATAACGGTAAC
1 GTAACAGTATTCAACACACAAAGTGCT-GAATCGATAACAGTAAC
11101414 AGTAGTCGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.21
Consensus pattern (45 bp):
GTAACAGTATTCAACACACAAAGTGCTGAATCGATAACAGTAACG
Found at i:11107275 original size:31 final size:30
Alignment explanation
Indices: 11107231--11107295 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
11107221 TAAATAAGAT
*
11107231 AATAATAAATATCTCATTAAA-ATATTAATAA
1 AATAATAAATATCTAATTAAATA-ATT-ATAA
**
11107262 AATAATATTTATCTAATTAAATAATTATAA
1 AATAATAAATATCTAATTAAATAATTATAA
11107292 AATA
1 AATA
11107296 TTATCAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 8 0.27
31 21 0.70
32 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (30 bp):
AATAATAAATATCTAATTAAATAATTATAA
Found at i:11110845 original size:15 final size:14
Alignment explanation
Indices: 11110809--11110846 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
11110799 TTTGGCAATA
11110809 CTTTT-AAAAAGTG
1 CTTTTAAAAAAGTG
11110822 CTTTTAAAAAAGTG
1 CTTTTAAAAAAGTG
11110836 CTTTTGAAAAA
1 CTTTT-AAAAA
11110847 TTAAGTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 5 0.22
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (14 bp):
CTTTTAAAAAAGTG
Found at i:11113338 original size:48 final size:48
Alignment explanation
Indices: 11113272--11113371 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
11113262 TACTTCAATT
11113272 TACTTATTTAAACAGTTTTTGGTATGAACAAATAAAGTGCTTTTTCAA
1 TACTTATTTAAACAGTTTTTGGTATGAACAAATAAAGTGCTTTTTCAA
11113320 TACTTATTTAAACAGTTTTTGGTATGAACAAATAAAGTGCTTTTTCAA
1 TACTTATTTAAACAGTTTTTGGTATGAACAAATAAAGTGCTTTTTCAA
11113368 TACT
1 TACT
11113372 CATGTCTAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (48 bp):
TACTTATTTAAACAGTTTTTGGTATGAACAAATAAAGTGCTTTTTCAA
Found at i:11113499 original size:30 final size:30
Alignment explanation
Indices: 11113463--11113524 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
11113453 AATTACAGAG
11113463 TTAGTATAAAAGAATATTAGAGTTTGGTCC
1 TTAGTATAAAAGAATATTAGAGTTTGGTCC
11113493 TTAGTATAAAAGAATATTAGAGTTTGGTCC
1 TTAGTATAAAAGAATATTAGAGTTTGGTCC
11113523 TT
1 TT
11113525 CGATTTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (30 bp):
TTAGTATAAAAGAATATTAGAGTTTGGTCC
Found at i:11117145 original size:24 final size:24
Alignment explanation
Indices: 11117111--11117161 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11117101 TTTTTAGAAG
* *
11117111 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
11117135 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
11117159 ATT
1 ATT
11117162 CGACTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:11119064 original size:3 final size:3
Alignment explanation
Indices: 11119056--11119112 Score: 80
Period size: 3 Copynumber: 18.7 Consensus size: 3
11119046 TTTTGTTCTT
11119056 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A
*
11119102 TTA TTC TTA TT
1 TTA TTA TTA TT
11119113 TACACCTATC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 42 0.86
4 5 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11119311 original size:52 final size:50
Alignment explanation
Indices: 11119206--11119329 Score: 119
Period size: 52 Copynumber: 2.4 Consensus size: 50
11119196 TTAATGTTTT
** * *
11119206 ATATATATATTTATACATACATATGTTTTTATATATTTTATAACTTTAGA
1 ATATATATATACATACATACATATCTTTTTATATATTTTATAACTTTAAA
*
11119256 ATATATATATACATACATATAT-TCTTCTTTATATATTTTTTATAA-TCTTAAA
1 ATATATATATACATACATACATATCTT-TTTATATA--TTTTATAACT-TTAAA
**
11119308 ATATACGTATACAT-CTATACAT
1 ATATATATATACATAC-ATACAT
11119330 TTTTATAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
49 3 0.05
50 27 0.44
51 2 0.03
52 29 0.48
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (50 bp):
ATATATATATACATACATACATATCTTTTTATATATTTTATAACTTTAAA
Found at i:11119370 original size:26 final size:27
Alignment explanation
Indices: 11119324--11119379 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
11119314 GTATACATCT
*
11119324 ATACATTTTTATAATACATATATGTAC
1 ATACATTTTTATAATACATATATATAC
** *
11119351 ATACA-TTTTATAATTTATATTTATAC
1 ATACATTTTTATAATACATATATATAC
11119377 ATA
1 ATA
11119380 TATATTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (27 bp):
ATACATTTTTATAATACATATATATAC
Found at i:11126561 original size:14 final size:14
Alignment explanation
Indices: 11126544--11126591 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
11126534 TTATAACTAT
11126544 TTATATATATCTTA
1 TTATATATATCTTA
11126558 TTATATATA---TA
1 TTATATATATCTTA
11126569 -T-TA-ATATCTTA
1 TTATATATATCTTA
11126580 TTATATATATCT
1 TTATATATATCT
11126592 ATATATCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
8 3 0.11
9 2 0.07
10 1 0.04
11 4 0.14
12 1 0.04
13 2 0.07
14 15 0.54
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATATATATCTTA
Found at i:11126578 original size:22 final size:23
Alignment explanation
Indices: 11126547--11126614 Score: 88
Period size: 22 Copynumber: 3.0 Consensus size: 23
11126537 TAACTATTTA
11126547 TATATATCTTATTATATATATAT
1 TATATATCTTATTATATATATAT
*
11126570 TA-ATATCTTATTATATATAT-C
1 TATATATCTTATTATATATATAT
*
11126591 TATATATCTCT-TTATAAATATAT
1 TATATATCT-TATTATATATATAT
11126614 T
1 T
11126615 TTTTAGCTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
21 2 0.05
22 33 0.85
23 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.54
Consensus pattern (23 bp):
TATATATCTTATTATATATATAT
Found at i:11126602 original size:24 final size:24
Alignment explanation
Indices: 11126532--11126602 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 24
11126522 TTATTATTAC
*
11126532 TATTATA-ACTATTTATATATATCT
1 TATTATATA-TATATATATATATCT
11126556 TATTATATATATAT-TA-ATATCT
1 TATTATATATATATATATATATCT
* *
11126578 TATTATATATATCTATATATCTCT
1 TATTATATATATATATATATATCT
11126602 T
1 T
11126603 TATAAATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 19 0.46
23 4 0.10
24 17 0.41
25 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTATATATATATATATATATCT
Found at i:11126777 original size:32 final size:30
Alignment explanation
Indices: 11126712--11126767 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
11126702 TTATTCATAT
*
11126712 ATATACATACTTACATTGTTTTATTTTACA
1 ATATACATACTTACATTCTTTTATTTTACA
*
11126742 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
11126768 TATGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACA
Found at i:11128347 original size:132 final size:131
Alignment explanation
Indices: 11128102--11128418 Score: 438
Period size: 132 Copynumber: 2.4 Consensus size: 131
11128092 AGATCAAAGA
* **
11128102 CACCAATCTTATCTCCCTAAGCAGTAGTTAAGTAGGTTGAAGATTGTAGATCTTTCTCCCTAAGC
1 CACCAACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTTCTCCCTAAGC
* * **
11128167 AGTAGTGGAGTAGATCAAAAACGGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCTGATTTAAG
66 AGTAGTGGAGCAGATCAAAAACAGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAG
11128232 C
131 C
*
11128233 CACCAACCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 CACCAACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTT-TCTCCCTAAG
* * * *
11128298 CAGTAGTGGAGCAGATCGAAGACAGTGAATCTTACCTTCCCAAGGTAGTAGGGATGCAAATTTAA
65 CAGTAGTGGAGCAGATCAAAAACAGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAAATTTAA
11128363 GC
130 GC
* ** * * **
11128365 CGCC-AGTTCTATCTCCCTCAGCAGCAGTGGAGTAGGTCAAAGATTGTAGATCTT
1 CACCAACCT-TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTT
11128419 GTCTTCCTGT
Statistics
Matches: 164, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
131 52 0.32
132 112 0.68
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (131 bp):
CACCAACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTTCTCCCTAAGC
AGTAGTGGAGCAGATCAAAAACAGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAG
C
Found at i:11128582 original size:219 final size:220
Alignment explanation
Indices: 11128233--11128857 Score: 1002
Period size: 219 Copynumber: 2.8 Consensus size: 220
11128223 TGATTTAAGC
* * *
11128233 CACCAACCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 CACCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* *
11128298 CAGTAGTGGAGCAGATCGAAGACAGTGAATCTTACCTTCCCAAGGTAGTAGGGATGCAAATTTAA
66 CAGTAGTGGAGCAGATCGAAGACAGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAAATTTAA
* * *
11128363 GCCGCCAGTTCTATCTCCCTCAGCAGCAGTGGAGTAGGTCAAAGATTGTAGATCTTGTCTTCCTG
131 GCCACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTCAAAGATTGTAGATCTTGTCTTCCTG
11128428 TACTAGCAGTGAAGCAGATCGGAAG
196 TACTAGCAGTGAAGCAGATCGGAAG
* *
11128453 CACCAGCCTTATCTCTCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTT-TCTCTCTAAG
1 CACCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * * *
11128517 CAGTAGTGGAGCAAATCGAAGACAGCGAATCTTACCTTCCCAAGGTAGTAGAGAAGTAGATTTAA
66 CAGTAGTGGAGCAGATCGAAGACAGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAAATTTAA
* *
11128582 GCCACCAGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTCAAAGATTGTAGATCTTGTCTTCCTG
131 GCCACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTCAAAGATTGTAGATCTTGTCTTCCTG
*
11128647 TACTGGCAGTGAAGCAGATCGGAAG
196 TACTAGCAGTGAAGCAGATCGGAAG
* *
11128672 CACTAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 CACCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * *
11128737 CAGTAGTGGGGCAGATCGAAGACGGCGAATCATACCTTCCCAAGGTAGTAGGGAAGCAAATTTAA
66 CAGTAGTGGAGCAGATCGAAGACAGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAAATTTAA
* **
11128802 GCCACCAG-CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTT
131 GCCACCAGTCC-TATCTCCCTAAGCAGCAGTGGAGTAGGTCAAAGATTGTAGATCTT
11128858 ATCTCCCTAA
Statistics
Matches: 371, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
219 206 0.56
220 165 0.44
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (220 bp):
CACCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGACAGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAAATTTAA
GCCACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTCAAAGATTGTAGATCTTGTCTTCCTG
TACTAGCAGTGAAGCAGATCGGAAG
Found at i:11128833 original size:132 final size:132
Alignment explanation
Indices: 11128676--11128989 Score: 497
Period size: 132 Copynumber: 2.4 Consensus size: 132
11128666 CGGAAGCACT
*
11128676 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
*
11128741 AGTGGGGCAGATCGAAGACGGCGAATCATACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGGCGAATCATACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCA
11128806 CC
131 CC
*
11128808 AGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * * *
11128873 AGTGGAGCAGATCGAAGACGGTGAATCTTACCTTTCCAAGGTAGTAGGGAAGCATATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGGCGAATCATACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCA
11128938 CC
131 CC
* * * *
11128940 AGTCC-TATCTCCCTGAGCA-TCAGTGCAGTAGATCGAAAATTGTAGATCTT
1 AG-CCTTATCTCCCTGAGCAGT-AGTGGAGTAGGTTGAAGATTGTAGATCTT
11128990 GTCTTCCTGT
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
131 1 0.01
132 165 0.98
133 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (132 bp):
AGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGCGAATCATACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCA
CC
Found at i:11128955 original size:352 final size:351
Alignment explanation
Indices: 11128453--11129299 Score: 1344
Period size: 352 Copynumber: 2.4 Consensus size: 351
11128443 AGATCGGAAG
* * *
11128453 CACCAGCCTTATCTCTCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTT-TCTCTCTAAG
1 CACCAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * * *
11128517 CAGTAGTGGAGCAAATCGAAGACAGCGAATCTTACCTTCCCAAGGTAGTAGAGAAGTAGATTTAA
66 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
* *
11128582 GCCACCAGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTC-AAAGATTGTAGATCTTGTCTTCCT
131 GCCACCAGTCCTATCTCCCTGAGCAACAGTGCAGTAGATCGAAA-ATTGTAGATCTTGTCTTCCT
* *
11128646 GTACTGGCAGTGAAGCAGATCGGAAGCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTG
195 GTACTGGCAGTGAAGCAGATCGGAAGCACCAGCCTTATCTCCCTGAGCAGCAATGGAGTAGGTTG
*
11128711 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGGGCAGATCGAAGACGGCGAATCATACCTTC
260 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCATACCTTC
*
11128776 CCAAGGTAGTAGGGAAGCAAATTTAAGC
325 CCAAGATAGTA-GGAAGCAAATTTAAGC
11128804 CACCAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 CACCAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * *
11128869 CAGTAGTGGAGCAGATCGAAGACGGTGAATCTTACCTTTCCAAGGTAGTAGGGAAGCATATTTAA
66 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
*
11128934 GCCACCAGTCCTATCTCCCTGAGCATCAGTGCAGTAGATCGAAAATTGTAGATCTTGTCTTCCTG
131 GCCACCAGTCCTATCTCCCTGAGCAACAGTGCAGTAGATCGAAAATTGTAGATCTTGTCTTCCTG
*
11128999 TACTGGCAGTGAAGCAGATCGGAAGCACCAGCCTTATCTCCTTGAGCAGCAATGGAGTAGGTTGA
196 TACTGGCAGTGAAGCAGATCGGAAGCACCAGCCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGA
* * * * *
11129064 AGATTGTAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCCTATCTTCC
261 AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCATACCTTCC
* * *
11129129 CGAGATAGTAGGAAGTAGATTTAAGC
326 CAAGATAGTAGGAAGCAAATTTAAGC
*
11129155 CACCAGTCC-TATCTCCCTGAGCAGCT-GTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
1 CACCAG-CCTTATCTCCCTAAGCAG-TAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
* *
11129218 AGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTA-GGAAGCAGATTT
64 AGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAGATTT
* *
11129282 AAGCCATCAGTCTTATCT
129 AAGCCACCAGTCCTATCT
11129300 TCCTAAGCCG
Statistics
Matches: 458, Mismatches: 34, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
350 27 0.06
351 171 0.37
352 257 0.56
353 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (351 bp):
CACCAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
GCCACCAGTCCTATCTCCCTGAGCAACAGTGCAGTAGATCGAAAATTGTAGATCTTGTCTTCCTG
TACTGGCAGTGAAGCAGATCGGAAGCACCAGCCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGA
AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCATACCTTCC
CAAGATAGTAGGAAGCAAATTTAAGC
Found at i:11129186 original size:131 final size:131
Alignment explanation
Indices: 11129024--11129299 Score: 437
Period size: 131 Copynumber: 2.1 Consensus size: 131
11129014 AGATCGGAAG
* *
11129024 CACCAG-CCTTATCTCCTTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCTTATCTCTCTAA
1 CACCAGTCC-TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
11129088 GCAGTAGTGGAGCAGATCGAAGATGGTGAATCCTATCTTCCCGAGATAGTAGGAAGTAGATTTAA
65 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCCTATCTTCCCAAGATAGTAGGAAGCAGATTTAA
11129153 GC
130 GC
**
11129155 CACCAGTCCTATCTCCCTGAGCAGCTGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
*
11129220 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGGCGAATCCTATCTTCCCAAGATAGTAGGAAGCAGATTTAAG
11129285 C
131 C
* *
11129286 CATCAGTCTTATCT
1 CACCAGTCCTATCT
11129300 TCCTAAGCCG
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 131 0.98
132 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (131 bp):
CACCAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGACGGCGAATCCTATCTTCCCAAGATAGTAGGAAGCAGATTTAAG
C
Found at i:11129252 original size:44 final size:43
Alignment explanation
Indices: 11129073--11129362 Score: 119
Period size: 44 Copynumber: 6.7 Consensus size: 43
11129063 AAGATTGTAG
* ** *
11129073 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG-CA
* * * ** * *
11129117 ATCCTATCTTCCC-GAG-A-TAGTAGGAAGTAGATTTAAGCCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACAGCA
* * * * * * ** *
11129160 GTCCTATCTCCCTGAGCAGCT-GTGGAGTAGGTTGAAGATTGTA
1 ATCTTATCTCCCTAAGCAG-TAGTGGAGCAGATCGAAGACAGCA
*
11129203 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGC-A
** * *
11129248 ATCTTATCTTCCC-AAG-A-TAGTAGGAAGCAGATTTAAGCCATCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACAGCA
* * * * *
11129291 GTCTTATCTTCCTAAGCCGTAGTGGAGCAGA-CAGAAGAAATCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGACAGCA
* **
11129334 ATCCTATCTCCCTGAAGTTGTAGTGGAGC
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGC
11129363 GAATTAAAAC
Statistics
Matches: 183, Mismatches: 45, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
42 15 0.08
43 63 0.34
44 90 0.49
45 14 0.08
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCA
Found at i:11129256 original size:571 final size:570
Alignment explanation
Indices: 11128106--11129256 Score: 1765
Period size: 571 Copynumber: 2.0 Consensus size: 570
11128096 CAAAGACACC
* *
11128106 AATCTTATCTCCCTAAGCAGTAGTTAAGTAGGTTGAAGATTGTAGATCTTTCTCCCTAAGCAGTA
1 AATCTTATCTCCCTAAGCAGCAGTGAAGTAGGTTGAAGATTGTAGATCTTTCTCCCTAAGCAGTA
* * **
11128171 GTGGAGTAGATCAAAAACGGCGAATCTTACCTTCCCAAGGTAGTAGGGAAGCTGATTTAAGCCAC
66 GTGGAGCAGATCAAAAACGGCGAATCATACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCAC
*
11128236 CAACCTTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
131 CAACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
11128301 TAGTGGAGCAGATCGAAGACAGTGAATCTTACCTTCCCAAGGTAGTAGGGATGCAAATTTAAGCC
196 TAGTGGAGCAGATCGAAGACAGTGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCC
* * * *
11128366 GCCAGTTCTATCTCCCTCAGCAGCAGTGGAGTAGGTCAAAGATTGTAGATCTTGTCTTCCTGTAC
261 ACCAGTCCTATCTCCCTCAGCAGCAGTGCAGTAGATCAAAGATTGTAGATCTTGTCTTCCTGTAC
*
11128431 TAGCAGTGAAGCAGATCGGAAGCACCAGCCTTATCTCTCTAAGCAGCAGTGGAGTAGGTTGAAGA
326 TAGCAGTGAAGCAGATCGGAAGCACCAGCCTTATCTCTCTAAGCAGCAATGGAGTAGGTTGAAGA
*
11128496 TTGTAGATCTTTCTCTCTAAGCAGTAGTGGAGCAAATCGAAGACAGCGAATCTTACCTTCCCAAG
391 TTGTAGATCTTTCTCTCTAAGCAGTAGTGGAGCAAATCGAAGACAGCGAATCCTACCTTCCCAAG
*
11128561 GTAGTAGAGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTCAAAG
456 ATAGTAGAGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTCAAAG
* * * * *
11128626 ATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGGAAGCACT
521 ATTGTAGATCTTATCTCCCTGAACTAGCAGTGAAGCAGATCGGAAGCACG
** * *
11128676 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AATCTTATCTCCCTAAGCAGCAGTGAAGTAGGTTGAAGATTGTAGATCTT-TCTCCCTAAGCAGT
* * *
11128741 AGTGGGGCAGATCGAAGACGGCGAATCATACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCA
65 AGTGGAGCAGATCAAAAACGGCGAATCATACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCA
*
11128806 CCAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
130 CCAACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
* * *
11128871 GTAGTGGAGCAGATCGAAGACGGTGAATCTTACCTTTCCAAGGTAGTAGGGAAGCATATTTAAGC
195 GTAGTGGAGCAGATCGAAGACAGTGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGC
* *
11128936 CACCAGTCCTATCTCCCTGAGCATCAGTGCAGTAGATCGAAA-ATTGTAGATCTTGTCTTCCTGT
260 CACCAGTCCTATCTCCCTCAGCAGCAGTGCAGTAGATC-AAAGATTGTAGATCTTGTCTTCCTGT
* *
11129000 ACTGGCAGTGAAGCAGATCGGAAGCACCAGCCTTATCTC-CTTGAGCAGCAATGGAGTAGGTTGA
324 ACTAGCAGTGAAGCAGATCGGAAGCACCAGCCTTATCTCTC-TAAGCAGCAATGGAGTAGGTTGA
* ** * *
11129064 AGATTGTAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCCTATCTTCC
388 AGATTGTAGATCTT-TCTCTCTAAGCAGTAGTGGAGCAAATCGAAGACAGCGAATCCTACCTTCC
* * * *
11129129 CGAGATAGTAG-GAAGTAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCTGTGGAGTAGGTT
452 CAAGATAGTAGAGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTC
* * * *
11129193 GAAGATTGTAGATCTTATCTCCCT-AAGC-AGTAGTGGAGCAGATC-GAAGACGGCG
517 AAAGATTGTAGATCTTATCTCCCTGAA-CTAGCAGTGAAGCAGATCGGAAG-C-ACG
11129247 AATCTTATCT
1 AATCTTATCT
11129257 TCCCAAGATA
Statistics
Matches: 524, Mismatches: 50, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
569 4 0.01
570 60 0.11
571 404 0.77
572 56 0.11
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (570 bp):
AATCTTATCTCCCTAAGCAGCAGTGAAGTAGGTTGAAGATTGTAGATCTTTCTCCCTAAGCAGTA
GTGGAGCAGATCAAAAACGGCGAATCATACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCAC
CAACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGACAGTGAATCTTACCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCC
ACCAGTCCTATCTCCCTCAGCAGCAGTGCAGTAGATCAAAGATTGTAGATCTTGTCTTCCTGTAC
TAGCAGTGAAGCAGATCGGAAGCACCAGCCTTATCTCTCTAAGCAGCAATGGAGTAGGTTGAAGA
TTGTAGATCTTTCTCTCTAAGCAGTAGTGGAGCAAATCGAAGACAGCGAATCCTACCTTCCCAAG
ATAGTAGAGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAACAGTGGAGTAGGTCAAAG
ATTGTAGATCTTATCTCCCTGAACTAGCAGTGAAGCAGATCGGAAGCACG
Found at i:11129328 original size:131 final size:131
Alignment explanation
Indices: 11129062--11129328 Score: 383
Period size: 131 Copynumber: 2.0 Consensus size: 131
11129052 GGAGTAGGTT
* * *
11129062 GAAGATTGTAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCCTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCCTATCTT
* * * * **
11129127 CCCGAGATAGTAGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCTGTGGAGTAGGT
66 CCCAAGATAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGCTGTGGAGCAGAC
*
11129192 T
131 A
*
11129193 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCCTATCTT
* * * *
11129258 CCCAAGATAGTAGGAAGCAGATTTAAGCCATCAGTCTTATCTTCCTAAGCCG-TAGTGGAGCAGA
66 CCCAAGATAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGCT-GTGGAGCAGA
11129322 CA
130 CA
11129324 GAAGA
1 GAAGA
11129329 AATCAATCCT
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
130 1 0.01
131 119 0.99
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (131 bp):
GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCCTATCTT
CCCAAGATAGTAGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGCTGTGGAGCAGAC
A
Found at i:11129357 original size:131 final size:131
Alignment explanation
Indices: 11129091--11129490 Score: 358
Period size: 131 Copynumber: 3.1 Consensus size: 131
11129081 TCTCTAAGCA
* * * *
11129091 GTAGTGGAGCAGATCGAAGATGGTGAATCCTATCTTCCCGAGATAGTAGGAAGTAGATTTAAGCC
1 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGTAGATTTAAGCC
* * * * * *** * * *
11129156 ACCAGTCCTATCTCCCTGAGCAGCT-GTGGAGTAGGTTGAAG-ATTGTAGATCTTATCTCCCT-A
66 ATCAGTCTTATCTTCCTAAGCAG-TAGTGGAGCAGACAGAAGAAAT-CA-ATCCTATCTCCCTGA
**
11129218 AGCA
128 AGTT
*
11129222 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAGATTTAAGCC
1 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGTAGATTTAAGCC
*
11129287 ATCAGTCTTATCTTCCTAAGCCGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGT
66 ATCAGTCTTATCTTCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGT
11129352 T
131 T
* * ** * ** *
11129353 GTAGTGGAGC-GAAT-TAAAACCAC-AGATTTTATCTCTCTGAAGTTGTAGTAGG--GTAGA-TT
1 GTAGTGGAGCAG-ATCGAAGACGGCGA-ATCTTATCT-TCCCAAG--ATAGTAGGAAGTAGATTT
*
11129412 --G-CATCAAGTCTTATC-TCCTTAAGCAGTAGTGGAGCAGACAGGAGAAATCAATCCTATCTCC
61 AAGCCATC-AGTCTTATCTTCC-TAAGCAGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCC
11129473 CTGAAGTT
124 CTGAAGTT
*
11129481 GCAGTGGAGC
1 GTAGTGGAGC
11129491 GAATTAAAAC
Statistics
Matches: 228, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
127 7 0.03
128 67 0.29
129 1 0.00
130 29 0.13
131 115 0.50
132 2 0.01
133 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (131 bp):
GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGTAGATTTAAGCC
ATCAGTCTTATCTTCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGT
T
Found at i:11129487 original size:44 final size:42
Alignment explanation
Indices: 11129326--11129970 Score: 263
Period size: 44 Copynumber: 15.1 Consensus size: 42
11129316 AGCAGACAGA
* * *
11129326 AGAAATCAATCCTATCTCCCTGAAGTTGTAGTGGAGC-GAATT
1 AGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATC
* * * * *
11129368 A-AAACCACAGATTTTATCTCTCTGAAGTTGTAGTAGG-GTAGAT-
1 AGAAA--TCA-ATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATC
* * * ** *
11129411 TG-CATCAAGTCTTATCT-CCTTAAGCAGTAGTGGAGCAGA-C
1 AGAAATCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* *
11129451 AGGAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GAATT
1 ---AGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATC
* * *
11129496 A-AAACCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
1 AGAAA--TC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * ** *
11129540 -G-CATCCAGTCTTATCTCCCTGAAGTTGTAGTAAAGTAGA-C
1 AGAAAT-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * ** *
11129580 GAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATT
1 ---AGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * *
11129625 A-AAACCACAGATCTTATCTCTCTAAAGTTGTAGTAGG-GCAGATC
1 AGAAA--TCA-ATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATC
* * *
11129669 -G-CATCCAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGA-C
1 AGAAAT-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * * * *
11129709 GAAAGAAACCAATCCTATCTCCCTGAAATTACAGTGGAGCGGATT
1 ---AGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * *
11129754 AAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
1 AGAAA-TCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * *
11129798 -G-CATCCAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGA-C
1 AGAAAT-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * * *
11129838 AGAAGAAACCAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATT
1 ---AGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * *
11129883 AAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
1 AGAAA-TCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * *
11129927 ACATA-CAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGAT-
1 AGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
11129967 AGAA
1 AGAA
11129971 GAAATAATGT
Statistics
Matches: 443, Mismatches: 108, Indels: 106
0.67 0.16 0.16
Matches are distributed among these distances:
39 2 0.00
40 21 0.05
41 128 0.29
42 19 0.04
43 21 0.05
44 243 0.55
45 9 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
AGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
Found at i:11129559 original size:85 final size:81
Alignment explanation
Indices: 11129466--11129966 Score: 280
Period size: 85 Copynumber: 5.9 Consensus size: 81
11129456 AAATCAATCC
11129466 TATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGAA-TAAAA-C-C-AATCTTATCTCTCTGAAGTTGCAGTA
*
11129531 GAGCAGATCGCATCCAGTCT
62 GAGCAGATCGAATCCAGTCT
* * * *
11129551 TATCTCCCTGAAGTTGTAGTAAAGTAGACGAA-AGAAACCAATCCTATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGT---GGAG-CGAATA-AAACCAATCTTATCTCTCTGAAGTTGCAGT
* ** ** *
11129615 GGAGTGGATTAAAACCACAGATCT
61 AGAGCAGA-TCGAATC-CAG-TCT
* * * ** *
11129639 TATCTCTCTAAAGTTGTAGTAGG-GC-AGATCGCATCCAATCTTATCTC-CTTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGT-GGAGCGA-AT-AAAACCAATCTTATCTCTC-TGAAGTTGCAGTA
* * *
11129701 GAGCAGA-CGAAAGAAACCAATCC
62 GAGCAGATC----GAATCCAGTCT
* * *
11129724 TATCTCCCTGAAATTACAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGC-GAAT-AAAAC-CA-ATCTTATCTCTCTGAAGTTGCAGTA
*
11129789 GAGCAGATCGCATCCAGTCT
62 GAGCAGATCGAATCCAGTCT
* * * *
11129809 TATCTCCCTAAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTC-CTTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGC-GA-A-TA-AAACCAATCTTATCTCTC-TGAAGTTGCAGT
* * ** *
11129873 GGAGCGGATTAAAAACACAGATCT
61 AGAGCAGA-TCGAATC-CAG-TCT
* * * * * *
11129897 TATCTCTCTGAAGTTGCAGTAGAGC-AGATCACATA-CAGTCTTATCTCACTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTGCAGTGGAGCGA-AT-A-AAACCAATCTTATCTCTCTGAAGTTGCAGTAG
11129960 AGCAGAT
63 AGCAGAT
11129967 AGAAGAAATA
Statistics
Matches: 321, Mismatches: 63, Indels: 65
0.71 0.14 0.14
Matches are distributed among these distances:
83 1 0.00
84 7 0.02
85 185 0.58
86 23 0.07
87 18 0.06
88 81 0.25
89 6 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (81 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGAATAAAACCAATCTTATCTCTCTGAAGTTGCAGTAGAGC
AGATCGAATCCAGTCT
Found at i:11129632 original size:129 final size:129
Alignment explanation
Indices: 11129289--11129974 Score: 921
Period size: 129 Copynumber: 5.3 Consensus size: 129
11129279 TTTAAGCCAT
* ** * * *
11129289 CAGTCTTATCTTCCT-AAGCCGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTT
* * * * * * *
11129353 GTAGTGGAGCGAATTAAAACCACAGATTTTATCTCTCTGAAGTTGTAGTAGGGTAGATTGCATC
66 GCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
* * ** * * * *
11129417 AAGTCTTATCT-CCTTAAGCAGTAGTGGAGCAGACAGGAGAAATCAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTT
* *
11129481 GCAGTGGAGCGAATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
* * *
11129545 CAGTCTTATCTCCCTGAAGTTGTAGTAAAGTAGAC-GAAAGAAACCAATCCTATCTCCCTGAAGT
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAG-AAGAAACCAATCCTATCTCCCTGAAGT
* * * *
11129609 TGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGTAGTAGGGCAGATCGCATC
65 TGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
* * *
11129674 CAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGAC-GAAAGAAACCAATCCTATCTCCCTGAAAT
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAG-AAGAAACCAATCCTATCTCCCTGAAGT
* *
11129738 TACAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
65 TGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
* * * *
11129803 CAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCTTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTT
* * *
11129868 GCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATA
66 GCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
* * *
11129932 CAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGATAGAAGAAA
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAAA
11129975 TAATGTAACA
Statistics
Matches: 503, Mismatches: 51, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
127 3 0.01
128 125 0.25
129 374 0.74
130 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (129 bp):
CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTT
GCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
Found at i:11131408 original size:103 final size:104
Alignment explanation
Indices: 11131179--11131444 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
11131169 GTTGTACATA
** *
11131179 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGCATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGCATCT
* **
11131244 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
11131283 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGCATCT
11131348 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
11131386 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
11131445 AATAACGGTT
Statistics
Matches: 148, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
103 83 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGCATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:11138900 original size:103 final size:104
Alignment explanation
Indices: 11138669--11138934 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
11138659 GTTGTACATA
** *
11138669 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
11138734 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
11138773 GAGGGGTTGCTAAGTGTTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
11138838 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
11138876 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
11138935 AATAACGGTT
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
103 82 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:11140445 original size:44 final size:44
Alignment explanation
Indices: 11140385--11140497 Score: 145
Period size: 44 Copynumber: 2.6 Consensus size: 44
11140375 CACATCAAAC
* * *
11140385 CTTATCACCCTAAAGTTACAGTGGAGCAGGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACCAAT
** * * *
11140429 CTTATCTCCCTGAAGTTACAGCCGAGTAGATTGAAGCTACTAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACCAAT
*
11140473 CCTATCTCCCTGAAGTTACAGTGGA
1 CTTATCTCCCTGAAGTTACAGTGGA
11140498 ATGGATTAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACCAAT
Found at i:11142197 original size:24 final size:25
Alignment explanation
Indices: 11142151--11142198 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
11142141 TCGTATTTTG
*
11142151 TTATATATATATACATGCATACATT
1 TTATATATATATACATACATACATT
*
11142176 TTATA-ATATATACATACGTACAT
1 TTATATATATATACATACATACAT
11142199 ATATTTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (25 bp):
TTATATATATATACATACATACATT
Found at i:11142374 original size:26 final size:27
Alignment explanation
Indices: 11142328--11142383 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
11142318 GTATACATCT
*
11142328 ATACATTTTTATAATACATATATGTAC
1 ATACATTTTTATAATACATATATATAC
** *
11142355 ATACA-TTTTATAATTTATATTTATAC
1 ATACATTTTTATAATACATATATATAC
11142381 ATA
1 ATA
11142384 TATATTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (27 bp):
ATACATTTTTATAATACATATATATAC
Found at i:11143077 original size:107 final size:106
Alignment explanation
Indices: 11142946--11143148 Score: 300
Period size: 107 Copynumber: 1.9 Consensus size: 106
11142936 AAAAATAATA
* *
11142946 AAGGTAATATTTTACGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTT
1 AAGGTAATATTTTACGTTTAGAAATTCGAGAAAACGTGCCCCAATGTGCTGGGTTTCGA-TTTCT
* *
11143011 CGTTCGA-CCAAATAGCCAAATATCCTTTTAAAATTTTGAAGT
65 CGTT-GAGCCAAATAGCCAAATACCCTCTTAAAATTTTGAAGT
* * *
11143053 AAGGTAATATTTTGCGTTTCGAAATTCGAGAAAGCGTGCCCCAATGTGCTGGGTTTCGATTTCTC
1 AAGGTAATATTTTACGTTTAGAAATTCGAGAAAACGTGCCCCAATGTGCTGGGTTTCGATTTCTC
* *
11143118 GTTTAGCCAAATAGTCAAATACCCTCTTAAA
66 GTTGAGCCAAATAGCCAAATACCCTCTTAAA
11143149 GTTTCAAAGT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
105 1 0.01
106 30 0.35
107 55 0.64
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (106 bp):
AAGGTAATATTTTACGTTTAGAAATTCGAGAAAACGTGCCCCAATGTGCTGGGTTTCGATTTCTC
GTTGAGCCAAATAGCCAAATACCCTCTTAAAATTTTGAAGT
Found at i:11152173 original size:24 final size:24
Alignment explanation
Indices: 11152139--11152189 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11152129 TTTCTAGAAA
* *
11152139 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
11152163 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
11152187 ATT
1 ATT
11152190 CGACTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:11154982 original size:19 final size:17
Alignment explanation
Indices: 11154917--11155012 Score: 70
Period size: 17 Copynumber: 5.3 Consensus size: 17
11154907 TTTAAAAATA
*
11154917 AAAAATTACAAAA-TATT
1 AAAAATTATAAAATTA-T
* *
11154934 AAAATTTATGTAAACTTAT
1 AAAAATTA--TAAAATTAT
11154953 AAAACATTATAAATATTTAT
1 AAAA-ATTATAAA-A-TTAT
*
11154973 AAAAATTATAAAAATAT
1 AAAAATTATAAAATTAT
11154990 AAAAATT-TAATAAATTAT
1 AAAAATTAT-A-AAATTAT
11155008 AAAAA
1 AAAAA
11155013 AAGTATAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 15
0.74 0.08 0.17
Matches are distributed among these distances:
16 1 0.02
17 18 0.28
18 16 0.25
19 16 0.25
20 13 0.20
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (17 bp):
AAAAATTATAAAATTAT
Found at i:11154983 original size:9 final size:9
Alignment explanation
Indices: 11154949--11155012 Score: 78
Period size: 9 Copynumber: 7.0 Consensus size: 9
11154939 TTATGTAAAC
11154949 TTATAAAACA
1 TTATAAAA-A
*
11154959 TTATAAATAT
1 TTATAAA-AA
11154969 TTATAAAAA
1 TTATAAAAA
11154978 TTATAAAAA
1 TTATAAAAA
11154987 -TATAAAAA
1 TTATAAAAA
11154995 TT-TAATAAA
1 TTATAA-AAA
11155004 TTATAAAAA
1 TTATAAAAA
11155013 AAGTATAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
8 11 0.23
9 19 0.40
10 17 0.35
11 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (9 bp):
TTATAAAAA
Found at i:11155019 original size:29 final size:28
Alignment explanation
Indices: 11154926--11155022 Score: 99
Period size: 30 Copynumber: 3.4 Consensus size: 28
11154916 AAAAAATTAC
* *
11154926 AAAATATTAAAATTTATGTAAACTTATAA
1 AAAATATAAAAATTTATATAAA-TTATAA
* * *
11154955 AACATTATAAATATTTATAAAAATTAT-A
1 AA-AATATAAAAATTTATATAAATTATAA
11154983 AAAATATAAAAATTTA-ATAAATTATAAA
1 AAAATATAAAAATTTATATAAATTAT-AA
11155011 AAAAGTATAAAA
1 AAAA-TATAAAA
11155023 TTAATATTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
26 8 0.14
27 12 0.21
28 8 0.14
29 13 0.23
30 15 0.27
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATATAAAAATTTATATAAATTATAA
Found at i:11155106 original size:18 final size:17
Alignment explanation
Indices: 11155085--11155158 Score: 59
Period size: 18 Copynumber: 4.4 Consensus size: 17
11155075 TTAGAATAAA
11155085 TAAATATCATATAAATAT
1 TAAATAT-ATATAAATAT
* *
11155103 TAAAAATATTAAAAATCAT
1 TAAATATA-TATAAAT-AT
11155122 TAAAT-TAT-TAAATTAT
1 TAAATATATATAAA-TAT
11155138 T-AA-ATAT-TAAATAT
1 TAAATATATATAAATAT
11155152 TAAATAT
1 TAAATAT
11155159 TAAAATTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
14 4 0.09
15 11 0.24
16 8 0.17
17 3 0.07
18 14 0.30
19 6 0.13
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATATAAATAT
Found at i:11155147 original size:7 final size:7
Alignment explanation
Indices: 11155096--11155162 Score: 71
Period size: 7 Copynumber: 8.6 Consensus size: 7
11155086 AAATATCATA
11155096 TAAATAT
1 TAAATAT
11155103 TAAAAATAT
1 T--AAATAT
11155112 TAAAAATCAT
1 T--AAAT-AT
11155122 TAAATTAT
1 TAAA-TAT
11155130 TAAATTAT
1 TAAA-TAT
11155138 TAAATAT
1 TAAATAT
11155145 TAAATAT
1 TAAATAT
11155152 TAAATAT
1 TAAATAT
11155159 TAAA
1 TAAA
11155163 ATTTATATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
7 22 0.39
8 17 0.30
9 14 0.25
10 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATAT
Found at i:11155334 original size:9 final size:9
Alignment explanation
Indices: 11155159--11155365 Score: 70
Period size: 9 Copynumber: 21.8 Consensus size: 9
11155149 TATTAAATAT
*
11155159 TAAAATTTA
1 TAAAAATTA
*
11155168 TATAAACTTA
1 TA-AAAATTA
*
11155178 TAAAATTTATA
1 TAAAA-AT-TA
*
11155189 TAAGAAATGA
1 TAA-AAATTA
*
11155199 -AAAAATCA
1 TAAAAATTA
*
11155207 TTAAAACTTA
1 -TAAAAATTA
*
11155217 TAAATATTA
1 TAAAAATTA
11155226 TAAAAA-TA
1 TAAAAATTA
11155234 TTAAAAATCTA
1 -TAAAAAT-TA
*
11155245 -ATAAATTA
1 TAAAAATTA
11155253 TCAAAAATTA
1 T-AAAAATTA
*
11155263 T-CAAATATA
1 TAAAAAT-TA
*
11155272 TATATAATTA
1 TA-AAAATTA
11155282 -ATAAAATATA
1 TA-AAAAT-TA
11155292 TTCAAAATATT-
1 -T-AAAA-ATTA
**
11155303 TAAACTTTTA
1 TAAA-AATTA
11155313 TAAAAATTCA
1 TAAAAATT-A
11155323 TAAAAATTA
1 TAAAAATTA
*
11155332 TAAACAA-TG
1 TAAA-AATTA
11155341 TAAAAATTA
1 TAAAAATTA
11155350 TAATAAATT-
1 TAA-AAATTA
11155359 TAAAAAT
1 TAAAAAT
11155366 AAAAACATAT
Statistics
Matches: 151, Mismatches: 22, Indels: 51
0.67 0.10 0.23
Matches are distributed among these distances:
8 19 0.13
9 63 0.42
10 49 0.32
11 11 0.07
12 6 0.04
13 3 0.02
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (9 bp):
TAAAAATTA
Found at i:11155346 original size:18 final size:16
Alignment explanation
Indices: 11155323--11155398 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 16
11155313 TAAAAATTCA
11155323 TAAAAATTATAAACAAT
1 TAAAAATTATAAA-AAT
11155340 GTAAAAATTATAATAAATT
1 -TAAAAATTATAA-AAA-T
*
11155359 TAAAAA-TAAAAACATAT
1 TAAAAATTATAAA-A-AT
* *
11155376 TAAAAAATGTAAAAAT
1 TAAAAATTATAAAAAT
11155392 TAAAAAT
1 TAAAAAT
11155399 GATATAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
16 9 0.18
17 13 0.27
18 25 0.51
19 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAAATTATAAAAAT
Found at i:11155407 original size:26 final size:25
Alignment explanation
Indices: 11155313--11155407 Score: 70
Period size: 27 Copynumber: 3.6 Consensus size: 25
11155303 TAAACTTTTA
11155313 TAAAAAT-TCATAAAAATTATAAACAAT
1 TAAAAATAT-ATAAAAA-TATAAA-AAT
*
11155340 GTAAAAAT-TATAATAAATTTAAAAA-
1 -TAAAAATATATAA-AAATATAAAAAT
* *
11155365 TAAAAACATATTAAAAAATGTAAAAAT
1 TAAAAATATA-T-AAAAATATAAAAAT
11155392 TAAAAATGATATAAAA
1 TAAAAAT-ATATAAAA
11155408 GAGTTATTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
24 6 0.11
25 2 0.04
26 17 0.30
27 18 0.32
28 14 0.25
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (25 bp):
TAAAAATATATAAAAATATAAAAAT
Found at i:11155679 original size:21 final size:21
Alignment explanation
Indices: 11155646--11155693 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
11155636 ATTTTTATAA
* *
11155646 GTTTTTAAGAATTTT-AATTT
1 GTTTTTAAAAATTTTAAATAT
11155666 GTTTTTATAAAATTTTAAATAT
1 GTTTTTA-AAAATTTTAAATAT
11155688 GTTTTT
1 GTTTTT
11155694 TTAATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (21 bp):
GTTTTTAAAAATTTTAAATAT
Found at i:11155693 original size:22 final size:20
Alignment explanation
Indices: 11155636--11155693 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
11155626 CAATTTTATG
* * *
11155636 ATTTTTATAAGTTTTTAAGA
1 ATTTTAATATGTTTTTAAAA
*
11155656 ATTTTAATTTGTTTTTATAAA
1 ATTTTAATATGTTTTTA-AAA
11155677 ATTTTAAATATGTTTTT
1 ATTTT-AATATGTTTTT
11155694 TTAATTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.45
21 7 0.23
22 10 0.32
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
ATTTTAATATGTTTTTAAAA
Found at i:11155774 original size:28 final size:26
Alignment explanation
Indices: 11155689--11155813 Score: 78
Period size: 28 Copynumber: 4.5 Consensus size: 26
11155679 TTTAAATATG
**
11155689 TTTTTT-TAATTTTATAAAAATTTATA
1 TTTTTTATAATTTTAT-AATTTTTATA
*
11155715 -TTTTTATAATATTTA-AAGTTTATATTA
1 TTTTTTATAAT-TTTATAA-TTTTTA-TA
11155742 TTTTTTATATATTTTATAATTTTTATA
1 TTTTTTATA-ATTTTATAATTTTTATA
* *
11155769 TGTTTTATACCAATTTTAATATGTTTTTA-A
1 T-TTTT-TA-TAATTTT-ATA-ATTTTTATA
11155799 TATTTTTATAATTTT
1 T-TTTTTATAATTTT
11155814 TCTGATTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 22
0.72 0.07 0.20
Matches are distributed among these distances:
25 7 0.09
26 7 0.09
27 9 0.11
28 27 0.34
29 13 0.16
30 10 0.13
31 6 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTTTATAATTTTATAATTTTTATA
Found at i:11155785 original size:21 final size:18
Alignment explanation
Indices: 11155709--11155804 Score: 72
Period size: 18 Copynumber: 5.2 Consensus size: 18
11155699 TTTATAAAAA
*
11155709 TTTATAT-TTTTATAATA
1 TTTATATGTTTTATAATT
* *
11155726 TTTA-AAGTTTATATTATTT
1 TTTATATGTTT-TA-TAATT
*
11155745 TTTATATATTTTATAATT
1 TTTATATGTTTTATAATT
11155763 TTTATATGTTTTATACCAATT
1 TTTATATGTTTTAT---AATT
*
11155784 TTAATATGTTTT-TAATAT
1 TTTATATGTTTTATAAT-T
11155802 TTT
1 TTT
11155805 TATAATTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
16 1 0.02
17 10 0.16
18 22 0.35
19 9 0.15
20 5 0.08
21 15 0.24
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTATATGTTTTATAATT
Found at i:11155812 original size:9 final size:9
Alignment explanation
Indices: 11155709--11155825 Score: 55
Period size: 9 Copynumber: 12.6 Consensus size: 9
11155699 TTTATAAAAA
11155709 TTTAT-ATT
1 TTTATAATT
*
11155717 TTTATAATA
1 TTTATAATT
11155726 TTTA-AAGTT
1 TTTATAA-TT
* *
11155735 TATATTATT
1 TTTATAATT
11155744 TTT-TATATAT
1 TTTATA-AT-T
11155754 TTTATAATT
1 TTTATAATT
11155763 TTTAT-ATGT
1 TTTATAAT-T
11155772 TTTATACCAATT
1 TTTAT---AATT
* *
11155784 TTAATATGTT
1 TTTATA-ATT
11155794 TTTA-ATATT
1 TTTATA-ATT
11155803 TTTATAATT
1 TTTATAATT
* *
11155812 TTTCTGATT
1 TTTATAATT
11155821 TTTAT
1 TTTAT
11155826 TTTATTTTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 25
0.69 0.11 0.21
Matches are distributed among these distances:
8 10 0.12
9 51 0.61
10 13 0.16
11 2 0.02
12 5 0.06
13 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:11165371 original size:31 final size:32
Alignment explanation
Indices: 11165336--11165399 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
11165326 TTTACTTAAT
*
11165336 ATCTTAATCCGTAGAAA-TCCTAAATTATGCA
1 ATCTTAATCCATAGAAATTCCTAAATTATGCA
*
11165367 ATCTTGATCCATAGAAATTCCTAAATTATGCA
1 ATCTTAATCCATAGAAATTCCTAAATTATGCA
11165399 A
1 A
11165400 ATATCTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 15 0.50
32 15 0.50
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (32 bp):
ATCTTAATCCATAGAAATTCCTAAATTATGCA
Found at i:11166174 original size:10 final size:10
Alignment explanation
Indices: 11166148--11166189 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
11166138 GATCCCCTAC
*
11166148 ATATATCATA
1 ATATATCACA
11166158 TATATATCACA
1 -ATATATCACA
11166169 ATATATCACA
1 ATATATCACA
*
11166179 CTATATCACA
1 ATATATCACA
11166189 A
1 A
11166190 GACTTGTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (10 bp):
ATATATCACA
Found at i:11167089 original size:22 final size:22
Alignment explanation
Indices: 11167055--11167102 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11167045 CCCCCTTCCC
* *
11167055 CTTTCTTTCATTTGTTTGTTTT
1 CTTTCTTTCATTTATTTGCTTT
11167077 CTTTCGTTT-ATTTATTTGCTTT
1 CTTTC-TTTCATTTATTTGCTTT
11167099 CTTT
1 CTTT
11167103 TTTATGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.06, C:0.15, G:0.08, T:0.71
Consensus pattern (22 bp):
CTTTCTTTCATTTATTTGCTTT
Found at i:11167638 original size:27 final size:28
Alignment explanation
Indices: 11167590--11167646 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
11167580 ATAATTATTT
* *
11167590 TTTATAGTATAATAGCTTGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
*
11167618 TTTATA-TTTAATAACTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
11167645 TT
1 TT
11167647 CCATTCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (28 bp):
TTTATAGTATAATAACTAGAACTAATTA
Found at i:11169324 original size:5 final size:5
Alignment explanation
Indices: 11169314--11169345 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
11169304 AAGAAGATAG
*
11169314 AAATA AAATA AAATA AAATA AAACA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
11169346 GAGAGAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:11169334 original size:15 final size:15
Alignment explanation
Indices: 11169314--11169359 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
11169304 AAGAAGATAG
*
11169314 AAATAAAATAAAATA
1 AAATAAAACAAAATA
11169329 AAATAAAACAAAATA
1 AAATAAAACAAAATA
* *
11169344 AAGAGAGAACAAAATA
1 AA-ATAAAACAAAATA
11169360 GAAAAATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (15 bp):
AAATAAAACAAAATA
Found at i:11171892 original size:27 final size:28
Alignment explanation
Indices: 11171840--11171892 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
11171830 AAAATAATTA
*
11171840 AAATTAAATATATTAATAATTTAAGTGT
1 AAATTAAATATATTAATAATTAAAGTGT
* *
11171868 AAATTAATTAT-TTTATAATTAAAGT
1 AAATTAAATATATTAATAATTAAAGT
11171893 ATGAATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (28 bp):
AAATTAAATATATTAATAATTAAAGTGT
Found at i:11171899 original size:27 final size:28
Alignment explanation
Indices: 11171840--11171899 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
11171830 AAAATAATTA
* *
11171840 AAATTAAATATATTAATAATTTAAGTGT
1 AAATTAAATATATTAATAATTAAAGTAT
* *
11171868 AAATTAATTAT-TTTATAATTAAAGTAT
1 AAATTAAATATATTAATAATTAAAGTAT
*
11171895 GAATT
1 AAATT
11171900 TCAATAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (28 bp):
AAATTAAATATATTAATAATTAAAGTAT
Found at i:11172704 original size:3 final size:3
Alignment explanation
Indices: 11172659--11172685 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11172649 GTAGCAGTAG
11172659 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
11172686 AGGAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11172713 original size:9 final size:10
Alignment explanation
Indices: 11172659--11172714 Score: 50
Period size: 9 Copynumber: 5.9 Consensus size: 10
11172649 GTAGCAGTAG
11172659 TAATAAT-AA
1 TAATAATAAA
11172668 TAATAAT-AA
1 TAATAATAAA
11172677 TAATAATAAA
1 TAATAATAAA
*
11172687 GGAA-ATATAAA
1 -TAATA-ATAAA
11172698 -AATAATAAA
1 TAATAATAAA
11172707 TAA-AATAA
1 TAATAATAA
11172715 CTAAAAAGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
9 28 0.68
10 6 0.15
11 7 0.17
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.27
Consensus pattern (10 bp):
TAATAATAAA
Found at i:11174210 original size:47 final size:47
Alignment explanation
Indices: 11174141--11174235 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
11174131 TCGCAATCAA
11174141 TATTATCATGCTAAAGTCATCCCAAATTTTAGCTTTGTTAGGCATTG
1 TATTATCATGCTAAAGTCATCCCAAATTTTAGCTTTGTTAGGCATTG
11174188 TATTATCATGCTAAAGTCATCCCAAATTTTAGCTTTGTTAGGCATTG
1 TATTATCATGCTAAAGTCATCCCAAATTTTAGCTTTGTTAGGCATTG
11174235 T
1 T
11174236 TGTAGGATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (47 bp):
TATTATCATGCTAAAGTCATCCCAAATTTTAGCTTTGTTAGGCATTG
Found at i:11176462 original size:30 final size:30
Alignment explanation
Indices: 11176393--11176462 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
11176383 CGTTAGCAAT
*
11176393 TAATTAATTTTTTTAAATTAAAAATATTAA
1 TAATTATTTTTTTTAAATTAAAAATATTAA
* *
11176423 AAATATATTTTTTTATAAATTTAATAA-ATT-A
1 TAAT-TATTTTTTT-TAAA-TTAAAAATATTAA
11176454 TAATTATTT
1 TAATTATTT
11176463 AAAATAGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
30 8 0.24
31 12 0.36
32 7 0.21
33 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TAATTATTTTTTTTAAATTAAAAATATTAA
Found at i:11192525 original size:26 final size:25
Alignment explanation
Indices: 11192477--11192525 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
11192467 ATTAAAAAGT
*
11192477 AATAATACATAAAAGAAAGGAAAAC
1 AATAATACATAAAAGAAAAGAAAAC
11192502 AATAATACAATAAAA-AAATAGAAA
1 AATAATAC-ATAAAAGAAA-AGAAA
11192526 TGTGAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.14
Consensus pattern (25 bp):
AATAATACATAAAAGAAAAGAAAAC
Found at i:11192988 original size:3 final size:3
Alignment explanation
Indices: 11192971--11193004 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
11192961 TAGAATTTTA
11192971 AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A
11193005 TGTTATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11203718 original size:20 final size:21
Alignment explanation
Indices: 11203681--11203720 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11203671 TTAATCCAAA
11203681 TTTAATTATTACAAAATATTT
1 TTTAATTATTACAAAATATTT
*
11203702 TTTAATT-TTATAAAATATT
1 TTTAATTATTACAAAATATT
11203721 AAACATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAATTATTACAAAATATTT
Found at i:11209505 original size:19 final size:19
Alignment explanation
Indices: 11209454--11209506 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
11209444 ATGGTATTAT
*
11209454 ATTTTTTGAAAATATTTATGT
1 ATTTTTT-AAAAT-TTTATGA
*
11209475 A-TTTTTATAAATTTTTTGA
1 ATTTTTTA-AAATTTTATGA
11209494 ATTTTTTAAAATT
1 ATTTTTTAAAATT
11209507 AAAATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 12 0.43
20 15 0.54
21 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
ATTTTTTAAAATTTTATGA
Found at i:11214571 original size:29 final size:29
Alignment explanation
Indices: 11214529--11214587 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
11214519 CACACTTGTC
* *
11214529 TATACATAAATTTTGTTGTTAATAAATAA
1 TATACATAAATTTTGATGTGAATAAATAA
*
11214558 TATATATAAATTTTGATGTGAATAAATAA
1 TATACATAAATTTTGATGTGAATAAATAA
11214587 T
1 T
11214588 TGAAGCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (29 bp):
TATACATAAATTTTGATGTGAATAAATAA
Found at i:11215207 original size:28 final size:30
Alignment explanation
Indices: 11215166--11215243 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
11215156 AAATTTAGGG
*
11215166 AAAAG-ATAGATTGGGATTAAGGA-AA-AA
1 AAAAGAATCGATTGGGATTAAGGAGAAGAA
11215193 AAAAGAATCGATTGGGATTAAGGAGAAGAA
1 AAAAGAATCGATTGGGATTAAGGAGAAGAA
*
11215223 AAGAA-AATCGATTAGGATTAA
1 AA-AAGAATCGATTGGGATTAA
11215244 TATTTTAGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
27 5 0.11
28 17 0.38
29 2 0.04
30 19 0.42
31 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.26, T:0.19
Consensus pattern (30 bp):
AAAAGAATCGATTGGGATTAAGGAGAAGAA
Found at i:11215956 original size:199 final size:199
Alignment explanation
Indices: 11215613--11215987 Score: 470
Period size: 199 Copynumber: 1.9 Consensus size: 199
11215603 TTTGGTTATT
* * * * * *
11215613 AAAGTGTATGGCGGGTTTGGATTGTTCTAAAGTTATTATCTGCTATGTGCATACAAATAGCTTTA
1 AAAGTGTATGACAGATTTGGATTGTTATAAAGATATTATCTGCTATGTGCATACAAATAGCCTTA
* * * * *
11215678 GGAAATAGATAAACTAATTCATATTTGTATGACTACTTATATCAAGCTTCTTTAGGTTCAAATAT
66 GGAAAGAGACAAACTAATTCATATTTGTATGACAACTAATATCAAGCTTATTTAGGTTCAAATAT
*
11215743 GACAAATAAGTTCCTAATTGTCAAGAACATTTTTTAAATGTTGATTCAAATATGATTATTGTTTG
131 GACAAATAAGTTCCTAATTGTCAAAAACATTTTTTAAATGTTGATTCAAATATGATTATTGTTTG
11215808 TATC
196 TATC
* * * * *
11215812 AAAGTGTATGACAGATTTGGATTTTTATAAAGATATTGTGTGCCT-TGTGCATACAGATATCCTT
1 AAAGTGTATGACAGATTTGGATTGTTATAAAGATATTATCTG-CTATGTGCATACAAATAGCCTT
* * *
11215876 AGGAAAGAGACAAA-TCAATTCCTATTTTTATGACCAAC-AATATCAAGCTTATTT-GGATTTAA
65 AGGAAAGAGACAAACT-AATTCATATTTGTATGA-CAACTAATATCAAGCTTATTTAGG-TTCAA
* * * *
11215938 ATATGACAAATTAGTTCCTAGTTGTTAAAAATATTTTTTAAATGTTGATT
127 ATATGACAAATAAGTTCCTAATTGTCAAAAACATTTTTTAAATGTTGATT
11215988 ATGATTATTG
Statistics
Matches: 148, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
198 3 0.02
199 140 0.95
200 5 0.03
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (199 bp):
AAAGTGTATGACAGATTTGGATTGTTATAAAGATATTATCTGCTATGTGCATACAAATAGCCTTA
GGAAAGAGACAAACTAATTCATATTTGTATGACAACTAATATCAAGCTTATTTAGGTTCAAATAT
GACAAATAAGTTCCTAATTGTCAAAAACATTTTTTAAATGTTGATTCAAATATGATTATTGTTTG
TATC
Found at i:11218687 original size:23 final size:23
Alignment explanation
Indices: 11218661--11218758 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
11218651 ATAAGTGCCA
11218661 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11218684 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11218707 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
11218729 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11218752 CACTGAT
1 CACTGAT
11218759 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11218726 original size:45 final size:45
Alignment explanation
Indices: 11218668--11218756 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
11218658 CCACACTGAT
* *
11218668 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
11218713 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
11218757 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:11225586 original size:23 final size:23
Alignment explanation
Indices: 11225560--11225657 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
11225550 ATAAGTGCCA
11225560 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11225583 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11225606 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
11225628 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11225651 CACTGAT
1 CACTGAT
11225658 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11225625 original size:45 final size:45
Alignment explanation
Indices: 11225567--11225655 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
11225557 CCACACTGAT
* *
11225567 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
11225612 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
11225656 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:11227664 original size:21 final size:21
Alignment explanation
Indices: 11227640--11227683 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
11227630 CAAGTGGTTG
*
11227640 CCCCAACTCATCAAGAAGCTA
1 CCCCAACTCACCAAGAAGCTA
*
11227661 CCCCAACTTACCAAGAAGCTA
1 CCCCAACTCACCAAGAAGCTA
11227682 CC
1 CC
11227684 TTAAGAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.41, G:0.09, T:0.14
Consensus pattern (21 bp):
CCCCAACTCACCAAGAAGCTA
Found at i:11229762 original size:11 final size:11
Alignment explanation
Indices: 11229746--11229776 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11229736 TGTTATTGTT
11229746 GATTTAATTCA
1 GATTTAATTCA
*
11229757 GATTTAATTCG
1 GATTTAATTCA
11229768 GATTTAATT
1 GATTTAATT
11229777 TTATTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (11 bp):
GATTTAATTCA
Found at i:11231628 original size:14 final size:14
Alignment explanation
Indices: 11231609--11231635 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11231599 CATTTTTTTC
11231609 TAACGATACTATTG
1 TAACGATACTATTG
11231623 TAACGATACTATT
1 TAACGATACTATT
11231636 CAAACATGTA
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:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (14 bp):
TAACGATACTATTG
Found at i:11232987 original size:61 final size:62
Alignment explanation
Indices: 11232782--11233004 Score: 396
Period size: 62 Copynumber: 3.6 Consensus size: 62
11232772 AGATTAATTG
*
11232782 CAACATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATGAAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATTAAATACATTA
11232844 CAACATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATTAAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATTAAATACATTA
*
11232906 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTAAT-T-AATTAAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAACATAAATTTTG-TAATATAAATTAAATACATTA
*
11232967 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
1 CAACATTAAAACTTGGAACAAACTTTGTAACATAAATT
11233005 AGGTACATTG
Statistics
Matches: 158, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
61 52 0.33
62 102 0.65
63 4 0.03
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (62 bp):
CAACATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATTAAATACATTA
Found at i:11233003 original size:123 final size:124
Alignment explanation
Indices: 11232782--11233004 Score: 396
Period size: 123 Copynumber: 1.8 Consensus size: 124
11232772 AGATTAATTG
11232782 CAACATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATGAAATACATTACAA
1 CAACATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATGAAATACATTACAA
11232847 CATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATTAAATACATTA
66 CATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATTAAATACATTA
* *
11232906 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTTAAT-T-AATTAAATACATTACA
1 CAACATTAAAACTTGGAACAAACTTTGTAACATAAATTTTG-TAATATAAATGAAATACATTACA
*
11232969 ACATTAAAACTTGGAACAAACTTTGTAATATAAATT
65 ACATTAAAACTTGGAACAAACTTTGTAACATAAATT
11233005 AGGTACATTG
Statistics
Matches: 95, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
123 50 0.53
124 41 0.43
125 4 0.04
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (124 bp):
CAACATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATGAAATACATTACAA
CATTAAAACTTGGAACAAACTTTGTAACATAAATTTTGTAATATAAATTAAATACATTA
Found at i:11236712 original size:21 final size:21
Alignment explanation
Indices: 11236688--11236754 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
11236678 CAGAAGCACG
* *
11236688 TAAGTGCTAAACAAAAACCCA
1 TAAGAGCTGAACAAAAACCCA
* * * * *
11236709 TAAGGGTTGAACGAAAGCGCA
1 TAAGAGCTGAACAAAAACCCA
*
11236730 TAAGAGCTGAACAGAAACCCA
1 TAAGAGCTGAACAAAAACCCA
11236751 TAAG
1 TAAG
11236755 GGTTAAATTG
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (21 bp):
TAAGAGCTGAACAAAAACCCA
Found at i:11236777 original size:42 final size:42
Alignment explanation
Indices: 11236693--11236798 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
11236683 GCACGTAAGT
* * *
11236693 GCTAAACAAAAACCCATAAGGGTTGAACGAAAGCGCATAAGA
1 GCTAAACAGAAACCCATAAGGGTTAAACGAAAGCGCAAAAGA
* * *
11236735 GCTGAACAGAAACCCATAAGGGTTAAATTG-AAGCTCAAAAGA
1 GCTAAACAGAAACCCATAAGGGTTAAA-CGAAAGCGCAAAAGA
*
11236777 GCTAAACGGAAACCCATTAAGG
1 GCTAAACAGAAACCCA-TAAGG
11236799 TTGAACAGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 48 0.89
43 6 0.11
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (42 bp):
GCTAAACAGAAACCCATAAGGGTTAAACGAAAGCGCAAAAGA
Found at i:11236932 original size:24 final size:24
Alignment explanation
Indices: 11236900--11236946 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
11236890 TACTTGGGTA
*
11236900 ATTTTCCGTCAATTCATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
11236924 ATTTACCGTCAATTCATCCTTTG
1 ATTTACCGTCAATTCATCCTTTG
11236947 TCACAGAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.45
Consensus pattern (24 bp):
ATTTACCGTCAATTCATCCTTTGC
Found at i:11238959 original size:6 final size:6
Alignment explanation
Indices: 11238942--11238977 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
11238932 ATTCTATTTG
*
11238942 AAAATA ACAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
11238978 CCTTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:11239129 original size:27 final size:27
Alignment explanation
Indices: 11239099--11239155 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
11239089 GCTGCTTAGT
*
11239099 AGATAGGGGTCACCAGTGCCACCTATC
1 AGATAGGGATCACCAGTGCCACCTATC
** *
11239126 AGATAGGGATCACTGGTGCCGCCTATC
1 AGATAGGGATCACCAGTGCCACCTATC
11239153 AGA
1 AGA
11239156 AAGACATCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (27 bp):
AGATAGGGATCACCAGTGCCACCTATC
Found at i:11242469 original size:6 final size:6
Alignment explanation
Indices: 11242458--11242498 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
11242448 AAACTCTGTT
*
11242458 CAAACC CAAACC CAAACC CAAACC CAAACC CAAACC TAAAC
1 CAAACC CAAACC CAAACC CAAACC CAAACC CAAACC CAAAC
11242499 GCGCGCGCGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.02
Consensus pattern (6 bp):
CAAACC
Found at i:11244453 original size:20 final size:20
Alignment explanation
Indices: 11244430--11244480 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
11244420 TTCCTATATC
*
11244430 ATTAAATTATTTTCAAATTA
1 ATTAAATTATTTACAAATTA
*
11244450 ATTAAA-TA-TCACAAATTA
1 ATTAAATTATTTACAAATTA
11244468 ATTATAATTATTT
1 ATTA-AATTATTT
11244481 GTCTTCATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 12 0.48
19 4 0.16
20 8 0.32
21 1 0.04
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAAATTATTTACAAATTA
Found at i:11244695 original size:37 final size:36
Alignment explanation
Indices: 11244654--11244749 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 36
11244644 TACACACCCA
11244654 AAGACCAAATTGAATAAATAAATAAATAACACATTTG
1 AAGACCAAATTGAATAAATAAATAAA-AACACATTTG
*
11244691 AAGACCAAGTTGAATAAAT--A-AAAAACACATTTG
1 AAGACCAAATTGAATAAATAAATAAAAACACATTTG
11244724 AAGACCAAATTGAATAAATCAAATAA
1 AAGACCAAATTGAATAAAT-AAATAA
11244750 CAGATCCAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
33 28 0.53
34 3 0.06
35 1 0.02
36 1 0.02
37 20 0.38
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.22
Consensus pattern (36 bp):
AAGACCAAATTGAATAAATAAATAAAAACACATTTG
Found at i:11244768 original size:34 final size:34
Alignment explanation
Indices: 11244626--11244770 Score: 123
Period size: 34 Copynumber: 4.2 Consensus size: 34
11244616 TCTAAGGACT
* *
11244626 AAATTGAATAACTCAGAAT-ACACACCCAAAGACC
1 AAATTGAATAAATCA-AATAACACATCCAAAGACC
* ***
11244660 AAATTGAATAAATAAATAAATAACACATTTGAAGACC
1 AAATTGAATAAAT---CAAATAACACATCCAAAGACC
* * ***
11244697 AAGTTGAATAAAT-AAAAAACACATTTGAAGACC
1 AAATTGAATAAATCAAATAACACATCCAAAGACC
* *
11244730 AAATTGAATAAATCAAATAACAGATCCAAAGACT
1 AAATTGAATAAATCAAATAACACATCCAAAGACC
11244764 AAATTGA
1 AAATTGA
11244771 TTAACTTCAG
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
33 31 0.34
34 33 0.36
36 3 0.03
37 24 0.26
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (34 bp):
AAATTGAATAAATCAAATAACACATCCAAAGACC
Found at i:11245023 original size:72 final size:72
Alignment explanation
Indices: 11244901--11245162 Score: 287
Period size: 72 Copynumber: 3.6 Consensus size: 72
11244891 TTCACACATT
* * * *
11244901 GTTTATCCTCGTTAATGAAATCATGACTGGCGGTGGCTATGTCTATCAAAGAGGTCCTCACCTGG
1 GTTTCTCCTCGTTAATGAAACCACGACTGGCGATGGCTATGTCTATCAAAGAGGTCCTCACCTGG
11244966 CTGAAAG
66 CTGAAAG
* * * *
11244973 GTTTCTCCTCGTTAATGGAACCACGACTGGTGATGGCTATGTCTATCAAAGAGGCCCTCACTTGG
1 GTTTCTCCTCGTTAATGAAACCACGACTGGCGATGGCTATGTCTATCAAAGAGGTCCTCACCTGG
11245038 CTGAAAG
66 CTGAAAG
* * * ** * * * *
11245045 GTTTCTCCCCGTTAACGAAACCATGGTTGGCG-TAGGCTATGTCTATTAGAGAGGTCCGCACCTA
1 GTTTCTCCTCGTTAATGAAACCACGACTGGCGAT-GGCTATGTCTATCAAAGAGGTCCTCACCTG
11245109 GCTGAAAG
65 GCTGAAAG
* * * *
11245117 ATTTCTTCCT-GTTAATGGAATCACGGCTGGCAGA-GGCTATGTCTAT
1 GTTTC-TCCTCGTTAATGAAACCACGACTGGC-GATGGCTATGTCTAT
11245163 TAGAGAGGCC
Statistics
Matches: 158, Mismatches: 28, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
71 1 0.01
72 153 0.97
73 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (72 bp):
GTTTCTCCTCGTTAATGAAACCACGACTGGCGATGGCTATGTCTATCAAAGAGGTCCTCACCTGG
CTGAAAG
Found at i:11245930 original size:22 final size:21
Alignment explanation
Indices: 11245905--11245947 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
11245895 ATTAACTCAA
11245905 TTAACTGCACTAATTACATAAC
1 TTAACTGCACTAATTA-ATAAC
* *
11245927 TTAACTGTATTAATTAATAAC
1 TTAACTGCACTAATTAATAAC
11245948 ACACCCAATA
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:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (21 bp):
TTAACTGCACTAATTAATAAC
Found at i:11262173 original size:4 final size:4
Alignment explanation
Indices: 11262164--11262199 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
11262154 AAATGATAGG
* *
11262164 TAAA TAAA TAAA TGAA TCAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
11262200 AGATAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (4 bp):
TAAA
Done.