Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 78 of 221
Found at i:22977863 original size:37 final size:37
Alignment explanation
Indices: 22977807--22977885 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22977797 CCGAGCTCTA
* * *
22977807 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22977844 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22977881 AAGAC
1 AAGAC
22977886 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22979342 original size:40 final size:40
Alignment explanation
Indices: 22979099--22979330 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
22979089 GAGAATTGAG
22979099 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
22979139 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
22979179 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
22979219 AGTGATATATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
22979259 AGTGATATATCCAGGTTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
22979299 GGTGTTATATTCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
22979331 ATCATGCTGG
Statistics
Matches: 176, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 176 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:22983220 original size:49 final size:47
Alignment explanation
Indices: 22983057--22983787 Score: 1304
Period size: 47 Copynumber: 15.3 Consensus size: 47
22983047 TACGTGAACG
22983057 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
22983104 TAT-TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
22983150 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
22983199 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
22983248 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
22983295 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
22983344 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
22983391 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
22983438 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
22983485 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
22983532 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
22983579 TATATGTGATAAGGCC-AATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
22983625 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
22983674 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
22983723 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
22983772 TATATGTGATAAGGCC
1 TATATGTGATAAGGCC
22983788 CCTAGATGTG
Statistics
Matches: 670, Mismatches: 6, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
46 91 0.14
47 321 0.48
49 258 0.39
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:22983247 original size:96 final size:94
Alignment explanation
Indices: 22983057--22983787 Score: 1277
Period size: 96 Copynumber: 7.7 Consensus size: 94
22983047 TACGTGAACG
*
22983057 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-TGTGATAAGGCCTA
1 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
22983121 ATGGCCGATGTGATGAACGTGAAAGTGTA
66 ATGGCCGATGTGATGAATGTGAAAGTGTA
22983150 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
22983215 TAATGGCCGATGTGATGAATGTGAAAGTGTA
64 TAATGGCCGATGTGATGAATGTGAAAGTGTA
22983246 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
22983311 TAATGGCCGATGTGATGAATGTGAAAGTGTA
64 TAATGGCCGATGTGATGAATGTGAAAGTGTA
22983342 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
22983407 TAATGGCCGATGTGATGAATGTGAAAGTGTA
64 TAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
22983438 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCTA
1 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
22983503 ATGGCCGATGTGATGAATGTGAAAGTGTA
66 ATGGCCGATGTGATGAATGTGAAAGTGTA
* *
22983532 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC-A
1 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
22983596 ATGGCCGATGTGATGAATGTGAAAGTGTA
66 ATGGCCGATGTGATGAATGTGAAAGTGTA
*
22983625 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
22983690 TAATGGCCGATGTGATGAATGTGAAAGTGTA
64 TAATGGCCGATGTGATGAATGTGAAAGTGTA
22983721 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
22983786 CC
62 CC
22983788 CCTAGATGTG
Statistics
Matches: 620, Mismatches: 8, Indels: 15
0.96 0.01 0.02
Matches are distributed among these distances:
93 118 0.19
94 148 0.24
95 23 0.04
96 233 0.38
98 98 0.16
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (94 bp):
TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:22983872 original size:47 final size:47
Alignment explanation
Indices: 22983820--22983950 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
22983810 ATAGGCTATG
*
22983820 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
* * *
22983867 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
* * * *
22983914 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
22983951 TCCCGAAGGG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.27
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGC
Found at i:22984125 original size:37 final size:37
Alignment explanation
Indices: 22984069--22984147 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
22984059 CCGTGCTCTA
* * * *
22984069 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTCGAGATTATGTCCGGGT
* *
22984106 AAGACCCGATAACTTCGTGTCGAGATTATGTCCTGGT
1 AAGACCCGATAACTACGTGTCGAGATTATGTCCGGGT
22984143 AAGAC
1 AAGAC
22984148 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTCGAGATTATGTCCGGGT
Found at i:22986905 original size:27 final size:27
Alignment explanation
Indices: 22986870--22986935 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
22986860 CCAGCACAAC
* * * *
22986870 ATATATGGCAAAGCCACTAGTAATAGT
1 ATATGTGGCAAAGCCACCAATAATAGA
22986897 ATATGTGGCAAAGCCACCAATAATAGA
1 ATATGTGGCAAAGCCACCAATAATAGA
22986924 ATATGTGGCAAA
1 ATATGTGGCAAA
22986936 ACCATCAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (27 bp):
ATATGTGGCAAAGCCACCAATAATAGA
Found at i:22996966 original size:45 final size:45
Alignment explanation
Indices: 22996902--22997031 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
22996892 GTTGTACAGT
* **
22996902 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGAC
* *
22996947 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGAC
* *
22996992 ATTTTTCGGGCC-TCGAGCCTAGCAGG-TAAAATGCCAGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
22997032 ATAAATTCGG
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 13 0.17
44 13 0.17
45 52 0.67
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGAC
Found at i:22997873 original size:27 final size:26
Alignment explanation
Indices: 22997836--22997897 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
22997826 GGGTGTTACA
*
22997836 AGTACAATATATATGGCAAAGCCAAT
1 AGTACAGTATATATGGCAAAGCCAAT
* *
22997862 AGTAACAGTATATGTGGCAAAGCCACT
1 AGT-ACAGTATATATGGCAAAGCCAAT
22997889 AGTACAGTA
1 AGTACAGTA
22997898 CACTTCCTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (26 bp):
AGTACAGTATATATGGCAAAGCCAAT
Found at i:23000345 original size:40 final size:40
Alignment explanation
Indices: 23000245--23000416 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
23000235 GCTCCTCGTT
* * *
23000245 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
23000285 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
23000324 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
23000364 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
23000404 CAAATGCCTTCGG
1 CAAATGCCTTCGG
23000417 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:23000429 original size:80 final size:79
Alignment explanation
Indices: 23000245--23000459 Score: 227
Period size: 80 Copynumber: 2.7 Consensus size: 79
23000235 GCTCCTCGTT
* * *
23000245 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
23000310 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* * * * * *
23000324 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG
* *
23000389 AATTT-GTATCTCGCA
65 -ATTTAATAACTCGCA
* * * * * *
23000404 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGAC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGAC
23000460 TTAGCCCGTG
Statistics
Matches: 110, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
79 38 0.35
80 65 0.59
81 7 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
TTTAATAACTCGCA
Found at i:23003798 original size:21 final size:23
Alignment explanation
Indices: 23003772--23003823 Score: 90
Period size: 21 Copynumber: 2.3 Consensus size: 23
23003762 GGTAAACAGT
23003772 GTTAGAGAACTTATAGATTT-G-
1 GTTAGAGAACTTATAGATTTGGC
23003793 GTTAGAGAACTTATAGATTTGGC
1 GTTAGAGAACTTATAGATTTGGC
23003816 GTTAGAGA
1 GTTAGAGA
23003824 CTTGGTATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 20 0.69
22 1 0.03
23 8 0.28
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.35
Consensus pattern (23 bp):
GTTAGAGAACTTATAGATTTGGC
Found at i:23008000 original size:25 final size:25
Alignment explanation
Indices: 23007972--23008023 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
23007962 ATATTGATAC
23007972 TTGATTTTAGAAATGGTAAAATTTA
1 TTGATTTTAGAAATGGTAAAATTTA
23007997 TTGATTTTAGAAATGGTAAAATTTA
1 TTGATTTTAGAAATGGTAAAATTTA
23008022 TT
1 TT
23008024 TTTAAAAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (25 bp):
TTGATTTTAGAAATGGTAAAATTTA
Found at i:23012091 original size:49 final size:49
Alignment explanation
Indices: 23012019--23012205 Score: 220
Period size: 49 Copynumber: 3.8 Consensus size: 49
23012009 TGAGGTCACG
23012019 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * *
23012068 TGTGTAGTACTAAGTGCAGGCTACTA--TGCTACCCA-AAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTG-TA-CCAGATAA-T-TGGTCGCA
* *
23012118 TGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACT-GTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAATTGGTCGCA
* * *
23012167 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
23012206 GCTTCAGCTA
Statistics
Matches: 115, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
47 2 0.02
48 6 0.05
49 68 0.59
50 34 0.30
51 3 0.03
52 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:23012188 original size:99 final size:100
Alignment explanation
Indices: 23012014--23012200 Score: 324
Period size: 99 Copynumber: 1.9 Consensus size: 100
23012004 TATTGTGAGG
*
23012014 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
23012079 AAGTGCAGGCTACTATGC-TACCCAAAAACTATGA
66 AAGTGCAGGCTACTATGCGTACCCAAAAACTATGA
*
23012113 TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACT-GTTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGA-TAATTGGTCGCATGTGTAGTAC
*
23012177 TAAGTGTAGGCTACTATGCGTACC
65 TAAGTGCAGGCTACTATGCGTACC
23012201 AGATAGCTTC
Statistics
Matches: 83, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
99 78 0.94
100 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCAAAAACTATGA
Found at i:23020949 original size:24 final size:20
Alignment explanation
Indices: 23020917--23020961 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 20
23020907 ATCTATTTAA
23020917 TAAACTGTGTATGATTAATATGT
1 TAAACTGTG--TGATT-ATATGT
23020940 TAAACCTGTGTGATTATATGT
1 TAAA-CTGTGTGATTATATGT
23020961 T
1 T
23020962 CACCCTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
22 5 0.24
23 4 0.19
24 5 0.24
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (20 bp):
TAAACTGTGTGATTATATGT
Found at i:23021192 original size:16 final size:17
Alignment explanation
Indices: 23021159--23021192 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23021149 TCAAAAGTAA
*
23021159 AAAATATTTTGATTTTG
1 AAAATATTCTGATTTTG
23021176 AAAATATTCTG-TTTTG
1 AAAATATTCTGATTTTG
23021192 A
1 A
23021193 TAAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (17 bp):
AAAATATTCTGATTTTG
Found at i:23023407 original size:51 final size:51
Alignment explanation
Indices: 23023330--23023477 Score: 244
Period size: 51 Copynumber: 2.9 Consensus size: 51
23023320 CGGATACACG
*
23023330 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* *
23023381 GTGGCCTTCACATAGTACCATACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
23023432 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAACTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
23023478 CTAAGGTTCA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 89 0.99
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:23031009 original size:27 final size:27
Alignment explanation
Indices: 23030978--23031155 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
23030968 TAAATTGTAC
*
23030978 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
23031005 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
23031031 ATGCACTAAGTGTGCGGATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
23031059 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
23031087 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
23031114 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
23031141 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23031156 GGCTCAATAA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:23031092 original size:82 final size:81
Alignment explanation
Indices: 23030979--23031128 Score: 212
Period size: 82 Copynumber: 1.8 Consensus size: 81
23030969 AAATTGTACA
* * * *
23030979 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
23031043 TGCGGATTGACCATGCG
65 TGCGGATTGACCATGCG
** *
23031060 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
23031125 TGCG
65 TGCG
23031129 AGTTGATTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 15 0.25
82 44 0.73
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGGATTGACCATGCG
Found at i:23031146 original size:82 final size:81
Alignment explanation
Indices: 23030975--23031155 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
23030965 GATTAAATTG
* * * *
23030975 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
23031040 GTGTGCGGATTGACCA
66 GTGTGCGGATTGACCA
* * ** *
23031056 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
23031120 AAGTGTGC-GAGTTGATTA
64 AAGTGTGCGGA-TTGACCA
* *
23031138 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23031156 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGGATTGACCA
Found at i:23051084 original size:26 final size:26
Alignment explanation
Indices: 23051055--23051109 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
23051045 AAAATAATAT
23051055 ATACTTAGTTTTAATAACTGCATTAG
1 ATACTTAGTTTTAATAACTGCATTAG
23051081 ATACTTAGTTTTAATAACTGCATTAG
1 ATACTTAGTTTTAATAACTGCATTAG
23051107 ATA
1 ATA
23051110 ATAGATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (26 bp):
ATACTTAGTTTTAATAACTGCATTAG
Found at i:23062367 original size:16 final size:17
Alignment explanation
Indices: 23062334--23062367 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23062324 TCGAAAGTTA
23062334 AAAATATTCTGATTTTG
1 AAAATATTCTGATTTTG
23062351 AAAATATTCTG-TTTTG
1 AAAATATTCTGATTTTG
23062367 A
1 A
23062368 TAAAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
AAAATATTCTGATTTTG
Found at i:23068255 original size:38 final size:38
Alignment explanation
Indices: 23068204--23068279 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
23068194 TTTTTAGGGA
23068204 AAGGATTAAATGATAAAGTAAGGGAAACATGGGTGATT
1 AAGGATTAAATGATAAAGTAAGGGAAACATGGGTGATT
23068242 AAGGATTAAATGATAAAGTAAGGGAAACATGGGTGATT
1 AAGGATTAAATGATAAAGTAAGGGAAACATGGGTGATT
23068280 GAAAGTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.03, G:0.29, T:0.24
Consensus pattern (38 bp):
AAGGATTAAATGATAAAGTAAGGGAAACATGGGTGATT
Found at i:23071903 original size:17 final size:17
Alignment explanation
Indices: 23071883--23071916 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23071873 TGATAAACAA
23071883 TATTGCCTGGCGGACAC
1 TATTGCCTGGCGGACAC
* *
23071900 TATTGCTTGGTGGACAC
1 TATTGCCTGGCGGACAC
23071917 AGTTCATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (17 bp):
TATTGCCTGGCGGACAC
Found at i:23074903 original size:29 final size:29
Alignment explanation
Indices: 23074840--23074974 Score: 119
Period size: 29 Copynumber: 4.6 Consensus size: 29
23074830 GTCTTAACTG
* * **
23074840 TCCCTTTTCATATTCGATTGTCGAAACCA
1 TCCCTTTTCATAATCGATGGTCGTCACCA
*
23074869 TCCCCTTTCATTAATCGATGGTCGTCACCA
1 TCCCTTTTCA-TAATCGATGGTCGTCACCA
* * *
23074899 TCCCTTTTCATAGTTGATGGTTGTCACCA
1 TCCCTTTTCATAATCGATGGTCGTCACCA
* * * * * *
23074928 TCCTTTTTCATCATCGATAGCCG-AAGCTA
1 TCCCTTTTCATAATCGATGGTCGTCA-CCA
23074957 TCCCTTTTCATAATCGAT
1 TCCCTTTTCATAATCGAT
23074975 AGCCAAAGCT
Statistics
Matches: 84, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
28 1 0.01
29 59 0.70
30 24 0.29
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (29 bp):
TCCCTTTTCATAATCGATGGTCGTCACCA
Found at i:23074975 original size:29 final size:29
Alignment explanation
Indices: 23074927--23074986 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
23074917 GGTTGTCACC
* * *
23074927 ATCCTTTTTCATCATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
23074956 ATCCCTTTTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
23074985 AT
1 AT
23074987 AGCCGTTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCAAAGCT
Found at i:23081157 original size:18 final size:18
Alignment explanation
Indices: 23081134--23081168 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23081124 GTGGCTCCAT
23081134 TTTATCTTCCGATCTCAA
1 TTTATCTTCCGATCTCAA
23081152 TTTATCTTCCGATCTCA
1 TTTATCTTCCGATCTCA
23081169 CCGATTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.29, G:0.06, T:0.46
Consensus pattern (18 bp):
TTTATCTTCCGATCTCAA
Found at i:23095354 original size:17 final size:20
Alignment explanation
Indices: 23095318--23095356 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
23095308 CGCGAGTTCC
23095318 TTTTAGCCTAGATCTAATTA
1 TTTTAGCCTAGATCTAATTA
23095338 TTTTA-CCTA-AT-TAATTA
1 TTTTAGCCTAGATCTAATTA
23095355 TT
1 TT
23095357 GATGCAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 4 0.21
20 5 0.26
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTAGCCTAGATCTAATTA
Found at i:23108953 original size:20 final size:20
Alignment explanation
Indices: 23108928--23108977 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
23108918 ATTTGGTGAT
23108928 GAGGTATCA-AAACTTGGTAA
1 GAGGTATCAGAAAC-TGGTAA
*
23108948 GAGGTATTAGAAACTGGTAA
1 GAGGTATCAGAAACTGGTAA
23108968 GAGGTATCAG
1 GAGGTATCAG
23108978 TACTTTGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (20 bp):
GAGGTATCAGAAACTGGTAA
Found at i:23113288 original size:12 final size:12
Alignment explanation
Indices: 23113271--23113298 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23113261 TGTAAAACAA
23113271 TTATGCAAATTT
1 TTATGCAAATTT
23113283 TTATGCAAATTT
1 TTATGCAAATTT
23113295 TTAT
1 TTAT
23113299 AAAACATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (12 bp):
TTATGCAAATTT
Found at i:23116058 original size:17 final size:17
Alignment explanation
Indices: 23116038--23116106 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
23116028 AAAATAATAT
23116038 TATTTTA-ATAGATTTAA
1 TATTTTATATA-ATTTAA
*
23116055 TATTTTATTTAATTTAA
1 TATTTTATATAATTTAA
* *
23116072 TA-TTTATCTTAA--TAG
1 TATTTTAT-ATAATTTAA
23116087 TATTTTAT-TAATTTAA
1 TATTTTATATAATTTAA
23116103 TATT
1 TATT
23116107 AAAGTGGTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.07
15 4 0.09
16 16 0.36
17 19 0.43
18 2 0.05
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTTTATATAATTTAA
Found at i:23116146 original size:68 final size:72
Alignment explanation
Indices: 23116051--23116184 Score: 186
Period size: 68 Copynumber: 1.9 Consensus size: 72
23116041 TTTAATAGAT
** * *
23116051 TTAATATTTTATTTAATTTAATATTTATC-T-TA-AT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATATTAAAGT
23116112 GGTTATC
66 GGTTATC
* *
23116119 TTAATATTAAATTTAATTTAATTTTTATCTTGTAGATAAATATTCTATTAATTTAATGTTAAAGT
1 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATATTAAAGT
23116184 G
66 G
23116185 ATTAAGTTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
68 26 0.46
69 1 0.02
70 2 0.04
71 2 0.04
72 25 0.45
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.54
Consensus pattern (72 bp):
TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATATTAAAGT
GGTTATC
Found at i:23119131 original size:26 final size:29
Alignment explanation
Indices: 23119093--23119147 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
23119083 CGAGTCAAAG
* *
23119093 TAAATATATTATT-AAAA-AATTTTAAAA
1 TAAATATAATATTGAAAAGAATTATAAAA
23119120 TAAA-ATAATATTGAAAAGAATTATAAAA
1 TAAATATAATATTGAAAAGAATTATAAAA
23119148 ATTAGTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 8 0.33
28 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (29 bp):
TAAATATAATATTGAAAAGAATTATAAAA
Found at i:23129240 original size:66 final size:66
Alignment explanation
Indices: 23129122--23129299 Score: 205
Period size: 66 Copynumber: 2.6 Consensus size: 66
23129112 ATAGCGGAAC
* * * *
23129122 TGCATTCATGAGCAAAGTGTTCTCCTTCTCCACACTTGTAGCATAAGCTAGATGCTGCAGTACCA
1 TGCATTCATGTGCAAA--G-TCTCCTCCTCCACACTTGTAGCATAAACTAGATGATGCAGTACCA
*
23129187 GTGG
63 GTAG
* * *
23129191 TGCATT-GTCGTGCAAAGTGTCCTCCTCCACACTTGTAGTATAAACTAGATGATGCAGTACCAGT
1 TGCATTCAT-GTGCAAAGTCTCCTCCTCCACACTTGTAGCATAAACTAGATGATGCAGTACCAGT
23129255 AG
65 AG
*
23129257 TGCATTCATGTGCAAAGTCCCCTCCTTCACCACACTTGTAGCA
1 TGCATTCATGTGCAAAGTCTCCTCC-T--CCACACTTGTAGCA
23129300 CAAGCTAGGT
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
66 63 0.68
67 3 0.03
68 1 0.01
69 25 0.27
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (66 bp):
TGCATTCATGTGCAAAGTCTCCTCCTCCACACTTGTAGCATAAACTAGATGATGCAGTACCAGTA
G
Found at i:23143089 original size:6 final size:6
Alignment explanation
Indices: 23143078--23143105 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23143068 GTGGCTATCT
23143078 TACAAG TACAAG TACAAG TACAAG TACA
1 TACAAG TACAAG TACAAG TACAAG TACA
23143106 TAAGGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (6 bp):
TACAAG
Found at i:23147075 original size:45 final size:45
Alignment explanation
Indices: 23146981--23147259 Score: 244
Period size: 45 Copynumber: 6.5 Consensus size: 45
23146971 AGGTATAAGG
* * * * * *
23146981 TATATATAATAATTGTCGGTTTTACCGACTAGTGCTGGG--CACA
1 TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
* * *
23147024 TATATATAATATTTGTTAGTTTCACTGACTAATGCCGGGCACACA
1 TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
* ** *
23147069 CATATATAATATTTGTCAGTTTCACCAACCAATGTTGGGCACACA
1 TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
* * * *
23147114 TATGTATAATATTTGTCGGTTTCATTGACCAGTGCTGGGCACAC-
1 TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
* * * *
23147158 ---AT-T-A-ATTTGTCAGTTTTACCGACCAGTGCT-GAC-CACA
1 TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
* *
23147195 TATATATAATAATTGTCTA-TTTCACTGACCAATGTTGGGCACAC-
1 TATATATAATATTTGTC-AGTTTCACTGACCAATGCTGGGCACACA
23147239 -ATATATAATATTTGTCAGTTT
1 TATATATAATATTTGTCAGTTT
23147260 GACCGGCTAG
Statistics
Matches: 188, Mismatches: 35, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
36 3 0.02
37 2 0.01
38 22 0.12
39 1 0.01
40 3 0.02
41 2 0.01
42 2 0.01
43 69 0.37
44 3 0.02
45 81 0.43
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (45 bp):
TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
Found at i:23147277 original size:43 final size:43
Alignment explanation
Indices: 23146982--23147264 Score: 254
Period size: 43 Copynumber: 6.6 Consensus size: 43
23146972 GGTATAAGGT
* * * * *
23146982 ATATATAATAATTGTCGGTTTTACCGACTAGTGCTGGGCACAT
1 ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGGCACAC
* * * * *
23147025 ATATATAATATTTGTTAGTTTCACTGACTAATGCCGGGCACACAC
1 ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGG--CACAC
* * *
23147070 ATATATAATATTTGTCAGTTTCACCAACCAATGTTGGGCACAC
1 ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGGCACAC
* **
23147113 ATATGTATAATATTTGTCGGTTTCATTGACCAGTGCTGGGCACAC
1 ATA--TATAATATTTGTCAGTTTCACCGACCAGTGCTGGGCACAC
* ** *
23147158 --AT-T-A-ATTTGTCAGTTTTACCGACCAGTGCTGACCACAT
1 ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGGCACAC
* * * *
23147196 ATATATAATAATTGTCTA-TTTCACTGACCAATGTTGGGCACAC
1 ATATATAATATTTGTC-AGTTTCACCGACCAGTGCTGGGCACAC
*
23147239 ATATATAATATTTGTCAGTTTGACCG
1 ATATATAATATTTGTCAGTTTCACCG
23147265 GCTAGCGTTG
Statistics
Matches: 191, Mismatches: 38, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
38 27 0.14
39 1 0.01
40 3 0.02
41 2 0.01
42 2 0.01
43 85 0.45
44 1 0.01
45 70 0.37
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (43 bp):
ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGGCACAC
Found at i:23160759 original size:18 final size:18
Alignment explanation
Indices: 23160736--23160771 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23160726 AAAGACAAAA
*
23160736 ATTAATGATGTTTGAACT
1 ATTAATGATGTTTAAACT
23160754 ATTAATGATGTTTAAACT
1 ATTAATGATGTTTAAACT
23160772 TAAGTAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (18 bp):
ATTAATGATGTTTAAACT
Found at i:23163112 original size:28 final size:28
Alignment explanation
Indices: 23163049--23163286 Score: 379
Period size: 28 Copynumber: 8.5 Consensus size: 28
23163039 ATATTAAGTC
*
23163049 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
23163076 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
23163104 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
23163132 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
23163160 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
23163188 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
23163216 CGCACACTTAGTGCTACAAAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23163244 TGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
23163273 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23163287 CAATCTCATG
Statistics
Matches: 196, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.11
28 156 0.80
29 18 0.09
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23181044 original size:50 final size:50
Alignment explanation
Indices: 23180892--23181083 Score: 253
Period size: 50 Copynumber: 3.8 Consensus size: 50
23180882 GATAATAACA
* * * ** *
23180892 TGCCAAAGCCATGTCCCAGACATGGTCTTACCTAGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
23180943 TGCCCATGCCATGTCCCAAACATGGTCTT--ATGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAT-GGGACCTCTCATCTCGG
*
23180992 TGCCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
23181042 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23181084 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
49 36 0.29
50 60 0.48
51 28 0.23
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:23181083 original size:100 final size:100
Alignment explanation
Indices: 23180892--23181071 Score: 254
Period size: 99 Copynumber: 1.8 Consensus size: 100
23180882 GATAATAACA
* * ** * *
23180892 TGCCAAAGCCATGTCCCAGACATGGTCTTACCTAGGATGTTCTCATATCGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTACCAGACATGGTCTTACATAGGATCCTCTCATATCGGTGCCAACGCCATGT
23180957 CCCAAACATGGTCTTATGGGGACCTCTCATCTCGG
66 CCCAAACATGGTCTTATGGGGACCTCTCATCTCGG
* * *
23180992 TGCCAACGCCATGTACCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAACGCCATGT
1 TGCCAAAGCCATGTACCAGACATGGTCTTACATAGGATCCTCTCATATCGGTGCCAACGCCATGT
* *
23181056 CCTAGACATGGTCTTA
66 CCCAAACATGGTCTTA
23181072 CATGGGACCT
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
99 36 0.52
100 33 0.48
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (100 bp):
TGCCAAAGCCATGTACCAGACATGGTCTTACATAGGATCCTCTCATATCGGTGCCAACGCCATGT
CCCAAACATGGTCTTATGGGGACCTCTCATCTCGG
Found at i:23194072 original size:40 final size:40
Alignment explanation
Indices: 23194028--23194493 Score: 837
Period size: 40 Copynumber: 11.7 Consensus size: 40
23194018 GCAAACACAT
* * *
23194028 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23194068 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
23194108 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
23194148 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23194188 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23194228 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
23194268 TTGCCTTC-GGT-CTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
23194306 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
23194346 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23194386 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23194426 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23194466 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCCTAGCCCGGATATAT
23194494 TCCAATGCTC
Statistics
Matches: 416, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
38 34 0.08
39 6 0.01
40 376 0.90
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
Found at i:23202886 original size:40 final size:40
Alignment explanation
Indices: 23202802--23203268 Score: 846
Period size: 40 Copynumber: 11.7 Consensus size: 40
23202792 GCAAACACAT
* * *
23202802 TTGCCTTCGGGTCTTAGCCCGAACATATC-ACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23202841 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
23202881 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
23202921 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23202961 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23203001 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
23203041 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
23203081 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
23203121 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23203161 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23203201 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
*
23203241 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCCTAGCCCGGATATAT
23203269 TCCAATGCTC
Statistics
Matches: 419, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
39 27 0.06
40 392 0.94
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (40 bp):
TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
Found at i:23205413 original size:19 final size:19
Alignment explanation
Indices: 23205389--23205427 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23205379 TTTAGGGCTG
*
23205389 TCACATATCAA-ATCCAATA
1 TCACATA-CAATATACAATA
23205408 TCACATACAATATACAATA
1 TCACATACAATATACAATA
23205427 T
1 T
23205428 ATTTTTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (19 bp):
TCACATACAATATACAATA
Found at i:23212839 original size:17 final size:17
Alignment explanation
Indices: 23212817--23212863 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
23212807 AAGTGATTTT
23212817 GTGAAAAACTCCATTAA
1 GTGAAAAACTCCATTAA
23212834 GTGAAAAACTCCATTAA
1 GTGAAAAACTCCATTAA
23212851 GTGAAAAACTCCA
1 GTGAAAAACTCCA
23212864 AACAAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (17 bp):
GTGAAAAACTCCATTAA
Found at i:23231657 original size:15 final size:15
Alignment explanation
Indices: 23231637--23231691 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
23231627 TTTTCAATTC
*
23231637 TTTTTTTCCTTTCTT
1 TTTTTTTCATTTCTT
*
23231652 TTTTTTTGATTTCTT
1 TTTTTTTCATTTCTT
* *
23231667 TTCTTTTTCTTTTTTAT
1 TT-TTTTTCATTTCT-T
23231684 TTTTTTTC
1 TTTTTTTC
23231692 TCTTGGTCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
15 15 0.45
16 15 0.45
17 3 0.09
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTTTCATTTCTT
Found at i:23231669 original size:20 final size:21
Alignment explanation
Indices: 23231634--23231679 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
23231624 TCATTTTCAA
23231634 TTCTTTT--TTTCCTTTCTTT
1 TTCTTTTGATTTCCTTTCTTT
*
23231653 TT-TTTTGATTTCTTTTCTTT
1 TTCTTTTGATTTCCTTTCTTT
23231673 TTCTTTT
1 TTCTTTT
23231680 TTATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.17
19 2 0.09
20 13 0.57
21 4 0.17
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (21 bp):
TTCTTTTGATTTCCTTTCTTT
Found at i:23238554 original size:41 final size:41
Alignment explanation
Indices: 23238509--23238589 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
23238499 AAATCTTAAC
*
23238509 ATGATACACCGGCAGGAAGCCTACTAGCCTTAAAGCCTGAT
1 ATGATACACCGGCAGGAAGCCTACTAGCCGTAAAGCCTGAT
** * *
23238550 ATGATACACCGGCATTAAGCCTGCTAGGCGTAAAGCCTGA
1 ATGATACACCGGCAGGAAGCCTACTAGCCGTAAAGCCTGA
23238590 AATAATTCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (41 bp):
ATGATACACCGGCAGGAAGCCTACTAGCCGTAAAGCCTGAT
Found at i:23238611 original size:41 final size:41
Alignment explanation
Indices: 23238525--23238618 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
23238515 CACCGGCAGG
* * * * * * *
23238525 AAGCCTACTAGCCTTAAAGCCTGATATGATACACCGGCATT
1 AAGCCTGCTAGGCGTAAAGCCTGAAATAATACACCAGCATA
*
23238566 AAGCCTGCTAGGCGTAAAGCCTGAAATAATTCACCAGCATA
1 AAGCCTGCTAGGCGTAAAGCCTGAAATAATACACCAGCATA
23238607 AAGCCTGCTAGG
1 AAGCCTGCTAGG
23238619 TTGAAAGGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (41 bp):
AAGCCTGCTAGGCGTAAAGCCTGAAATAATACACCAGCATA
Found at i:23243365 original size:119 final size:120
Alignment explanation
Indices: 23243159--23243381 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
23243149 TACTCGTTCA
* * * * *
23243159 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGAATTAGCCCGGAT
*
23243224 ATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* *
23243279 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCACACAAATGCCTTC-GGATATTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-ATTAGCCCGG
* * *
23243341 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
23243382 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGAATTAGCCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:23243381 original size:40 final size:40
Alignment explanation
Indices: 23243140--23243381 Score: 278
Period size: 40 Copynumber: 6.1 Consensus size: 40
23243130 GAATTTAACT
** *
23243140 GGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
23243180 GGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
23243220 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
23243260 GGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
23243299 GGA-ATTAGTAACTCACACAAATGCCTTC-GGATATTAGTCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCC
* * *
23243339 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 GGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
23243379 GGA
1 GGA
23243382 CATCATTCAA
Statistics
Matches: 174, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 129 0.74
41 11 0.06
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:23265579 original size:14 final size:14
Alignment explanation
Indices: 23265560--23265603 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
23265550 AAACATATTT
23265560 AAAACATAACTTAG
1 AAAACATAACTTAG
*
23265574 AAAACATAACTTGG
1 AAAACATAACTTAG
*
23265588 AAAA-ATATCTTA-
1 AAAACATAACTTAG
23265600 AAAA
1 AAAA
23265604 AGTATCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 4 0.15
13 6 0.22
14 17 0.63
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAACTTAG
Found at i:23265628 original size:41 final size:41
Alignment explanation
Indices: 23265582--23265662 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
23265572 AGAAAACATA
23265582 ACTTGGAAAAATATCTTAAAAAAGTATCAAAACTTTAAAAG
1 ACTTGGAAAAATATCTTAAAAAAGTATCAAAACTTTAAAAG
23265623 ACTTGGAAAAATATCTTAAAAAAGTATCAAAACTTTAAAA
1 ACTTGGAAAAATATCTTAAAAAAGTATCAAAACTTTAAAA
23265663 AAACCAAGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.27
Consensus pattern (41 bp):
ACTTGGAAAAATATCTTAAAAAAGTATCAAAACTTTAAAAG
Found at i:23269897 original size:19 final size:17
Alignment explanation
Indices: 23269869--23269914 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 17
23269859 GGTTTTGTTA
*
23269869 TTTTACTTAATTCGATTAG
1 TTTTATTTAATTC--TTAG
23269888 TTTTATTTAA--CTTAG
1 TTTTATTTAATTCTTAG
23269903 TTTTATTTAATT
1 TTTTATTTAATT
23269915 TCTACAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 14 0.58
17 1 0.04
19 9 0.38
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.61
Consensus pattern (17 bp):
TTTTATTTAATTCTTAG
Found at i:23269904 original size:15 final size:15
Alignment explanation
Indices: 23269884--23269912 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23269874 CTTAATTCGA
23269884 TTAGTTTTATTTAAC
1 TTAGTTTTATTTAAC
23269899 TTAGTTTTATTTAA
1 TTAGTTTTATTTAA
23269913 TTTCTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
TTAGTTTTATTTAAC
Found at i:23270147 original size:60 final size:60
Alignment explanation
Indices: 23270044--23270167 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
23270034 GGAACAGGAA
* * *
23270044 TGAT-CCTGGTCCCAATGACAATCCGAATGGTCAAGATATTAATCCTCTTGTTTGTAGGG
1 TGATACCTGGTCCCAATGACAATCCGAATGGTCAAAAGATTAATCCTCATGTTTGTAGGG
** * *
23270103 TGATACCTGGTCTGAATGATAATCTGAATGGTCAAAACGA-TAATCCTCATGTTTGTAGGG
1 TGATACCTGGTCCCAATGACAATCCGAATGGTCAAAA-GATTAATCCTCATGTTTGTAGGG
23270163 TGATA
1 TGATA
23270168 GATGACAGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
59 4 0.07
60 51 0.91
61 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (60 bp):
TGATACCTGGTCCCAATGACAATCCGAATGGTCAAAAGATTAATCCTCATGTTTGTAGGG
Found at i:23272167 original size:12 final size:12
Alignment explanation
Indices: 23272150--23272189 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
23272140 GTATCTTATG
23272150 AGTAAAGGTAAT
1 AGTAAAGGTAAT
*
23272162 AGTAAATGTAAT
1 AGTAAAGGTAAT
23272174 AGTAAAGGTAAT
1 AGTAAAGGTAAT
23272186 AGTA
1 AGTA
23272190 GCTTATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.28
Consensus pattern (12 bp):
AGTAAAGGTAAT
Found at i:23286834 original size:14 final size:13
Alignment explanation
Indices: 23286806--23286847 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
23286796 ATATATATTT
23286806 AAAAA-TTATAT-
1 AAAAATTTATATA
*
23286817 AAAAATTTTTATCA
1 AAAAATTTATAT-A
23286831 AAAAATTTATATA
1 AAAAATTTATATA
23286844 AAAA
1 AAAA
23286848 TTGATATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 5 0.19
14 11 0.42
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAATTTATATA
Found at i:23286854 original size:12 final size:12
Alignment explanation
Indices: 23286805--23286854 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
23286795 TATATATATT
23286805 TAAAAA-TTATA
1 TAAAAATTTATA
*
23286816 TAAAAATTTTTA
1 TAAAAATTTATA
23286828 TCAAAAAATTTATA
1 T--AAAAATTTATA
*
23286842 TAAAAATTGATA
1 TAAAAATTTATA
23286854 T
1 T
23286855 GAGGGGTCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 6 0.18
12 16 0.48
14 11 0.33
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (12 bp):
TAAAAATTTATA
Found at i:23291129 original size:18 final size:18
Alignment explanation
Indices: 23291106--23291141 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23291096 TTCCTTATCC
23291106 AGTGACTTGAAATTTTAT
1 AGTGACTTGAAATTTTAT
23291124 AGTGACTTGAAATTTTAT
1 AGTGACTTGAAATTTTAT
23291142 TCTTTCTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (18 bp):
AGTGACTTGAAATTTTAT
Found at i:23297160 original size:11 final size:12
Alignment explanation
Indices: 23297142--23297175 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
23297132 CTAATATTCT
23297142 CTCAAATTCCTA
1 CTCAAATTCCTA
23297154 C-CAAATTCCT-
1 CTCAAATTCCTA
23297164 CTCAAATTCCTA
1 CTCAAATTCCTA
23297176 TTTAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (12 bp):
CTCAAATTCCTA
Found at i:23298358 original size:7 final size:7
Alignment explanation
Indices: 23298346--23298371 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23298336 TAGTCGATTG
23298346 GTATTTA
1 GTATTTA
23298353 GTATTTA
1 GTATTTA
23298360 GTATTTA
1 GTATTTA
23298367 GTATT
1 GTATT
23298372 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:23298377 original size:7 final size:7
Alignment explanation
Indices: 23298367--23298391 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23298357 TTAGTATTTA
23298367 GTATTAT
1 GTATTAT
23298374 GTATTAT
1 GTATTAT
23298381 GTATTAT
1 GTATTAT
23298388 GTAT
1 GTAT
23298392 ATAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:23298377 original size:14 final size:14
Alignment explanation
Indices: 23298346--23298391 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
23298336 TAGTCGATTG
23298346 GTATTTAGTATT-T
1 GTATTTAGTATTAT
23298359 AGTATTTAGTATTAT
1 -GTATTTAGTATTAT
23298374 GTA-TTATGTATTAT
1 GTATTTA-GTATTAT
23298388 GTAT
1 GTAT
23298392 ATAACTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.10
14 25 0.86
15 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (14 bp):
GTATTTAGTATTAT
Found at i:23299055 original size:18 final size:18
Alignment explanation
Indices: 23299032--23299074 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
23299022 TGCCAAGTGC
*
23299032 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
23299050 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
23299068 GTTTCCT
1 GTATCCT
23299075 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:23300160 original size:125 final size:125
Alignment explanation
Indices: 23299938--23300220 Score: 476
Period size: 125 Copynumber: 2.3 Consensus size: 125
23299928 TGGTTTGCGA
* *
23299938 CGTCCACGTGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCTGTTTAAAGCGTTTTTGAC
1 CGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTGAC
* * *
23300003 ACCATTGGCTCAGAAACATCTACTCGAAATTATTTTTTAGGAGCTACTGTAGTAAAAGCG
66 ACCATTGGCTCAGAAACATCTACTCGAAATTATTTTTCAGGAGCTACTGTAGCAAAAACG
*
23300063 CGTCCACATGAGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTGAC
1 CGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTGAC
* * *
23300128 ACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTCAGGAGCTACTGTAGCAAAAACG
66 ACCATTGGCTCAGAAACATCTACTCGAAATTATTTTTCAGGAGCTACTGTAGCAAAAACG
*
23300188 CGTCCACATGGGAGCTTCTTTTAGTACTATTGC
1 CGTCCACATGGGAGCTTCTTTCAGTACTATTGC
23300221 CACTACACCA
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 147 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (125 bp):
CGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTGAC
ACCATTGGCTCAGAAACATCTACTCGAAATTATTTTTCAGGAGCTACTGTAGCAAAAACG
Found at i:23300459 original size:41 final size:41
Alignment explanation
Indices: 23300399--23300664 Score: 268
Period size: 41 Copynumber: 6.5 Consensus size: 41
23300389 TGACTTTTTT
23300399 TGGGCTTTAGCGGCGTTTTTATGGAAGCGCCGCTAATGTTC
1 TGGGCTTTAGCGGCGTTTTTATGGAAGCGCCGCTAATGTTC
* * *
23300440 TGGGCTTTAGCGGCATTTTTATGTAAGCACCGCTAATGTTC
1 TGGGCTTTAGCGGCGTTTTTATGGAAGCGCCGCTAATGTTC
* * *** * * *
23300481 TGGCCTTTAGCAGTAATTTTATGTAAGCGCCGCTAACGTTT
1 TGGGCTTTAGCGGCGTTTTTATGGAAGCGCCGCTAATGTTC
* *
23300522 TGGGCTTTACCGGCGTTTTTATGTAAGCGCCGCTAATGTTC
1 TGGGCTTTAGCGGCGTTTTTATGGAAGCGCCGCTAATGTTC
* * * *
23300563 TGGGCTTTAGAGGC-TTTTTATTGATA-CGCCACTAATATTC
1 TGGGCTTTAGCGGCGTTTTTATGGA-AGCGCCGCTAATGTTC
* * * * *
23300603 TGGGATTTAGTGACGTTTTTATGGATGCGCTGCTAAT-TCTC
1 TGGGCTTTAGCGGCGTTTTTATGGAAGCGCCGCTAATGT-TC
* * *
23300644 AGGCCTTTAGCGGCTTTTTTA
1 TGGGCTTTAGCGGCGTTTTTA
23300665 AAAAACGCCG
Statistics
Matches: 184, Mismatches: 37, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
40 32 0.17
41 152 0.83
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (41 bp):
TGGGCTTTAGCGGCGTTTTTATGGAAGCGCCGCTAATGTTC
Found at i:23300678 original size:40 final size:40
Alignment explanation
Indices: 23300634--23300715 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
23300624 TGGATGCGCT
* *
23300634 GCTAATTCTCAGGCCTTTAGCGGC-TTTTTTAAAAAACGCC
1 GCTAATGCTC-GGCATTTAGCGGCATTTTTTAAAAAACGCC
** * *
23300674 GCTAATGCTCTTCATTTAGTGGCATTTTTTAAAAAGCGCC
1 GCTAATGCTCGGCATTTAGCGGCATTTTTTAAAAAACGCC
23300714 GC
1 GC
23300716 AAAAACATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 9 0.26
40 26 0.74
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (40 bp):
GCTAATGCTCGGCATTTAGCGGCATTTTTTAAAAAACGCC
Found at i:23302197 original size:6 final size:6
Alignment explanation
Indices: 23302186--23302210 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23302176 GGATGAATCT
23302186 AGTTTA AGTTTA AGTTTA AGTTTA A
1 AGTTTA AGTTTA AGTTTA AGTTTA A
23302211 AATGAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
AGTTTA
Found at i:23304799 original size:21 final size:21
Alignment explanation
Indices: 23304774--23304813 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23304764 AGTAGATGCA
23304774 GCAGCGAGAGAAACAGAGGCT
1 GCAGCGAGAGAAACAGAGGCT
*
23304795 GCAGCGAGAGAAGCAGAGG
1 GCAGCGAGAGAAACAGAGG
23304814 TTCAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.42, T:0.03
Consensus pattern (21 bp):
GCAGCGAGAGAAACAGAGGCT
Found at i:23304859 original size:87 final size:87
Alignment explanation
Indices: 23304723--23304899 Score: 275
Period size: 87 Copynumber: 2.0 Consensus size: 87
23304713 GACCACAGTT
* * *
23304723 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGTAGATGCAGCAGCGAGAGAAAC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGTAGATGCAGCAGCCAGAGAAAC
*
23304788 AGAGGCTGCAGCGAGAGAAGCA
66 AGAGGCTACAGCGAGAGAAGCA
* * *
23304810 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCT-GATGCGGCATCCAGAGAAG
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAG-TAGATGCAGCAGCCAGAGAAA
23304874 CAGAGGCTACAGCGAGAGAAGCA
65 CAGAGGCTACAGCGAGAGAAGCA
23304897 GAG
1 GAG
23304900 CAGAGTAGAA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 81 0.99
88 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.28, T:0.12
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGTAGATGCAGCAGCCAGAGAAAC
AGAGGCTACAGCGAGAGAAGCA
Found at i:23305349 original size:43 final size:43
Alignment explanation
Indices: 23305225--23305453 Score: 326
Period size: 43 Copynumber: 5.5 Consensus size: 43
23305215 ACCAAACAAA
**
23305225 TAGCGGCGTTTGTG-AAAAATTGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
* *
23305267 TAGCGGCGTTTGTGTAAAAA---ACGCTAAAGAACATGAGCTT
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
* *
23305307 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAATATGAGCTT
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
*
23305350 TAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
* **
23305393 TAGCGGCGTTTGTGGAAGTAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
23305436 TAGCGGCGTTT-T-TAAAAA
1 TAGCGGCGTTTGTGTAAAAA
23305454 TAAATGCCGC
Statistics
Matches: 169, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
40 38 0.22
41 3 0.02
42 15 0.09
43 113 0.67
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
Found at i:23306983 original size:26 final size:25
Alignment explanation
Indices: 23306952--23307012 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 25
23306942 CCCATTTTTT
* * *
23306952 AATAAACACCAAAAAATTATTTTAAA
1 AATAAAAAACAAAAAAATATTTT-AA
*
23306978 AATAAAAAAATAAAAAAATATTTTAA
1 AAT-AAAAAACAAAAAAATATTTTAA
23307004 AATAAAAAA
1 AATAAAAAA
23307013 ATTAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 6 0.20
26 8 0.27
27 16 0.53
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (25 bp):
AATAAAAAACAAAAAAATATTTTAA
Found at i:23306992 original size:7 final size:8
Alignment explanation
Indices: 23306975--23307022 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
23306965 AAATTATTTT
23306975 AAAAATAA
1 AAAAATAA
23306983 AAAAATAA
1 AAAAATAA
*
23306991 AAAAATATTT
1 AAAAATA--A
*
23307001 TAAAATAA
1 AAAAATAA
23307009 AAAAATTAA
1 AAAAA-TAA
23307018 AAAAA
1 AAAAA
23307023 AATATTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
8 19 0.58
9 8 0.24
10 6 0.18
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAA
Found at i:23307013 original size:26 final size:28
Alignment explanation
Indices: 23306962--23307022 Score: 99
Period size: 27 Copynumber: 2.2 Consensus size: 28
23306952 AATAAACACC
*
23306962 AAAAAATTATTTTAAAAATAAAAAAA-T
1 AAAAAAATATTTTAAAAATAAAAAAATT
23306989 AAAAAAATATTTT-AAAATAAAAAAATT
1 AAAAAAATATTTTAAAAATAAAAAAATT
23307016 AAAAAAA
1 AAAAAAA
23307023 AATATTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (28 bp):
AAAAAAATATTTTAAAAATAAAAAAATT
Found at i:23307030 original size:28 final size:27
Alignment explanation
Indices: 23306962--23307030 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
23306952 AATAAACACC
*
23306962 AAAAAATTATTTTAAAAATAAAAAAATAA
1 AAAAAAATA-TTT-AAAATAAAAAAATAA
*
23306991 AAAAATAT-TTTAAAATAAAAAAATTAA
1 AAAAAAATATTTAAAATAAAAAAA-TAA
23307018 AAAAAAATATTTA
1 AAAAAAATATTTA
23307031 TTATATATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 12 0.34
27 13 0.37
28 4 0.11
29 6 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAAAAATATTTAAAATAAAAAAATAA
Found at i:23307569 original size:13 final size:13
Alignment explanation
Indices: 23307551--23307577 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23307541 TTTACGAAAA
23307551 GTATTTTACAAGT
1 GTATTTTACAAGT
23307564 GTATTTTACAAGT
1 GTATTTTACAAGT
23307577 G
1 G
23307578 AGATATGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (13 bp):
GTATTTTACAAGT
Found at i:23309800 original size:19 final size:20
Alignment explanation
Indices: 23309769--23309837 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 20
23309759 GTTTTACAAC
*
23309769 TTTGTAATATTTTCAGTAAT
1 TTTGTAATTTTTTCAGTAAT
*
23309789 TTT-TAATTTTTTTAGTAAT
1 TTTGTAATTTTTTCAGTAAT
23309808 TTTGT-ATTATTTTCAGTAAT
1 TTTGTAATT-TTTTCAGTAAT
23309828 TATTG-AATTT
1 T-TTGTAATTT
23309838 CTTACAAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 20 0.48
20 16 0.38
21 6 0.14
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTGTAATTTTTTCAGTAAT
Found at i:23309802 original size:38 final size:37
Alignment explanation
Indices: 23309727--23309853 Score: 112
Period size: 38 Copynumber: 3.3 Consensus size: 37
23309717 TTACCGAATT
* * * *
23309727 CAACTTTGTAATGTTTT-AGTAAATTACTAAATGTTTTA
1 CAACTTTGTAATATTTTCAGT-AATT-TTTAATTTTTTA
23309765 CAACTTTGTAATATTTTCAGTAATTTTTAATTTTTTTA
1 CAACTTTGTAATATTTTCAGTAATTTTTAA-TTTTTTA
* * * * *
23309803 GTAATTTTGTATTATTTTCAGTAATTATTGAATTTCTTA
1 -CAACTTTGTAATATTTTCAGTAATT-TTTAATTTTTTA
*
23309842 CAAGTTTGTAAT
1 CAACTTTGTAAT
23309854 GGGGCAATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
37 3 0.04
38 35 0.48
39 31 0.42
40 4 0.05
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (37 bp):
CAACTTTGTAATATTTTCAGTAATTTTTAATTTTTTA
Found at i:23310189 original size:22 final size:22
Alignment explanation
Indices: 23310164--23310214 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
23310154 CTCTCGATTC
23310164 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
23310186 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
23310208 CTCTCAA
1 CTCTCAA
23310215 ATCTATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:23310235 original size:40 final size:40
Alignment explanation
Indices: 23310189--23310276 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
23310179 CAAAATTCTC
* *
23310189 TCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATT
1 TCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
*
23310229 TCAATTTCCTTCAAAAATTCTCTCAGATCCATATTTAATT
1 TCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
23310269 TCAATTTC
1 TCAATTTC
23310277 TTCTCAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.32, C:0.23, G:0.01, T:0.44
Consensus pattern (40 bp):
TCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
Found at i:23311445 original size:7 final size:7
Alignment explanation
Indices: 23311433--23311457 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23311423 ATTTGATTGA
23311433 TATTTAG
1 TATTTAG
23311440 TATTTAG
1 TATTTAG
23311447 TATTTAG
1 TATTTAG
23311454 TATT
1 TATT
23311458 ATGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:23313594 original size:80 final size:79
Alignment explanation
Indices: 23313510--23313681 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
23313500 GGACTAAGAT
*
23313510 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
23313574 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
23313590 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
23313655 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
23313669 CCGAAGGCATTTG
1 CCGAAGGCATTTG
23313682 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:23313661 original size:39 final size:39
Alignment explanation
Indices: 23313457--23313679 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
23313447 TTGAATGTTG
* * * * *
23313457 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
23313497 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
23313536 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
23313577 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
23313617 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
23313656 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23313680 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:23313699 original size:79 final size:80
Alignment explanation
Indices: 23313537--23313714 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
23313527 AGATACAAAT
* * * *
23313537 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
23313602 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
23313617 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
23313681 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
23313696 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
23313715 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:23315278 original size:18 final size:17
Alignment explanation
Indices: 23315248--23315290 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
23315238 GATGCAAGTG
*
23315248 TGTTCCTAGCCCTTATA
1 TGTTCCTAACCCTTATA
23315265 TGTTCCCTAACCCTTATA
1 TGTT-CCTAACCCTTATA
23315283 TGTATCCT
1 TGT-TCCT
23315291 TTTCCGAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 18 0.78
19 1 0.04
ACGTcount: A:0.19, C:0.30, G:0.09, T:0.42
Consensus pattern (17 bp):
TGTTCCTAACCCTTATA
Found at i:23315727 original size:43 final size:44
Alignment explanation
Indices: 23315675--23315773 Score: 137
Period size: 44 Copynumber: 2.2 Consensus size: 44
23315665 TTATTTGTAC
* * *
23315675 AAATATTTTGAA-TATTTTGATATTATTTTATGTAAAAAAATAG
1 AAATTTTTTGAATTATTTTGATATTATTTGATGTAAAAAAACAG
*
23315718 AAATTTTTTGAATTATTTTGATATTATTTGATGTAATAAAACAG
1 AAATTTTTTGAATTATTTTGATATTATTTGATGTAAAAAAACAG
*
23315762 AAGTTTATTTGA
1 AAATTT-TTTGA
23315774 TGTAATAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
43 11 0.22
44 33 0.67
45 5 0.10
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.47
Consensus pattern (44 bp):
AAATTTTTTGAATTATTTTGATATTATTTGATGTAAAAAAACAG
Found at i:23315861 original size:23 final size:23
Alignment explanation
Indices: 23315834--23316379 Score: 498
Period size: 23 Copynumber: 22.6 Consensus size: 23
23315824 TTAAAAATCC
*
23315834 AAAACCATAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* *
23315857 AAAACCTTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
23315880 AAAACCATAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
* * *
23315903 AAAACCCTAAACCCTTAATTAAAAATC
1 AAAACCCT-AA-CC-TAATT-TAATTA
** *
23315930 CTAACCCTAACCTAATTCAATT-
1 AAAACCCTAACCTAATTTAATTA
*
23315952 AAAACCCTAAACC---CTTAACTTA
1 AAAACCCT-AACCTAATTTAA-TTA
23315974 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
23315997 AAAACCTAGCCTAACCTAATTTAATTA
1 AAAA-C---CCTAACCTAATTTAATTA
* *
23316024 AAAACCCTAGCCTAATTTAATTT
1 AAAACCCTAACCTAATTTAATTA
*
23316047 AAAATCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
23316070 AAAACCCTTTAAAAACCCTAACCTAATTTAATTA
1 AAAACCC--T---AA-CCT-A----ATTTAATTA
*
23316104 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
23316127 AAAAACCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
23316150 AAAATCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
23316173 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
23316196 AAAACCCTAACCCTAACCTAATTCAATTA
1 AAAACCCTAA-CCTAA--T--TT-AATTA
* **
23316225 AAAACCCTAA-AT-CCTTAACTTA
1 AAAACCCTAACCTAATTTAA-TTA
23316247 AAAACCCTAACCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
23316270 AAAACCCTAGCCTAACCTAATTTAATTA
1 AAAA--C---CCTAACCTAATTTAATTA
*
23316298 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
*
23316321 AAAACCCTAGCCTAATTTAATTA
1 AAAACCCTAACCTAATTTAATTA
23316344 AAAACCCTAAACCCTTAA-TT--TTA
1 AAAACCCT-AA-CC-TAATTTAATTA
23316367 AAAACCCTAACCT
1 AAAACCCTAACCT
23316380 TAACGTAATG
Statistics
Matches: 443, Mismatches: 38, Indels: 87
0.78 0.07 0.15
Matches are distributed among these distances:
20 4 0.01
21 10 0.02
22 31 0.07
23 254 0.57
24 22 0.05
25 10 0.02
26 13 0.03
27 33 0.07
28 29 0.07
29 19 0.04
30 1 0.00
32 1 0.00
34 16 0.04
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.29
Consensus pattern (23 bp):
AAAACCCTAACCTAATTTAATTA
Found at i:23315922 original size:21 final size:20
Alignment explanation
Indices: 23315873--23315985 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 20
23315863 TTAGCCTAAT
* *
23315873 TTAATTAAAAACCATAACCTAAT
1 TTAATTAAAAACCCTAACC---C
23315896 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
*
23315917 TTAATTAAAAATCCTAACCC
1 TTAATTAAAAACCCTAACCC
23315937 TAACCTAATTCAATTAAAACCCTAAACCC
1 T----TAATT--A--AAAACCCT-AACCC
23315966 TTAACTTAAAAACCCTAACC
1 TTAA-TTAAAAACCCTAACC
23315986 TAATTTAATT
Statistics
Matches: 75, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
20 6 0.08
21 18 0.24
22 8 0.11
23 14 0.19
24 10 0.13
25 3 0.04
26 3 0.04
28 7 0.09
29 6 0.08
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (20 bp):
TTAATTAAAAACCCTAACCC
Found at i:23315960 original size:49 final size:51
Alignment explanation
Indices: 23315882--23315985 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 51
23315872 TTTAATTAAA
* *
23315882 AACCATAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAATCCT
1 AACCATAACCTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
*
23315932 AACCCTAACCTAATTCAATT-AAAACCCTAAACCCTTAACTTAAAAACCCT
1 AACCATAACCTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
23315982 AACC
1 AACC
23315986 TAATTTAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
49 18 0.36
50 32 0.64
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (51 bp):
AACCATAACCTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
Found at i:23316092 original size:34 final size:34
Alignment explanation
Indices: 23316047--23316111 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
23316037 AATTTAATTT
*
23316047 AAAATCCTAACCTAATTTAATTAAAAACCCTTTA
1 AAAACCCTAACCTAATTTAATTAAAAACCCTTTA
23316081 AAAACCCTAACCTAATTTAATTAAAAACCCT
1 AAAACCCTAACCTAATTTAATTAAAAACCCT
23316112 AGCCTAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (34 bp):
AAAACCCTAACCTAATTTAATTAAAAACCCTTTA
Found at i:23316370 original size:171 final size:165
Alignment explanation
Indices: 23316078--23316388 Score: 464
Period size: 171 Copynumber: 1.8 Consensus size: 165
23316068 TAAAAACCCT
23316078 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAAACCTAACCTAAT
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAAACCTAACCTAAT
* *
23316143 TTAATTAAAAATCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAACC
66 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTACCCTAATTT-ATTAAAAACCCTAACC
23316208 CTAACCTAATTCAATTAAAAACCCTAAATCCTTAAC
130 CTAACCTAATTCAATTAAAAACCCTAAATCCTTAAC
* *
23316244 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACCCTAGC
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAG-----CCTAATTTAATTAAAAAACCTAAC
*
23316309 CTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTAA-TT-TTAAAAAC
61 CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT--ACCC-TAATTTATTAAAAAC
* *
23316372 CCTAACCTTAACGTAAT
123 CCTAACCCTAACCTAAT
23316389 GTTAGATTTG
Statistics
Matches: 130, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
166 36 0.28
171 86 0.66
173 5 0.04
174 3 0.02
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (165 bp):
TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAAACCTAACCTAAT
TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTACCCTAATTTATTAAAAACCCTAACCC
TAACCTAATTCAATTAAAAACCCTAAATCCTTAAC
Found at i:23316527 original size:116 final size:116
Alignment explanation
Indices: 23316385--23316602 Score: 382
Period size: 116 Copynumber: 1.9 Consensus size: 116
23316375 AACCTTAACG
* *
23316385 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
23316450 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* * * *
23316501 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAATAATTAATAATTGTATATGATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
23316566 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
23316603 CAATTTATCA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 96 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:23316619 original size:17 final size:18
Alignment explanation
Indices: 23316578--23316619 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
23316568 TTTACTAACC
* *
23316578 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
23316596 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
23316613 ATTAATA
1 ATTAATA
23316620 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:23319815 original size:124 final size:126
Alignment explanation
Indices: 23319632--23320009 Score: 532
Period size: 126 Copynumber: 3.0 Consensus size: 126
23319622 CCCAAACATT
*
23319632 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCGAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
23319697 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAA-AA-TATTTCTTAC-ATGAC
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTT-CTATGAC
* * * * * * *
23319756 CTACTGTAGCAAAAGTGC-ACTGACGAGGCCGCAATTTCACAAATGCTTCTCAAATAGCATCCCG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * *
23319820 CTAGAAGTGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCTGTGAC
65 CTAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCTATGAC
*
23319882 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
** **** *
23319947 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAACTCGA-AATTATTTCTTCTAGGAC
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCTATGAC
23320007 CTA
1 CTA
23320010 AAAACCCTTA
Statistics
Matches: 220, Mismatches: 29, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
123 1 0.00
124 95 0.43
125 22 0.10
126 101 0.46
127 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCTATGAC
Found at i:23320320 original size:12 final size:12
Alignment explanation
Indices: 23320285--23320324 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
23320275 TTGCCCGTTT
23320285 GTAATATTTTCA
1 GTAATATTTTCA
23320297 GT-A-A-TTTC-
1 GTAATATTTTCA
23320305 GTAATATTTTCA
1 GTAATATTTTCA
23320317 GTAATATT
1 GTAATATT
23320325 GAATTCTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
8 2 0.08
9 5 0.21
10 2 0.08
11 5 0.21
12 10 0.42
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (12 bp):
GTAATATTTTCA
Found at i:23320972 original size:38 final size:38
Alignment explanation
Indices: 23320919--23320996 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
23320909 CTAATATAAA
23320919 AATAAATTGACGTATTTATTTTTTAAACATGTATGATT
1 AATAAATTGACGTATTTATTTTTTAAACATGTATGATT
* *
23320957 AATAAATTGATGTATTTATTTTTTAAATATGTATGATT
1 AATAAATTGACGTATTTATTTTTTAAACATGTATGATT
23320995 AA
1 AA
23320997 ATCAAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (38 bp):
AATAAATTGACGTATTTATTTTTTAAACATGTATGATT
Found at i:23320988 original size:19 final size:19
Alignment explanation
Indices: 23320930--23320990 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
23320920 ATAAATTGAC
*
23320930 GTATTTATTTTTTAAACAT
1 GTATTTATTTTTTAAATAT
* **
23320949 GTA-TGA-TTAATAAATTGAT
1 GTATTTATTTTTTAAA-T-AT
23320968 GTATTTATTTTTTAAATAT
1 GTATTTATTTTTTAAATAT
23320987 GTAT
1 GTAT
23320991 GATTAAATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
17 6 0.19
18 2 0.06
19 14 0.45
20 3 0.10
21 6 0.19
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (19 bp):
GTATTTATTTTTTAAATAT
Found at i:23330269 original size:15 final size:15
Alignment explanation
Indices: 23330249--23330277 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23330239 AAATTTGTTG
23330249 AAGATGGCTCAATAA
1 AAGATGGCTCAATAA
23330264 AAGATGGCTCAATA
1 AAGATGGCTCAATA
23330278 TTCAGCCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (15 bp):
AAGATGGCTCAATAA
Found at i:23330731 original size:31 final size:31
Alignment explanation
Indices: 23330695--23330758 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
23330685 AAAATTTTTA
*
23330695 AAAATGTAA-AAAAGACTAAATTGAATGAAAT
1 AAAATG-AATAAAAGAATAAATTGAATGAAAT
**
23330726 AAAATGAATAAATTAATAAATTGAATGAAAT
1 AAAATGAATAAAAGAATAAATTGAATGAAAT
23330757 AA
1 AA
23330759 TTAATTTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.25
Consensus pattern (31 bp):
AAAATGAATAAAAGAATAAATTGAATGAAAT
Found at i:23330759 original size:17 final size:17
Alignment explanation
Indices: 23330711--23330764 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
23330701 TAAAAAAGAC
23330711 TAAATTGAATGAAAT-A
1 TAAATTGAATGAAATAA
23330727 -AAA-TGAAT-AAATTAA
1 TAAATTGAATGAAA-TAA
23330742 TAAATTGAATGAAATAA
1 TAAATTGAATGAAATAA
*
23330759 TTAATT
1 TAAATT
23330765 TAGATCAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
13 3 0.09
14 6 0.19
15 4 0.12
16 3 0.09
17 13 0.41
18 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.33
Consensus pattern (17 bp):
TAAATTGAATGAAATAA
Found at i:23336499 original size:47 final size:47
Alignment explanation
Indices: 23336448--23337005 Score: 911
Period size: 47 Copynumber: 11.7 Consensus size: 47
23336438 TTAGGATTCT
* *
23336448 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
23336495 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
23336542 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
23336589 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCTG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
23336638 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
23336685 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
23336734 ATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
23336783 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
23336830 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
23336877 ATCTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
23336924 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
23336971 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
23337006 TCCCAAAGGT
Statistics
Matches: 486, Mismatches: 20, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 344 0.71
49 141 0.29
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:23337180 original size:37 final size:37
Alignment explanation
Indices: 23337124--23337200 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
23337114 CCGAGCTCTA
* * *
23337124 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
23337161 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
23337198 AAG
1 AAG
23337201 GCTTCGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:23339775 original size:56 final size:55
Alignment explanation
Indices: 23339700--23339807 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 55
23339690 GTATCCATTG
* *
23339700 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGGATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATT-AATTTGTAA
* * *
23339756 GATGATGAATTATCGCTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
23339808 CAATCTATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
55 6 0.13
56 41 0.87
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTAA
Found at i:23342357 original size:34 final size:33
Alignment explanation
Indices: 23342287--23342353 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
23342277 TTATACTTAC
*
23342287 ATAACACTAAAATAGGTGCAACTTAACAAGTAA
1 ATAACACTAAAATAGGTGCAAATTAACAAGTAA
*
23342320 ATAACTCTAAAATA-GTAGCAAAATTAACAA-TAA
1 ATAACACTAAAATAGGT-GC-AAATTAACAAGTAA
23342353 A
1 A
23342354 ATAAGAGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 2 0.07
33 19 0.63
34 9 0.30
ACGTcount: A:0.55, C:0.13, G:0.09, T:0.22
Consensus pattern (33 bp):
ATAACACTAAAATAGGTGCAAATTAACAAGTAA
Found at i:23347064 original size:45 final size:45
Alignment explanation
Indices: 23347006--23347173 Score: 151
Period size: 45 Copynumber: 3.8 Consensus size: 45
23346996 ACTAGAAACG
** *
23347006 AGTAAGAAAATGACTGAAAGACGTTATGGCATCATGATTCTATCA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCATGACTCTATCA
* * * * *
23347051 AGTAATACCATGACTAAAAGACATTATGGCATCACGACTCTATCG
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCATGACTCTATCA
* * * * * *
23347096 AGTAAGACCATAACTGAAATA-GCTATGGCATCATGAATCAAACGA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCATGACTCTATC-A
** **
23347141 A-TAAGACCATGGTTGAAAGACACTATGGCATCA
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCA
23347174 AGATGAGAAT
Statistics
Matches: 97, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
44 31 0.32
45 66 0.68
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (45 bp):
AGTAAGACCATGACTGAAAGACGTTATGGCATCATGACTCTATCA
Found at i:23348101 original size:20 final size:20
Alignment explanation
Indices: 23348076--23348129 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
23348066 TATTTAAGCT
23348076 AAAGTAAGTAAATGCAATGA
1 AAAGTAAGTAAATGCAATGA
*
23348096 AAAGTAAGTAAATGCAATGG
1 AAAGTAAGTAAATGCAATGA
23348116 AAAGTAAGTAAATG
1 AAAGTAAGTAAATG
23348130 GAAGGGTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.54, C:0.04, G:0.22, T:0.20
Consensus pattern (20 bp):
AAAGTAAGTAAATGCAATGA
Found at i:23356082 original size:21 final size:21
Alignment explanation
Indices: 23356034--23356074 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23356024 ATGGCTGAAG
*
23356034 ACATGGCC-GTGTGGCTACTTC
1 ACAT-GCCTGTGTGACTACTTC
23356055 ACATGCCTGTGTGACTACTT
1 ACATGCCTGTGTGACTACTT
23356075 GGCATGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (21 bp):
ACATGCCTGTGTGACTACTTC
Found at i:23366087 original size:102 final size:102
Alignment explanation
Indices: 23365911--23366254 Score: 471
Period size: 102 Copynumber: 3.4 Consensus size: 102
23365901 TATCGATGAA
* * *
23365911 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTACTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAACGATGGTCAAATGTGTAGTAC
*
23365976 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
*
23366013 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAACGATGGTCAAATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAACGATGGTCAAATGTGTAGTAC
*
23366078 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
* * * **
23366115 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAAC-TTGATCATGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGAT-AAACGATGGTCAAATGTGTAGTA
* ** * * * *
23366178 CTATGTGAAGGCTATGACGTGAACC-ATAAAAC-TTGAT
65 CTAAGTGAAGGCTACAATGTGTACCGA-AAAGCTTTGGT
*
23366215 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
23366255 ATGATAAAAG
Statistics
Matches: 218, Mismatches: 21, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
100 42 0.19
101 39 0.18
102 137 0.63
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAACGATGGTCAAATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
Found at i:23366181 original size:50 final size:50
Alignment explanation
Indices: 23365911--23366248 Score: 378
Period size: 51 Copynumber: 6.7 Consensus size: 50
23365901 TATCGATGAA
* *
23365911 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA-TGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAACT-TTGGT
* * * * * * *
23365962 CACATGTGTACTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAACTTTGGT
* * **
23366013 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAACGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAACTTTGGT
** * * *
23366064 CAAATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAA-CTTTGGT
*
23366115 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAC-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAACTTTGGT
* * *
23366165 CATGTGTGTAGTACTATGTGAAGGCTA-TGACGTGAACCATAAAAC-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACT-ACGTGAACC-GAAAACTTTGGT
23366215 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
23366249 TATCGAATGA
Statistics
Matches: 241, Mismatches: 40, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.00
50 83 0.34
51 152 0.63
52 5 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAACTTTGGT
Found at i:23372139 original size:16 final size:15
Alignment explanation
Indices: 23372115--23372144 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23372105 TATTGAAAAA
23372115 AACATTTATATTAAT
1 AACATTTATATTAAT
23372130 AACATGTTATATTAA
1 AACAT-TTATATTAA
23372145 CTTACATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (15 bp):
AACATTTATATTAAT
Found at i:23373252 original size:37 final size:37
Alignment explanation
Indices: 23373202--23373276 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
23373192 ATGTTGAGAT
23373202 TGATGAATCTTTGTGATTTTAGATGTTAAATGATGAA
1 TGATGAATCTTTGTGATTTTAGATGTTAAATGATGAA
23373239 TGATGAATCTTTGTGATTTTAGATGTTAAATGATGAA
1 TGATGAATCTTTGTGATTTTAGATGTTAAATGATGAA
23373276 T
1 T
23373277 TCAAGTGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (37 bp):
TGATGAATCTTTGTGATTTTAGATGTTAAATGATGAA
Found at i:23373795 original size:35 final size:35
Alignment explanation
Indices: 23373750--23373852 Score: 154
Period size: 35 Copynumber: 2.9 Consensus size: 35
23373740 TACTCTCTGT
* *
23373750 TTGGTGTGTTTCAGTTGGACTAGCTCTTAT-ACGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGA-GCA
23373785 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
23373820 TTGGCGTGTTACGGTTGGACTAGCTCTTGTGAG
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAG
23373853 AATTTGATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 62 0.98
36 1 0.02
ACGTcount: A:0.15, C:0.17, G:0.31, T:0.38
Consensus pattern (35 bp):
TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
Found at i:23375996 original size:21 final size:21
Alignment explanation
Indices: 23375963--23376003 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23375953 TAATTAACTT
*
23375963 ATTTCTTGATTTTTAAATTTA
1 ATTTATTGATTTTTAAATTTA
*
23375984 ATTTATTGGTTTTTAAATTT
1 ATTTATTGATTTTTAAATTT
23376004 TTATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (21 bp):
ATTTATTGATTTTTAAATTTA
Found at i:23377704 original size:55 final size:56
Alignment explanation
Indices: 23377598--23377745 Score: 192
Period size: 55 Copynumber: 2.6 Consensus size: 56
23377588 GTCATCCCAT
* *
23377598 TTTCTATAATTAATTTTGATTTTTTAAAATTAATTTTATTTAAAACTGTAATTAACTTG
1 TTTCTTTAATTAATTTTGATTTTTTAAAA-TAA--TTATTTAAAACTGTAATTAACTTA
* * *
23377657 TTTCTTTAATTAATTTTGATTTTTTAAAATAA-TATTTTAAATTGTAATTAATTTA
1 TTTCTTTAATTAATTTTGATTTTTTAAAATAATTATTTAAAACTGTAATTAACTTA
*
23377712 TTTCTTTAATTAATTTTGA-ATTTTAAAATTAATT
1 TTTCTTTAATTAATTTTGATTTTTTAAAA-TAATT
23377746 TCATTTTAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
54 8 0.10
55 41 0.51
56 1 0.01
58 3 0.04
59 28 0.35
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (56 bp):
TTTCTTTAATTAATTTTGATTTTTTAAAATAATTATTTAAAACTGTAATTAACTTA
Found at i:23377709 original size:59 final size:55
Alignment explanation
Indices: 23377598--23377746 Score: 151
Period size: 59 Copynumber: 2.7 Consensus size: 55
23377588 GTCATCCCAT
* * * *
23377598 TTTCTATAATTAATTTTGATTTTTTAAAATTAATTTTATTTAAAACTGTAATTAACTTG
1 TTTCTTTAATTAATTTTGATTTTTTAAAATAAATTTTAATTAAAACTGTAA-T---TTA
**
23377657 TTTCTTTAATTAATTTTGATTTTTTAAAATAATATTTTAAATTGTAA-T-TAATTTA
1 TTTCTTTAATTAATTTTGATTTTTTAAAATAA-ATTTT-AATTAAAACTGTAATTTA
* *
23377712 TTTCTTTAATTAATTTTGA-ATTTTAAAATTAATTT
1 TTTCTTTAATTAATTTTGATTTTTTAAAATAAATTT
23377747 CATTTTAATT
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
53 4 0.05
54 10 0.12
55 21 0.26
58 1 0.01
59 33 0.41
60 6 0.08
61 5 0.06
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (55 bp):
TTTCTTTAATTAATTTTGATTTTTTAAAATAAATTTTAATTAAAACTGTAATTTA
Found at i:23379208 original size:31 final size:29
Alignment explanation
Indices: 23379173--23379239 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
23379163 AGTGATCACT
23379173 ACGTAACAAAATAATAACATAAGTGACTAAA
1 ACGTAAC-AAATAA-AACATAAGTGACTAAA
** *
23379204 ACGTAACATTTCAAACATAAGTGACTAAA
1 ACGTAACAAATAAAACATAAGTGACTAAA
*
23379233 ATGTAAC
1 ACGTAAC
23379240 CTGAAACAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 22 0.69
30 3 0.09
31 7 0.22
ACGTcount: A:0.52, C:0.15, G:0.10, T:0.22
Consensus pattern (29 bp):
ACGTAACAAATAAAACATAAGTGACTAAA
Found at i:23379308 original size:18 final size:18
Alignment explanation
Indices: 23379285--23379358 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 18
23379275 CCCTTTAATT
23379285 TATTTAATTTTACAACAA
1 TATTTAATTTTACAACAA
*
23379303 TATTTAATTTTA-AA-AT
1 TATTTAATTTTACAACAA
** *
23379319 TAAAT-ATTTTACAACCA
1 TATTTAATTTTACAACAA
* * *
23379336 TAATTAATTATACAACCA
1 TATTTAATTTTACAACAA
23379354 TATTT
1 TATTT
23379359 TAAAATTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
15 6 0.13
16 6 0.13
17 6 0.13
18 27 0.60
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTTAATTTTACAACAA
Found at i:23383434 original size:33 final size:33
Alignment explanation
Indices: 23383398--23383478 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
23383388 AAAAGTTAAA
**
23383398 AAAAATATTTTTCAA-ATGACTACAAATTTTGT
1 AAAAATATTTTAAAAGATGACTACAAATTTTGT
23383430 AAAAATATTTTAAAAGATGACTACAAATTTT-T
1 AAAAATATTTTAAAAGATGACTACAAATTTTGT
*
23383462 GAATCAATATTTTAAAA
1 -AA-AAATATTTTAAAA
23383479 AATATAGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 14 0.33
33 17 0.40
34 12 0.28
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.38
Consensus pattern (33 bp):
AAAAATATTTTAAAAGATGACTACAAATTTTGT
Done.