Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 172 of 316
Found at i:55125384 original size:46 final size:46
Alignment explanation
Indices: 55125212--55125384 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
55125202 AACCCGCCCC
* * * *
55125212 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
55125258 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
55125306 TCA-CGAACTCGTACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
55125351 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55125385 TGCTCGACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:55129684 original size:39 final size:39
Alignment explanation
Indices: 55129640--55129915 Score: 480
Period size: 39 Copynumber: 7.1 Consensus size: 39
55129630 ATTATATTAT
* *
55129640 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
55129679 CAGCACGAAGCCTACGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
55129718 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55129757 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
55129796 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55129835 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55129874 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55129913 CAG
1 CAG
55129916 TGTCTTGCAT
Statistics
Matches: 225, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 225 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:55137985 original size:43 final size:45
Alignment explanation
Indices: 55137870--55137986 Score: 152
Period size: 45 Copynumber: 2.6 Consensus size: 45
55137860 TATCGTACAG
* ** *
55137870 TACTATTCAGGCCTTTGAGCCTAGCAATCTATAATGCCGGTGAGA
1 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
55137915 TACTATTC-GGCCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCAGG-CCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
55137960 TGA-TA-TCAGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCAGGCCTTCGAGCCTAGCAGGC
55137987 GAAATTCTGG
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
43 17 0.26
44 4 0.06
45 43 0.66
46 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (45 bp):
TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:55145679 original size:45 final size:45
Alignment explanation
Indices: 55145613--55145700 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
55145603 TATCGTACAG
**
55145613 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCAAGCCTAGCAAGCTATAATGCCGGTGAGA
*
55145658 TACTATTCGGGCCTTCAAGCCTAGCAGGCTATAATGCCGGTGA
1 TACTATTCGGGCCTTCAAGCCTAGCAAGCTATAATGCCGGTGA
55145701 AATGATATCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTCAAGCCTAGCAAGCTATAATGCCGGTGAGA
Found at i:55155958 original size:26 final size:26
Alignment explanation
Indices: 55155911--55155964 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
55155901 ATACGGGTAA
*
55155911 ATAATAAAGAAATAATAAAAATATGT
1 ATAATAAAGAAATAATAAAAATAAGT
55155937 ATAATAATA-AAA-AATAAGAAATAAGT
1 ATAATAA-AGAAATAATAA-AAATAAGT
55155963 AT
1 AT
55155965 GTTCTGTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 19 0.76
27 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (26 bp):
ATAATAAAGAAATAATAAAAATAAGT
Found at i:55158563 original size:15 final size:15
Alignment explanation
Indices: 55158543--55158571 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55158533 GGATGTTATC
55158543 ATTATTATTATTTTT
1 ATTATTATTATTTTT
55158558 ATTATTATTATTTT
1 ATTATTATTATTTT
55158572 GTATGTTTAG
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:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTATTATTATTTTT
Found at i:55160362 original size:79 final size:81
Alignment explanation
Indices: 55160194--55160378 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
55160184 GCTACTCGTT
* *
55160194 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* **
55160258 GATTTAGTAACTCGCAC
65 GATATAGTAACTAACAC
* * **
55160275 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
55160337 GATATGGTCACTTAACA-
65 GATATAGTAAC-TAACAC
55160354 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
55160379 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAACAC
Found at i:55160378 original size:40 final size:40
Alignment explanation
Indices: 55160175--55160378 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
55160165 CGGAATTTAA
** *
55160175 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55160215 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55160255 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55160294 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * **
55160334 CCGGATATGGTCACTTAACACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55160374 CCGGA
1 CCGGA
55160379 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55167591 original size:25 final size:25
Alignment explanation
Indices: 55167563--55167613 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
55167553 TTTAATTTTG
55167563 AATTATACGGGCTTACTAAGCTATA
1 AATTATACGGGCTTACTAAGCTATA
*
55167588 AATTATATGGGCTTACTAAGCTATA
1 AATTATACGGGCTTACTAAGCTATA
55167613 A
1 A
55167614 GCTTACTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (25 bp):
AATTATACGGGCTTACTAAGCTATA
Found at i:55175290 original size:42 final size:43
Alignment explanation
Indices: 55175226--55175356 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 43
55175216 GGAATGTGAA
*
55175226 CATCGAT-CTGAGATGT-CGTGTAAGACCATGTCTAGGACATCGG
1 CATCGATACTGA-AT-TACGTGTAAGACCATGTCTGGGACATCGG
** * **
55175269 CATCG-TATCTG-ATTTTGTGTAAGACCCTGTCTGGGACAGAGG
1 CATCGATA-CTGAATTACGTGTAAGACCATGTCTGGGACATCGG
*
55175311 CATCGATACTGAATTACATGTAAGACCATGTCTGGGACATCGG
1 CATCGATACTGAATTACGTGTAAGACCATGTCTGGGACATCGG
55175354 CAT
1 CAT
55175357 TGTACCCGTT
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 33 0.46
43 35 0.49
44 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
CATCGATACTGAATTACGTGTAAGACCATGTCTGGGACATCGG
Found at i:55175356 original size:43 final size:42
Alignment explanation
Indices: 55175244--55175356 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
55175234 TGAGATGTCG
* ***
55175244 TGTAAGACCATGTCTAGGACATCGGCATCGTATCTGATTTTG
1 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTACA
* **
55175286 TGTAAGACCCTGTCTGGGACAGAGGCATCG-ATACTGAATTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCGTAT-CTG-ATTACA
55175329 TGTAAGACCATGTCTGGGACATCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
55175357 TGTACCCGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.03
42 29 0.49
43 28 0.47
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTACA
Found at i:55177044 original size:29 final size:27
Alignment explanation
Indices: 55177002--55177108 Score: 99
Period size: 29 Copynumber: 3.8 Consensus size: 27
55176992 ATAATATGAT
55177002 TTGGGCCTAATGGGCCATATGAAGGTAAA
1 TTGGGCCTAATGGGCCATATGAA--TAAA
* * *
55177031 TTGGGCCTAGTGGGCCATAAGAATCTGAA
1 TTGGGCCTAATGGGCCATATGAA--TAAA
* *
55177060 CTGGGCC-AGATGGGCCATTTGAATAAGA
1 TTGGGCCTA-ATGGGCCATATGAATAA-A
*
55177088 TTGGGCCTAATGGGCTATATG
1 TTGGGCCTAATGGGCCATATG
55177109 CATCTATGTA
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
27 2 0.03
28 18 0.29
29 42 0.68
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (27 bp):
TTGGGCCTAATGGGCCATATGAATAAA
Found at i:55187395 original size:29 final size:29
Alignment explanation
Indices: 55187353--55187410 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
55187343 TAGTACTACA
55187353 CACGTGACCTAACTATCTGATACACGTAG
1 CACGTGACCTAACTATCTGATACACGTAG
55187382 CACGTGACCTAACTATCTGATACACGTAG
1 CACGTGACCTAACTATCTGATACACGTAG
55187411 TAGCCTGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (29 bp):
CACGTGACCTAACTATCTGATACACGTAG
Found at i:55188271 original size:30 final size:30
Alignment explanation
Indices: 55188235--55188293 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
55188225 TCCTTAACTC
55188235 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * *
55188265 AAACTTTTGCATATTTACACTTTTGCCCC
1 AAACTTTGGAAAATTTACAATTTTGCCCC
55188294 AAGGCTCAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:55191558 original size:27 final size:26
Alignment explanation
Indices: 55191527--55191704 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
55191517 TAAATTGTAC
*
55191527 AGCACTAAGGGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
55191554 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
55191580 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
55191608 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
55191636 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
55191663 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
55191690 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55191705 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:55191642 original size:82 final size:81
Alignment explanation
Indices: 55191528--55191683 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
55191518 AAATTGTACA
* *
55191528 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
55191592 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
55191609 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55191674 TGCGAGTTGA
65 TGCGAATTGA
55191684 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55191695 original size:82 final size:81
Alignment explanation
Indices: 55191524--55191704 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
55191514 GATTAAATTG
* * *
55191524 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55191589 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
55191605 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55191669 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55191687 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55191705 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55191715 original size:27 final size:27
Alignment explanation
Indices: 55191609--55191715 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
55191599 TGACCATGCG
* * * *
55191609 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
55191637 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
55191664 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
55191691 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
55191716 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:55207599 original size:27 final size:27
Alignment explanation
Indices: 55207580--55207871 Score: 440
Period size: 27 Copynumber: 10.8 Consensus size: 27
55207570 ATTACCAAAG
55207580 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
55207607 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
55207634 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
55207661 TACCATCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
55207688 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
55207715 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
55207742 TACCCTCGACTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
55207769 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
55207796 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
55207823 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
55207850 TACTCTCGATTTATAAAATTAC
1 TACCCTCGATTTACAGAATTAC
55207872 TGAAATACCC
Statistics
Matches: 241, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 241 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:55207889 original size:27 final size:27
Alignment explanation
Indices: 55207859--55208015 Score: 181
Period size: 27 Copynumber: 5.8 Consensus size: 27
55207849 TTACTCTCGA
** * *
55207859 TTTATAAAATTACTGAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTAG
* *
55207886 TTTACAAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCCCTAG
**
55207912 ATCAATAAAATTACCAAAATACCCCTAG
1 -TTTATAAAATTACCAAAATACCCCTAG
* *
55207940 TTTGTAAAATTACTAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCCTAG
*
55207967 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCCTAG
* *
55207994 TTTGTAAAATTACCAAATTACC
1 TTTATAAAATTACCAAAATACC
55208016 AATTTGCGAA
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.04
27 104 0.92
28 5 0.04
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTAG
Found at i:55207908 original size:81 final size:81
Alignment explanation
Indices: 55207566--55207913 Score: 408
Period size: 81 Copynumber: 4.3 Consensus size: 81
55207556 CCTCAAATTG
* *
55207566 TAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCG
1 TAAAATTACCAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCG
*
55207631 TTTTACCCTCGATTTA
66 TTTTACCCTTGATTTA
* * ** * *
55207647 CAGAATTACCATTTTACCATCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCG
1 TAAAATTACCAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCG
*
55207712 TTTTACCCTCGATTTA
66 TTTTACCCTTGATTTA
* ** * *
55207728 TAGAATTACCATTTTACCCTCGACTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCG
1 TAAAATTACCAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCG
55207793 TTTTACCCTTGATTTA
66 TTTTACCCTTGATTTA
* **** * * * * * *
55207809 TAGAATTACTGTTTTACCCTTGATTTACAGAATTACCATTTTACTCTCGATTTATAAAATTACTG
1 TAAAATTACCAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCG
*** *
55207874 AAATACCCTTGGTTTA
66 TTTTACCCTTGATTTA
* *
55207890 CAAAATTACCAAAATACCCTCGAT
1 TAAAATTACCAAATTACCCTCGAT
55207914 CAATAAAATT
Statistics
Matches: 233, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 233 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.38
Consensus pattern (81 bp):
TAAAATTACCAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCG
TTTTACCCTTGATTTA
Found at i:55208002 original size:81 final size:81
Alignment explanation
Indices: 55207863--55208015 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
55207853 TCTCGATTTA
* * * *
55207863 TAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCA
1 TAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTAGATCAATAAAATTACCA
55207928 AAATACCCCTAGTTTG
66 AAATACCCCTAGTTTG
** ***
55207944 TAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACC
1 TAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATA-CCCTAGATCAATAAAATTACC
*
55208008 AAATTACC
65 AAAATACC
55208016 AATTTGCGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 56 0.92
82 5 0.08
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (81 bp):
TAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTAGATCAATAAAATTACCA
AAATACCCCTAGTTTG
Found at i:55208095 original size:27 final size:27
Alignment explanation
Indices: 55208057--55208273 Score: 292
Period size: 27 Copynumber: 8.0 Consensus size: 27
55208047 TGTAAAATAT
*
55208057 CGAAATACCCCTGTAGGATAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
55208084 CGAAGTACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
55208111 TGAAATACCCCTGTATGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
55208138 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
55208165 TGAAATATCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
55208192 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
55208219 CGAAATACCCCTATAGGGTAGAACTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
55208246 CGAGAA-ACCCTTGTGGGGTAAAATTAC
1 CGA-AATACCCCTGTAGGGTAGAATTAC
55208273 C
1 C
55208274 ATTTTGCCCC
Statistics
Matches: 166, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 164 0.99
28 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:55208532 original size:23 final size:25
Alignment explanation
Indices: 55208476--55208543 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
55208466 AGGAAGTGCT
*
55208476 AAAAGGGCTATGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
55208501 AAAAGGGCTTTGCCCCAGTTTA-T-
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
55208524 CAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55208544 ATTAAAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 19 0.46
24 1 0.02
25 21 0.51
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTG
Found at i:55209667 original size:43 final size:43
Alignment explanation
Indices: 55209505--55209667 Score: 120
Period size: 43 Copynumber: 3.8 Consensus size: 43
55209495 CATAGGATTC
* * * * * *
55209505 CGATAGGTGA-TTTCATGTAAGACTACGTTTGAGACGTTGGCAT
1 CGATATGTGAGTTACATGTAAGACCACGTCTGGGAAG-TGGCAT
* * * *
55209548 CGATTTGTGATTTACATGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATGTGAGTTACATGTAAGACCACGTCTGGGA-AGTGGCAT
* ** *
55209592 C-ATATATGAGTT-TGTGTAAGACC-CTGTCTGGGATAGAGGCAT
1 CGATATGTGAGTTACATGTAAGACCAC-GTCTGGGA-AGTGGCAT
*
55209634 CGATATGTGA-TTACATGTAAGACCACGTTTGGGA
1 CGATATGTGAGTTACATGTAAGACCACGTCTGGGA
55209668 CATTAGCGTT
Statistics
Matches: 92, Mismatches: 22, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
42 26 0.28
43 39 0.42
44 27 0.29
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (43 bp):
CGATATGTGAGTTACATGTAAGACCACGTCTGGGAAGTGGCAT
Found at i:55210366 original size:13 final size:13
Alignment explanation
Indices: 55210348--55210377 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
55210338 TTGGGTAAGT
55210348 TTGATACATGTGG
1 TTGATACATGTGG
*
55210361 TTGATACATGTGT
1 TTGATACATGTGG
55210374 TTGA
1 TTGA
55210378 GATATGGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.43
Consensus pattern (13 bp):
TTGATACATGTGG
Found at i:55212427 original size:48 final size:48
Alignment explanation
Indices: 55212352--55212468 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 48
55212342 GTACCTATAC
* * * * * *
55212352 CATGGCTCGAAGCCAAATCAAGGTAACTTATATCCAAAGTACTGATAT
1 CATGGCCCGAAGCCAAATCAAGATAACTCACACCCAAAGTACTAATAT
* * *
55212400 CATGGCCCGAAGCCAAATC-AGTATAACTCGCACCCGAAGTGCTAATAT
1 CATGGCCCGAAGCCAAATCAAG-ATAACTCACACCCAAAGTACTAATAT
*
55212448 CATGGCCCGAAGCCAACTCAA
1 CATGGCCCGAAGCCAAATCAA
55212469 TGTATCCCCT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
47 2 0.04
48 54 0.95
49 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (48 bp):
CATGGCCCGAAGCCAAATCAAGATAACTCACACCCAAAGTACTAATAT
Found at i:55220471 original size:47 final size:47
Alignment explanation
Indices: 55220417--55220580 Score: 319
Period size: 47 Copynumber: 3.5 Consensus size: 47
55220407 TATTTGAATA
55220417 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
*
55220464 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
55220511 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
55220558 AATGTGAAAGTGTATATATGTGA
1 AATGTGAAAGTGTATATATGTGA
55220581 ATGTGAAAGT
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 115 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
Found at i:55220554 original size:69 final size:69
Alignment explanation
Indices: 55220509--55220649 Score: 219
Period size: 69 Copynumber: 2.0 Consensus size: 69
55220499 GCCGATGTGA
* * *
55220509 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAGGTGAAAGTGCAGA
55220574 TATG
66 TATG
* * * *
55220578 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAGGTGAAAGTGCAGA
55220643 TATG
66 TATG
55220647 TGA
1 TGA
55220650 TAAGGCCTAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (69 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAGGTGAAAGTGCAGA
TATG
Found at i:55220583 original size:22 final size:22
Alignment explanation
Indices: 55220556--55220602 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
55220546 GCCGATGTGA
55220556 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
55220578 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
55220600 TGA
1 TGA
55220603 TAAGGCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (22 bp):
TGAATGTGAAAGTGTATATATG
Found at i:55220630 original size:47 final size:47
Alignment explanation
Indices: 55220578--55220888 Score: 496
Period size: 47 Copynumber: 6.6 Consensus size: 47
55220568 TGTATATATG
55220578 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
*
55220625 CGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
*
55220672 CGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
*
55220719 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
* * *
55220766 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
* * * * * *
55220813 TGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
* *
55220860 TGGATGTGAAAGTGTATAAATGTGATAAG
1 TGAATGTGAAAGTGTATATATGTGATAAG
55220889 TCCCGAAGGG
Statistics
Matches: 253, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 253 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
Found at i:55220638 original size:116 final size:116
Alignment explanation
Indices: 55220462--55220696 Score: 443
Period size: 116 Copynumber: 2.0 Consensus size: 116
55220452 GCCGATGTGA
* *
55220462 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATA
*
55220527 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATG
66 TATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATATG
55220578 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATA
55220643 TATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATATG
66 TATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATATG
55220694 TGA
1 TGA
55220697 TAAGGCCTAA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (116 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATATG
Found at i:55220687 original size:163 final size:163
Alignment explanation
Indices: 55220417--55220743 Score: 627
Period size: 163 Copynumber: 2.0 Consensus size: 163
55220407 TATTTGAATA
*
55220417 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATA
* *
55220482 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
66 TGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
55220547 CCGATGTGATGAATGTGAAAGTGTATATATGTG
131 CCGATGTGATGAATGTGAAAGTGTATATATGTG
55220580 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATA
55220645 TGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
66 TGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
55220710 CCGATGTGATGAATGTGAAAGTGTATATATGTG
131 CCGATGTGATGAATGTGAAAGTGTATATATGTG
55220743 A
1 A
55220744 TAAGGCCTAA
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 161 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (163 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
CCGATGTGATGAATGTGAAAGTGTATATATGTG
Found at i:55225439 original size:34 final size:34
Alignment explanation
Indices: 55225386--55225454 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
55225376 CCTCTCAAAG
*
55225386 TCTGCAAAACAGTTATCAAGTGTTCAACATGCTC
1 TCTGCAAAACAGTTATCAAGTGTTCAACATACTC
* * *
55225420 TCTGCAAAATAGTTCTCAAGTGTTCAGCATACTC
1 TCTGCAAAACAGTTATCAAGTGTTCAACATACTC
55225454 T
1 T
55225455 GCCTTATCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (34 bp):
TCTGCAAAACAGTTATCAAGTGTTCAACATACTC
Found at i:55227386 original size:38 final size:38
Alignment explanation
Indices: 55227334--55227414 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
55227324 GACCCATCGA
*
55227334 GGCCTATAATGGCCTAAGTCTATGAAAACGCACGTGGT
1 GGCCTATAACGGCCTAAGTCTATGAAAACGCACGTGGT
* *
55227372 GGCCTATAACGGCCTAAGTTTATGAAAAGGCACGTGGT
1 GGCCTATAACGGCCTAAGTCTATGAAAACGCACGTGGT
55227410 GGCCT
1 GGCCT
55227415 CTTCAGCCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (38 bp):
GGCCTATAACGGCCTAAGTCTATGAAAACGCACGTGGT
Found at i:55235521 original size:27 final size:27
Alignment explanation
Indices: 55235485--55235580 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
55235475 GGGTTATAAA
* *
55235485 ATTATTGAAATACCCCTGTAGGGTAGG
1 ATTATCGAAATACCCCTATAGGGTAGG
* *
55235512 ATTATCGAAATACCCTTATAGAGTAGG
1 ATTATCGAAATACCCCTATAGGGTAGG
*
55235539 ATTATCGAAATACCCCTATATGGTAGG
1 ATTATCGAAATACCCCTATAGGGTAGG
* *
55235566 ATTACCAAAATACCC
1 ATTATCGAAATACCC
55235581 TTGTAGGCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (27 bp):
ATTATCGAAATACCCCTATAGGGTAGG
Found at i:55235643 original size:26 final size:26
Alignment explanation
Indices: 55235578--55235650 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
55235568 TACCAAAATA
* *
55235578 CCCTTGTAGGCTAAAATGACCATTTTG
1 CCCTTATAGG-TAAAATGACTATTTTG
* *
55235605 TCC-TAAAGAGTAAAATGACTATTTTG
1 CCCTTATAG-GTAAAATGACTATTTTG
55235631 CCCTTATAGGT-AAATGACTA
1 CCCTTATAGGTAAAATGACTA
55235651 ACTTGGGCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 9 0.24
26 22 0.58
27 7 0.18
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (26 bp):
CCCTTATAGGTAAAATGACTATTTTG
Found at i:55245958 original size:29 final size:29
Alignment explanation
Indices: 55245917--55245993 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
55245907 AAACATATTC
* * *
55245917 ATATGGCCCATTAGGCCCAAATCGCCTCT
1 ATATGGCCTATTAGGCCCAAATCACATCT
*
55245946 ATATGGCCTATTAGGCCCAAATCACATTT
1 ATATGGCCTATTAGGCCCAAATCACATCT
*
55245975 ATATGGCCTGTTAGGCCCA
1 ATATGGCCTATTAGGCCCA
55245994 GTAACATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (29 bp):
ATATGGCCTATTAGGCCCAAATCACATCT
Found at i:55248558 original size:51 final size:51
Alignment explanation
Indices: 55248479--55248614 Score: 177
Period size: 51 Copynumber: 2.7 Consensus size: 51
55248469 CCCGATGACT
* *
55248479 TGCACATAGTACCACCCTTGTAATCAAAGCTATCTTCTTTACA-A-AGTGGCC
1 TGCACATAGTACCACACTTGTGATCAAAGCTATC-T-TTTACACATAGTGGCC
* *
55248530 TTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATAGTGGCC
1 TGCACATAGTACCACACTTGTGATCAAAGCTATCTTTTACACATAGTGGCC
* * *
55248581 TGCACTTAGTACCACACATGTGATCGAAGCTATC
1 TGCACATAGTACCACACTTGTGATCAAAGCTATC
55248615 GGGTATGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 6 0.08
50 2 0.03
51 66 0.89
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (51 bp):
TGCACATAGTACCACACTTGTGATCAAAGCTATCTTTTACACATAGTGGCC
Found at i:55248626 original size:51 final size:49
Alignment explanation
Indices: 55248518--55248705 Score: 171
Period size: 51 Copynumber: 3.8 Consensus size: 49
55248508 CTATCTTCTT
* * * * **
55248518 TACAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTT
1 TACATAGTGGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGG
* * *
55248567 TACACATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGG
1 T--ACATAGTGGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGG
* * * * * *
55248618 TATGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTAA-CCATCTGG
1 TA--CATAGTGGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGG
* *
55248668 TACATGAGTGGCCTGCACTTAGTACTACACACGTGACC
1 TACAT-AGTGGCCTGCACTTAGTACCACACATGTGACC
55248706 TAAAACCATT
Statistics
Matches: 113, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
48 3 0.03
49 30 0.27
50 8 0.07
51 72 0.64
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TACATAGTGGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGG
Found at i:55248695 original size:49 final size:49
Alignment explanation
Indices: 55248570--55248708 Score: 163
Period size: 49 Copynumber: 2.8 Consensus size: 49
55248560 TATCTTTTAC
* * * *
55248570 ACATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGT
1 ACATAGTGGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGGT
* * * *
55248619 ATGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTAA-CCATCTGGT
1 A--CATAGTGGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGGT
*
55248669 ACATGAGTGGCCTGCACTTAGTACTACACACGTGACCTAA
1 ACAT-AGTGGCCTGCACTTAGTACTACACATGTGACCTAA
55248709 AACCATTTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
48 3 0.04
49 32 0.43
50 8 0.11
51 32 0.43
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (49 bp):
ACATAGTGGCCTGCACTTAGTACTACACATGTGACCTAAGCCATCGGGT
Found at i:55252514 original size:42 final size:42
Alignment explanation
Indices: 55252415--55252550 Score: 116
Period size: 43 Copynumber: 3.2 Consensus size: 42
55252405 AGACATTGTA
* * * *
55252415 TAAGACCATGTTTGGGACACAGGCCTC--TATTGAGATTTACGTA
1 TAAGACCATGTCTGGGACAGAGGCATCGATATT--GATTT-CGTG
* **
55252458 TAAGATCATGTCTGGGACATCGGCATCG-TATCTGATTTCGTG
1 TAAGACCATGTCTGGGACAGAGGCATCGATAT-TGATTTCGTG
* * *
55252500 TAAGACCCTGTCTGGGACAGAGGCATCGATATTGAGTTACATG
1 TAAGACCATGTCTGGGACAGAGGCATCGATATTGA-TTTCGTG
55252543 TAAGACCA
1 TAAGACCA
55252551 CGTCCGAGAT
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
42 30 0.39
43 42 0.55
44 3 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACAGAGGCATCGATATTGATTTCGTG
Found at i:55258854 original size:26 final size:26
Alignment explanation
Indices: 55258825--55258877 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
55258815 TCAAACATGC
55258825 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
55258851 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
55258877 A
1 A
55258878 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:55260398 original size:26 final size:26
Alignment explanation
Indices: 55260362--55260471 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
55260352 CATGAAATTC
55260362 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
55260388 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
55260414 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
55260440 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
55260466 TTATCA
1 TTATCA
55260472 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:55271788 original size:15 final size:15
Alignment explanation
Indices: 55271768--55271824 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 15
55271758 TTTTCTTGCC
*
55271768 TCTCTTTTCTTTTGA
1 TCTCTTTTCTTTTCA
55271783 TCTCTTTTTGCTTTTCA
1 TCTC-TTTT-CTTTTCA
55271800 TCT-TTTTCTTTTC-
1 TCTCTTTTCTTTTCA
*
55271813 TC-ATTTTCTTTT
1 TCTCTTTTCTTTT
55271825 TACAAGAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
13 11 0.29
14 6 0.16
15 8 0.21
16 4 0.11
17 9 0.24
ACGTcount: A:0.05, C:0.21, G:0.04, T:0.70
Consensus pattern (15 bp):
TCTCTTTTCTTTTCA
Found at i:55271796 original size:17 final size:16
Alignment explanation
Indices: 55271767--55271812 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
55271757 CTTTTCTTGC
*
55271767 CTCTCTTTTCTTTTGAT
1 CTCT-TTTTCTTTTCAT
55271784 CTCTTTTTGCTTTTCA-
1 CTCTTTTT-CTTTTCAT
55271800 -TCTTTTTCTTTTC
1 CTCTTTTTCTTTTC
55271813 TCATTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
16 4 0.15
17 10 0.37
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (16 bp):
CTCTTTTTCTTTTCAT
Found at i:55272313 original size:27 final size:27
Alignment explanation
Indices: 55272283--55272442 Score: 257
Period size: 27 Copynumber: 5.9 Consensus size: 27
55272273 AGTATTTTAG
*
55272283 TAATTCTACCCTACAGGGATATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
55272310 TAATTCTACCCTACAGGGGTATTGCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
55272337 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
55272364 TAATTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
55272391 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGA
55272418 TAATTCTACCCTACAGGGGTATTTC
1 TAATTCTACCCTACAGGGGTATTTC
55272443 AGTAATTTTG
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:55272464 original size:27 final size:27
Alignment explanation
Indices: 55272434--55272807 Score: 163
Period size: 27 Copynumber: 13.9 Consensus size: 27
55272424 TACCCTACAG
**
55272434 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*** * * ** *
55272461 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
55272488 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
* **
55272515 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
55272542 GGGTATTTTAGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTACAAATCGA
** *
55272568 GGGGTATTTTGGTAATTTTACAAA-CTAA
1 -GGGTATTTCAGTAATTTTACAAATC-GA
* *
55272596 GGGTATTT-TGATAATTTTACAAA-CCA
1 GGGTATTTCAG-TAATTTTACAAATCGA
** *
55272622 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTCAGTAATTTTACAAATCGA
** * *
55272649 GGGGTATTTTGGTAATTTTATAAA-CAAA
1 -GGGTATTTCAGTAATTTTACAAATC-GA
* *
55272677 GGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTATTTCAGTAATTTTACAAATCGA
** * ** * *
55272703 GGGGTATTTTGGAAATTTTGTAAACCAA
1 -GGGTATTTCAGTAATTTTACAAATCGA
** *
55272731 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTCAGTAATTTTACAAATCGA
** * * * *
55272757 GTGGTATTTTGGTGATTTTATAAACCAA
1 G-GGTATTTCAGTAATTTTACAAATCGA
* *
55272785 GGGTATTTTAGTGATTTTACAAA
1 GGGTATTTCAGTAATTTTACAAA
55272808 CCAGGGGTAT
Statistics
Matches: 288, Mismatches: 46, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
26 11 0.04
27 269 0.93
28 8 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:55272808 original size:27 final size:27
Alignment explanation
Indices: 55272485--55272828 Score: 393
Period size: 27 Copynumber: 12.7 Consensus size: 27
55272475 TTCTGTAAAT
* **
55272485 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** ***
55272512 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
55272539 CGAGGGTATTTTAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
55272566 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
55272593 TAAGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
55272620 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
55272647 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
55272674 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
55272701 CAGGGGTATTTTGGAAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
55272728 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
55272755 C-AGTGGTATTTTGGTGATTTTATAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
55272782 CAAGGGTATTTTAGTGATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
55272809 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
55272829 GGTAAACTAA
Statistics
Matches: 271, Mismatches: 44, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 267 0.99
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:55272835 original size:27 final size:27
Alignment explanation
Indices: 55272542--55272828 Score: 394
Period size: 27 Copynumber: 10.6 Consensus size: 27
55272532 TACAGGTCGA
* * *
55272542 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
55272569 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
55272596 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
55272623 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
55272650 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
55272677 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
55272704 GGGTATTTTGGAAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
55272731 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
55272758 TGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
55272785 GGGTATTTTAGTGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
55272812 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
55272829 GGTAAACTAA
Statistics
Matches: 225, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 225 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:55274514 original size:41 final size:41
Alignment explanation
Indices: 55274469--55274689 Score: 300
Period size: 41 Copynumber: 5.4 Consensus size: 41
55274459 CGTTTTTTAC
*
55274469 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* * * **
55274510 TAAAACGCCGGTAAAAAACAGAGAATTAGCGGCGCTTTCTA
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* * * *
55274551 TAAAACGACGCTAAAAA-TAGGGCATTAGCGGTGCTTTCGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* * *
55274591 TAAAATGCCGCTAAAAACCAGAGCATTAGCGTCGCTTTGGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* *
55274632 TAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
55274673 TAAAACGCCGCTAAAAA
1 TAAAACGCCGCTAAAAA
55274690 TCCCATAACC
Statistics
Matches: 155, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 32 0.21
41 123 0.79
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
Found at i:55274613 original size:81 final size:82
Alignment explanation
Indices: 55274469--55274689 Score: 300
Period size: 81 Copynumber: 2.7 Consensus size: 82
55274459 CGTTTTTTAC
*
55274469 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGGTAAAAAACAGAGA
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAACAGAGA
*
55274534 ATTAGCGGCGCTTTCTA
66 ATTAGCGGCGCTTTCGA
* * * * * * * *
55274551 TAAAACGACGCTAAAAA-TAGGGCATTAGCGGTGCTTTCGGTAAAATGCCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAACAGAGA
* * *
55274615 ATTAGCGTCGCTTTGGG
66 ATTAGCGGCGCTTTCGA
* *
55274632 TAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAAA
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAA
55274690 TCCCATAACC
Statistics
Matches: 118, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
81 68 0.58
82 50 0.42
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (82 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAACAGAGA
ATTAGCGGCGCTTTCGA
Found at i:55274620 original size:122 final size:122
Alignment explanation
Indices: 55274469--55274690 Score: 347
Period size: 122 Copynumber: 1.8 Consensus size: 122
55274459 CGTTTTTTAC
*
55274469 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGGTAAAAAACAGAGA
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAACAGAGA
*
55274534 ATTAGCGGCGCTTTCT-ATAAAACGACGCTAAAAATAGGGCATTAGCGGTGCTTTCGG
66 ATTAGCGACGCTTT-TGATAAAACGACGCTAAAAATAGGGCATTAGCGGTGCTTTCGG
* * * * *
55274591 TAAAATGCCGCTAAAAACCAGAGCATTAGCGTCGCTTTGGGTAAAACGCCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAACAGAGA
* *
55274656 ATTAGCGACGCTTTTGGTAAAACGCCGCTAAAAAT
66 ATTAGCGACGCTTTTGATAAAACGACGCTAAAAAT
55274691 CCCATAACCC
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
121 1 0.01
122 89 0.99
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (122 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAACAGAGA
ATTAGCGACGCTTTTGATAAAACGACGCTAAAAATAGGGCATTAGCGGTGCTTTCGG
Found at i:55274869 original size:14 final size:14
Alignment explanation
Indices: 55274847--55274886 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
55274837 TTAATTATCA
* *
55274847 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
55274861 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
55274875 ATATGGTTTAAG
1 TTATGGTTTAAG
55274887 CAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:55275771 original size:15 final size:15
Alignment explanation
Indices: 55275751--55275782 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
55275741 TTTAATTTAG
*
55275751 AAGATAAATGTATAT
1 AAGATAAATATATAT
55275766 AAGATAAATATATAT
1 AAGATAAATATATAT
55275781 AA
1 AA
55275783 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:55275821 original size:24 final size:24
Alignment explanation
Indices: 55275754--55275821 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
55275744 AATTTAGAAG
* *
55275754 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
55275779 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
55275803 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
55275822 AGTGGTTTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:55277393 original size:18 final size:17
Alignment explanation
Indices: 55277372--55277414 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
55277362 ATCTTAATGA
55277372 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
55277390 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
55277407 TCGATGAT
1 T-GATGAT
55277415 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:55279378 original size:133 final size:133
Alignment explanation
Indices: 55279203--55279454 Score: 459
Period size: 133 Copynumber: 1.9 Consensus size: 133
55279193 TGGTGATTCC
55279203 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
* *
55279268 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTTACATTTTATATAATAAAATTGT
66 TGGACATAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACATTTTATATAATAAAATTGT
55279333 TAT
131 TAT
55279336 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
* * *
55279401 TGGACATAGATTTATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGGACATAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACATTTTATAT
55279455 TGTTGAATTC
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 114 1.00
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACATAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACATTTTATATAATAAAATTGT
TAT
Found at i:55281552 original size:21 final size:21
Alignment explanation
Indices: 55281523--55281562 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
55281513 GTTTTTATAT
*
55281523 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
55281544 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
55281563 GAATTAATTT
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:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:55288054 original size:43 final size:43
Alignment explanation
Indices: 55288007--55288290 Score: 288
Period size: 43 Copynumber: 6.6 Consensus size: 43
55287997 CTGGGCAAAT
* *
55288007 TAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTATAGGTCTA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
* *
55288050 TAGCGGCATTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
*
55288093 TAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * *
55288136 TAGCGGCGTTTTTTATAAAAGTGCCGCTAAAGGTCCTA-GTCTT
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* * * * * *
55288179 TAGCGGCACTTTTATAAAAAA-CGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGC-GTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * * * * * *
55288222 TGGCGGCCTTTTTT-TAAGAGCGCCGTTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
55288264 TAGCGGCGCTTTTTTAAAAAA-CGCCGC
1 TAGCGGCG-TTTTTTAAAAAAGCGCCGC
55288291 GAACTTTTGT
Statistics
Matches: 210, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.01
42 33 0.16
43 160 0.76
44 14 0.07
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
Found at i:55288156 original size:86 final size:85
Alignment explanation
Indices: 55288006--55288290 Score: 331
Period size: 86 Copynumber: 3.3 Consensus size: 85
55287996 TCTGGGCAAA
* * *
55288006 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTATAGGTCTATAGCGGCATTTTTTACAAAAG
1 TTAGCGGCGTTTTTTAAAAAA-CGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAG
* *
55288071 CGCCGCTAAAAGTACAGGTCT
65 CGCCGCTAAAGGTCCAGGTCT
* * *
55288092 ATAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAG
1 TTAGCGGCGTTTTTTA-AAAAACGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAG
*
55288157 TGCCGCTAAAGGTCCTA-GTCT
65 CGCCGCTAAAGGTCC-AGGTCT
* * * * * * * * *
55288178 TTAGCGGCACTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTTTGGCGGCCTTTTTT-TAAGAG
1 TTAGCGGC-GTTTTTTAAAAAACGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAG
* *
55288242 CGCCGTTAAAGGTCCTGGTCT
65 CGCCGCTAAAGGTCCAGGTCT
55288263 TTAGCGGCGCTTTTTTAAAAAACGCCGC
1 TTAGCGGCG-TTTTTTAAAAAACGCCGC
55288291 GAACTTTTGT
Statistics
Matches: 169, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
85 47 0.28
86 111 0.66
87 11 0.07
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (85 bp):
TTAGCGGCGTTTTTTAAAAAACGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAGC
GCCGCTAAAGGTCCAGGTCT
Found at i:55288183 original size:129 final size:128
Alignment explanation
Indices: 55288007--55288290 Score: 322
Period size: 129 Copynumber: 2.2 Consensus size: 128
55287997 CTGGGCAAAT
* * *
55288007 TAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAAGTATAGGTCTATAGCGGCA-TTTTTTACAAAAG
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTATAGGTCTATAGCGGCACTTTTATA-AAAAA
*
55288071 CGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
65 CGCCGCTAAAAGTACAGGTCTATAGCGGCCTTTTTT-CAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * *
55288136 TAGCGGCGTTTTTTATAAAAGTGCCGCTAAAGGTCCTA-GTCTTTAGCGGCACTTTTATAAAAAA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGT-ATAGGTCTATAGCGGCACTTTTATAAAAAA
* * * * * * * * * * * *
55288200 CGCCGCTAAAGGTCCTGGTCTTTGGCGGCCTTTTTTTAAGAGCGCCGTTAAAGGTCCTGGTCTT
65 CGCCGCTAAAAGTACAGGTCTATAGCGGCCTTTTTTCAAAAGCGCCGCTAAAAGTACAGGTCTA
55288264 TAGCGGCGCTTTTTTAAAAAA-CGCCGC
1 TAGCGGCG-TTTTTTAAAAAAGCGCCGC
55288291 GAACTTTTGT
Statistics
Matches: 129, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
128 34 0.26
129 87 0.67
130 8 0.06
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (128 bp):
TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTATAGGTCTATAGCGGCACTTTTATAAAAAAC
GCCGCTAAAAGTACAGGTCTATAGCGGCCTTTTTTCAAAAGCGCCGCTAAAAGTACAGGTCTA
Found at i:55289483 original size:28 final size:29
Alignment explanation
Indices: 55289452--55289508 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
55289442 TATCCGAAAT
*
55289452 CCTGATAT-CATGGCTCGAAGCCAAATCA
1 CCTGATATGCATGCCTCGAAGCCAAATCA
*
55289480 CCTGATATGCTTGCCTCGAAGCCAAATCA
1 CCTGATATGCATGCCTCGAAGCCAAATCA
55289509 GTATCCCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (29 bp):
CCTGATATGCATGCCTCGAAGCCAAATCA
Found at i:55304176 original size:50 final size:51
Alignment explanation
Indices: 55304062--55304255 Score: 284
Period size: 51 Copynumber: 3.8 Consensus size: 51
55304052 TGAACCTTAG
* * *
55304062 GAATAAAATAACTTTGGACACGAGTGTGGTACTATGTGGAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
55304113 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGT-AAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
55304163 GAATAAAATAGCTTTGGATACAAGTTTGGTACTGTGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
55304214 GAATAAAATATCTTTGG-CTACAAGGGTGGTACTATGTGAAGG
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGG
55304256 TCGCCGTGTA
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
50 45 0.35
51 83 0.65
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:55304208 original size:101 final size:102
Alignment explanation
Indices: 55304062--55304255 Score: 284
Period size: 101 Copynumber: 1.9 Consensus size: 102
55304052 TGAACCTTAG
* * *
55304062 GAATAAAATAACTTTGGACACGAGTGTGGTACTATGTGGAGGCCACTTTGTGAATATAATAGCTT
1 GAATAAAATAACTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTT
*
55304127 TGGAC-ACAAGTGTGGTACTATGT-AAGGCCACTTTGT
66 TGG-CTACAAGGGTGGTACTATGTGAAGGCCACTTTGT
* * * * *
55304163 GAATAAAATAGCTTTGGATACAAGTTTGGTACTGTGTGAAGGCCACTTTGTGAATAAAATATCTT
1 GAATAAAATAACTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTT
55304228 TGGCTACAAGGGTGGTACTATGTGAAGG
66 TGGCTACAAGGGTGGTACTATGTGAAGG
55304256 TCGCCGTGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 1 0.01
101 77 0.94
102 4 0.05
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (102 bp):
GAATAAAATAACTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTT
TGGCTACAAGGGTGGTACTATGTGAAGGCCACTTTGT
Found at i:55305140 original size:41 final size:41
Alignment explanation
Indices: 55305083--55305166 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
55305073 AAAAGCATGT
55305083 TAATAAATTTCTTACTATTTACATACCAACTTACTAAGCTA
1 TAATAAATTTCTTACTATTTACATACCAACTTACTAAGCTA
55305124 TAATAAATTTCTTACTATTTACATACCAACTTACTAAGCTA
1 TAATAAATTTCTTACTATTTACATACCAACTTACTAAGCTA
55305165 TA
1 TA
55305167 TAGCTTACTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.39
Consensus pattern (41 bp):
TAATAAATTTCTTACTATTTACATACCAACTTACTAAGCTA
Found at i:55305842 original size:34 final size:34
Alignment explanation
Indices: 55305804--55305871 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
55305794 TTCGGTGTTG
55305804 AACACGGGTAAGGGGTGTTACAAGAAGGAAGTTT
1 AACACGGGTAAGGGGTGTTACAAGAAGGAAGTTT
*
55305838 AACACGGGTAAGGGGTGTTATAAGAAGGAAGTTT
1 AACACGGGTAAGGGGTGTTACAAGAAGGAAGTTT
55305872 GATTTGGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.07, G:0.35, T:0.22
Consensus pattern (34 bp):
AACACGGGTAAGGGGTGTTACAAGAAGGAAGTTT
Found at i:55308016 original size:19 final size:19
Alignment explanation
Indices: 55307949--55308022 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
55307939 TAAGTTAAAT
55307949 TAAAAAATATTAATTACTA
1 TAAAAAATATTAATTACTA
* *
55307968 TATACAATATTAATTTACATAA
1 TAAAAAATATTAA-TTAC-T-A
*
55307990 TTTAAAAAATAATAATTACTA
1 --TAAAAAATATTAATTACTA
55308011 TAAAAAAGTATT
1 TAAAAAA-TATT
55308023 GGTACAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
19 18 0.42
20 7 0.16
21 2 0.05
22 2 0.05
23 4 0.09
24 10 0.23
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.38
Consensus pattern (19 bp):
TAAAAAATATTAATTACTA
Found at i:55310408 original size:48 final size:48
Alignment explanation
Indices: 55310337--55310538 Score: 143
Period size: 48 Copynumber: 4.3 Consensus size: 48
55310327 GACTATATAA
* ** *
55310337 CGATGCCATATCCTAGATTTGGTCTTATACAAAG-TCTCATATCGGTGC
1 CGATGCCATATCCCAGACGTGGTCTTATACAAAGATCACATAT-GGTGC
* * * *
55310385 CGATGCCATATCCCAGACGTGGTCTTATA-TAGGACCTCATA---T--
1 CGATGCCATATCCCAGACGTGGTCTTATACAAAGATCACATATGGTGC
* * * * * *
55310427 CGATGCCATGTCCCAGACATGGTCTTATACGAA-ATCACTTAATGATAC
1 CGATGCCATATCCCAGACGTGGTCTTATACAAAGATCACAT-ATGGTGC
* * * *
55310475 CGAAGCCATATCCCTGATGTGGTCTTATAC-ATGATCACATATTGGTGC
1 CGATGCCATATCCCAGACGTGGTCTTATACAAAGATCACATA-TGGTGC
*
55310523 CGATGCCATGTCCCAG
1 CGATGCCATATCCCAG
55310539 GCATGGTATT
Statistics
Matches: 119, Mismatches: 25, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
42 31 0.26
43 2 0.02
44 1 0.01
46 1 0.01
47 4 0.03
48 80 0.67
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (48 bp):
CGATGCCATATCCCAGACGTGGTCTTATACAAAGATCACATATGGTGC
Found at i:55310483 original size:90 final size:89
Alignment explanation
Indices: 55310297--55310503 Score: 213
Period size: 90 Copynumber: 2.3 Consensus size: 89
55310287 TAGAGTGCCA
* * * * * **
55310297 AAGCCATGTCCTAGACATGGTCTTACATAGGACTATATAACGATGCCATATCCTAGATTTGGTCT
1 AAGCCATATCCCAGACGTGGTCTTATATAGGACTATAT-ACGATGCCATATCCCAGACATGGTCT
* * *
55310362 TATACAAAGTCTCATATCGGTGCCG
65 TATACAAAGTCACATATCGATACCG
* *
55310387 ATGCCATATCCCAGACGTGGTCTTATATAGGACCTCATAT-CGATGCCATGTCCCAGACATGGTC
1 AAGCCATATCCCAGACGTGGTCTTATATAGGA-CT-ATATACGATGCCATATCCCAGACATGGTC
*
55310451 TTATACGAAA-TCACTTAAT-GATACCG
64 TTATAC-AAAGTCACAT-ATCGATACCG
* *
55310477 AAGCCATATCCCTGATGTGGTCTTATA
1 AAGCCATATCCCAGACGTGGTCTTATA
55310504 CATGATCACA
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
90 86 0.89
91 7 0.07
92 4 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (89 bp):
AAGCCATATCCCAGACGTGGTCTTATATAGGACTATATACGATGCCATATCCCAGACATGGTCTT
ATACAAAGTCACATATCGATACCG
Found at i:55310640 original size:49 final size:48
Alignment explanation
Indices: 55310510--55310649 Score: 163
Period size: 48 Copynumber: 2.9 Consensus size: 48
55310500 TATACATGAT
* * *
55310510 CACATATTGGTGCCGATGCCATGTCCCAGGCATGGTATTACACTAGCA
1 CACATATCGATGCCGATGCCATGTCCCAGACATGGTATTACACTAGCA
* ** * * *
55310558 CACATATCTACACCGATACCATGTCCCAAACATGGTATTACACTAGCT
1 CACATATCGATGCCGATGCCATGTCCCAGACATGGTATTACACTAGCA
* * *
55310606 CTCATCTCGGATGCCGATGCCATGTCCCAGACATGGTCTTACAC
1 CACATATC-GATGCCGATGCCATGTCCCAGACATGGTATTACAC
55310650 GGGATCTCAT
Statistics
Matches: 74, Mismatches: 17, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
48 45 0.61
49 29 0.39
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (48 bp):
CACATATCGATGCCGATGCCATGTCCCAGACATGGTATTACACTAGCA
Found at i:55313323 original size:23 final size:23
Alignment explanation
Indices: 55313293--55313363 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
55313283 CACAAAGACA
55313293 ATCATTAGAATCAGAATTATAAC
1 ATCATTAGAATCAGAATTATAAC
*
55313316 ATCATTAGAAT-A-AA-GA-AAC
1 ATCATTAGAATCAGAATTATAAC
55313335 AATCATTAGAATCAGAATTATAAC
1 -ATCATTAGAATCAGAATTATAAC
55313359 ATCAT
1 ATCAT
55313364 ATGCATTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 3 0.07
20 12 0.29
21 3 0.07
22 3 0.07
23 17 0.41
24 3 0.07
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (23 bp):
ATCATTAGAATCAGAATTATAAC
Found at i:55317849 original size:43 final size:43
Alignment explanation
Indices: 55317701--55317857 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
55317691 TGTGTTATCG
* * **
55317701 TGTAAGACAAAGTCTGGAACGTTGGCATCAAT-TTGTGATTTATG
1 TGTAAGACAACGTCTGGGACGTTGGCATCAATATT-TGA-TTACA
* * * * * * *
55317745 TGTAAGACCATGTCTGGGACATTGGCAT-TATATATAATTTCA
1 TGTAAGACAACGTCTGGGACGTTGGCATCAATATTTGATTACA
* * *
55317787 CGTAAGAC-CCAGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACAAC-GTCTGGGAC-GTTGGCATCAATATTTGATTACA
55317830 TGTAAGACAACGTCTGGGACGTTGGCAT
1 TGTAAGACAACGTCTGGGACGTTGGCAT
55317858 TGTAGGAGCT
Statistics
Matches: 87, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
42 25 0.29
43 36 0.41
44 26 0.30
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACAACGTCTGGGACGTTGGCATCAATATTTGATTACA
Found at i:55319039 original size:18 final size:16
Alignment explanation
Indices: 55319007--55319045 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
55318997 TTAGTAAATG
55319007 AATAATAAAATGTTAT
1 AATAATAAAATGTTAT
*
55319023 TATAATAATATATGTTAT
1 AATAATAA-A-ATGTTAT
55319041 AATAA
1 AATAA
55319046 AATTCATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATAATAAAATGTTAT
Found at i:55320668 original size:9 final size:9
Alignment explanation
Indices: 55320655--55320692 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
55320645 TGTAACTGAG
55320655 CTTTCAACT
1 CTTTCAACT
*
55320664 TTTTCAACT
1 CTTTCAACT
55320673 CTTTCAACT
1 CTTTCAACT
55320682 CTTTCAACT
1 CTTTCAACT
55320691 CT
1 CT
55320693 GTCAGAGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (9 bp):
CTTTCAACT
Found at i:55321121 original size:15 final size:15
Alignment explanation
Indices: 55321101--55321135 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
55321091 CTTTGTCAAC
55321101 AGACAAACTCTTATT
1 AGACAAACTCTTATT
55321116 AGACAAACTCTTATT
1 AGACAAACTCTTATT
55321131 AGACA
1 AGACA
55321136 CCATATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (15 bp):
AGACAAACTCTTATT
Found at i:55324394 original size:25 final size:24
Alignment explanation
Indices: 55324348--55324394 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
55324338 TAAAAGAAAA
* *
55324348 TTAAACTAAATATTATACAAAATG
1 TTAAAATAAATAATATACAAAATG
*
55324372 TTAAAATAATATAATATATAAAA
1 TTAAAATAA-ATAATATACAAAA
55324395 AAAACTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (24 bp):
TTAAAATAAATAATATACAAAATG
Found at i:55326429 original size:179 final size:175
Alignment explanation
Indices: 55326124--55326442 Score: 414
Period size: 179 Copynumber: 1.8 Consensus size: 175
55326114 TGCATCCTCC
* * *
55326124 AATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCTGCTCTTT
1 AATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCTACTCTCT
* * *
55326189 TGCTACCTCAGAGAGATAAAGTCAGTGGCTAAAATTTGTTCCATTGCCAATACATGGAGATAAGA
66 TGCTACCTCAGAGAAATAAAGTCAGTGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGA
55326254 TTCACCATCTATGAAGATCTCTCCACTGTAATCTCAGGGAGATAA
131 TTCACCATCTATGAAGATCTCTCCACTGTAATCTCAGGGAGATAA
*
55326299 AATCTTCAAT-TCTCAGTCTGCTTCCTTGCTATCTCAGGAAGATAAGACTCATTCTTCAA-C-CT
1 AATCTTCAATCT-TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-A-----CAATCGCT
* * * *
55326361 ACTCTCTTGCTACCTCAGAGAAAT-AAGGCTGGTGGCTAAACTCTGC-CTCATTGCCGATACATG
59 ACTCTCTTGCTACCTCAGAGAAATAAAGTC-AGTGGCTAAAATCTGCTC-CATTGCCAATACATG
*
55326424 GAGATAAGGTTCACCATCT
122 GAGATAAGATTCACCATCT
55326443 GCGATTTGTT
Statistics
Matches: 123, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
174 1 0.01
175 45 0.37
176 1 0.01
178 5 0.04
179 67 0.54
180 1 0.01
181 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (175 bp):
AATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCTACTCTCT
TGCTACCTCAGAGAAATAAAGTCAGTGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGA
TTCACCATCTATGAAGATCTCTCCACTGTAATCTCAGGGAGATAA
Found at i:55326799 original size:177 final size:177
Alignment explanation
Indices: 55326555--55326932 Score: 557
Period size: 177 Copynumber: 2.1 Consensus size: 177
55326545 GTTGAGAGAA
*
55326555 ATAAGATCTTCCACAT-TT-AGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTACAATTGCCA
1 ATAAGATCTT-CA-ATCTTCAGTCTGCTTCCTTGCCACCTCAAGAAGATAAGACTACAATTGCCA
* *
55326618 ACCTGCTCTCTTACTACCTTAGAGAGATAAGGTCAATAGCTAAAATCTGCTCCATTGCCGATACA
64 ACCTGCTCTCTTACTAACTCAGAGAGATAAGGTCAATAGCTAAAATCTGCTCCATTGCCGATACA
55326683 TGGAGATAAGATTCGCCATCCTCGATCCGCTCCACTACTGCTTAGGGAG
129 TGGAGATAAGATTCGCCATCCTCGATCCGCTCCACTACTGCTTAGGGAG
* *
55326732 ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCCACCTCAGGAAGATAAGACTATC-ATCT-TCA
1 ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCCACCTCAAGAAGATAAGACTA-CAAT-TGCCA
* * * * *
55326795 ACCTGCTCTCTTGCTAACTCAGAGAGATAAGGTCAGTGGTTAAAATCTGCTCCATTGCTGATACA
64 ACCTGCTCTCTTACTAACTCAGAGAGATAAGGTCAATAGCTAAAATCTGCTCCATTGCCGATACA
* * * *
55326860 TGGAGATAAGATTTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAG
129 TGGAGATAAGATTCGCCATCCTCGATCCGCTCCACTACTGCTTAGGGAG
55326909 ATAAGATCTTTCAATCTTCAGTCT
1 ATAAGATC-TTCAATCTTCAGTCT
55326933 ACTCCACTGT
Statistics
Matches: 182, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
175 2 0.01
176 4 0.02
177 159 0.87
178 17 0.09
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (177 bp):
ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCCACCTCAAGAAGATAAGACTACAATTGCCAAC
CTGCTCTCTTACTAACTCAGAGAGATAAGGTCAATAGCTAAAATCTGCTCCATTGCCGATACATG
GAGATAAGATTCGCCATCCTCGATCCGCTCCACTACTGCTTAGGGAG
Found at i:55326808 original size:44 final size:45
Alignment explanation
Indices: 55326729--55326825 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
55326719 ACTGCTTAGG
** *
55326729 GAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCCACCTCAG-
1 GAGATAAGATCTTCAATCTTCAACCTGCTTCCTTGCCAACTCAGA
*
55326773 GAAGATAAGA-CTATC-ATCTTCAACCTGC-TCTCTTGCTAACTCAGA
1 G-AGATAAGATCT-TCAATCTTCAACCTGCTTC-CTTGCCAACTCAGA
55326818 GAGATAAG
1 GAGATAAG
55326826 GTCAGTGGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
43 2 0.04
44 32 0.71
45 11 0.24
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (45 bp):
GAGATAAGATCTTCAATCTTCAACCTGCTTCCTTGCCAACTCAGA
Found at i:55327385 original size:64 final size:64
Alignment explanation
Indices: 55327229--55327465 Score: 307
Period size: 62 Copynumber: 3.9 Consensus size: 64
55327219 TTCATGTATC
* * *
55327229 ATGCTTATGCCAACTAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGA--TG
1 ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
55327291 ATGCTGATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAGTGCTCCTAACTAAATGTG
1 ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
55327355 ATGCTTATGTCAAATAATTAGGATGC-----T----ATGAATCAAATGCTTCTAACTAGATGTA
1 ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
*
55327410 ATGCTGATATCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAAC
1 ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAAC
55327466 ATGTTATGAA
Statistics
Matches: 150, Mismatches: 14, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
55 48 0.32
59 1 0.01
60 1 0.01
62 54 0.36
64 46 0.31
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (64 bp):
ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:55327448 original size:55 final size:55
Alignment explanation
Indices: 55327327--55327445 Score: 177
Period size: 55 Copynumber: 2.2 Consensus size: 55
55327317 TATGATCGAA
* * * *
55327327 ATGAATCAAGTGCTCCTAACTAAATGTGATGCTTATGTCAAATAATTAGGATGCT
1 ATGAATCAAATGCTCCTAACTAAATGTAATGCTGATATCAAATAATTAGGATGCT
* *
55327382 ATGAATCAAATGCTTCTAACTAGATGTAATGCTGATATCAAATAATTAGGATGCT
1 ATGAATCAAATGCTCCTAACTAAATGTAATGCTGATATCAAATAATTAGGATGCT
55327437 ATG-ATCAAA
1 ATGAATCAAA
55327446 ATGAATCAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 6 0.10
55 52 0.90
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (55 bp):
ATGAATCAAATGCTCCTAACTAAATGTAATGCTGATATCAAATAATTAGGATGCT
Found at i:55327526 original size:15 final size:14
Alignment explanation
Indices: 55327499--55327525 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55327489 CAAAAATGAA
55327499 AATGATCTTTTTTG
1 AATGATCTTTTTTG
55327513 AATGATCTTTTTT
1 AATGATCTTTTTT
55327526 TTTTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
AATGATCTTTTTTG
Found at i:55339228 original size:40 final size:40
Alignment explanation
Indices: 55339184--55339438 Score: 231
Period size: 40 Copynumber: 6.1 Consensus size: 40
55339174 AGTTTCGTTC
* * *
55339184 ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGTCATAT
1 ATAGCCGAAGCTATGTCGAATCGCACACTAAGTGCCATAT
* * * *
55339224 ATAGCTGAAGCTATCTCGATCTCGCACACTAAGTGTCATAT
1 ATAGCCGAAGCTATGTCGA-ATCGCACACTAAGTGCCATAT
* * *
55339265 ATAGCTGAAGCTATGTCGAATCTCACATTAAGTGCCATATAAGTGTCATAT
1 ATAGCCGAAGCTATGTCGAATCGCAC----A----C---TAAGTGCCATAT
*
55339316 ATAGCTGAAGCTATGTCGAATCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATGTCGAATCGCACACTAAGTGCCATAT
* * *
55339356 ATAGCCGAAGGTATGTCGAATCGCACACTAAGAGCCATGT
1 ATAGCCGAAGCTATGTCGAATCGCACACTAAGTGCCATAT
** * * *
55339396 ATAATCGAAGCTTTGTTGAATCGCACACTAAGTGCCACAT
1 ATAGCCGAAGCTATGTCGAATCGCACACTAAGTGCCATAT
55339436 ATA
1 ATA
55339439 TATATGATTT
Statistics
Matches: 183, Mismatches: 20, Indels: 24
0.81 0.09 0.11
Matches are distributed among these distances:
40 104 0.57
41 38 0.21
43 1 0.01
44 1 0.01
47 1 0.01
48 1 0.01
51 37 0.20
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (40 bp):
ATAGCCGAAGCTATGTCGAATCGCACACTAAGTGCCATAT
Found at i:55339313 original size:51 final size:51
Alignment explanation
Indices: 55339253--55339356 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
55339243 TCTCGCACAC
* *
55339253 TAAGTGTCATATATAGCTGAAGCTATGTCGAATCTCACATTAAGTGCCATA
1 TAAGTGTCATATATAGCTGAAGCTATGTCGAATCGCACACTAAGTGCCATA
55339304 TAAGTGTCATATATAGCTGAAGCTATGTCGAATCGCACACTAAGTGCCATA
1 TAAGTGTCATATATAGCTGAAGCTATGTCGAATCGCACACTAAGTGCCATA
55339355 TA
1 TA
55339357 TAGCCGAAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (51 bp):
TAAGTGTCATATATAGCTGAAGCTATGTCGAATCGCACACTAAGTGCCATA
Found at i:55339371 original size:91 final size:92
Alignment explanation
Indices: 55339212--55339393 Score: 285
Period size: 91 Copynumber: 2.0 Consensus size: 92
55339202 AATCGCACAC
* * *
55339212 TAAGTGTCATATATAGCTGAAGCTATCTCGATCTCGCACACTAAGTGTCATATATAGCTGAAGCT
1 TAAGTGTCATATATAGCTGAAGCTATCTCGATATCGCACACTAAGTGCCATATATAGCCGAAGCT
* * *
55339277 ATGTCGAATCTCACATTAAGTGCCATA
66 ATGTCGAATCGCACACTAAGAGCCATA
* *
55339304 TAAGTGTCATATATAGCTGAAGCTATGTCGA-ATCGCACACTAAGTGCCATATATAGCCGAAGGT
1 TAAGTGTCATATATAGCTGAAGCTATCTCGATATCGCACACTAAGTGCCATATATAGCCGAAGCT
55339368 ATGTCGAATCGCACACTAAGAGCCAT
66 ATGTCGAATCGCACACTAAGAGCCAT
55339394 GTATAATCGA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 52 0.63
92 30 0.37
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (92 bp):
TAAGTGTCATATATAGCTGAAGCTATCTCGATATCGCACACTAAGTGCCATATATAGCCGAAGCT
ATGTCGAATCGCACACTAAGAGCCATA
Found at i:55345876 original size:30 final size:30
Alignment explanation
Indices: 55345842--55345898 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
55345832 TAACGTGCTT
55345842 TAATGATTCAGATTTATTTTTAAGATCTAA
1 TAATGATTCAGATTTATTTTTAAGATCTAA
* *
55345872 TAATGATTCTGGTTTATTTTTAAGATC
1 TAATGATTCAGATTTATTTTTAAGATC
55345899 CATTGGATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (30 bp):
TAATGATTCAGATTTATTTTTAAGATCTAA
Found at i:55350847 original size:16 final size:16
Alignment explanation
Indices: 55350816--55350854 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
55350806 TATTATAATC
55350816 TATAATATAATAATACT
1 TATAA-ATAATAATACT
*
55350833 TATAAATACTAATACT
1 TATAAATAATAATACT
55350849 TATAAA
1 TATAAA
55350855 ATATATTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAAATAATAATACT
Found at i:55351399 original size:254 final size:255
Alignment explanation
Indices: 55350913--55351472 Score: 749
Period size: 254 Copynumber: 2.2 Consensus size: 255
55350903 GTAGAATATA
**
55350913 ATATATTAATTATTATCATATATTATTGTTTATTATTATACTCGTTGAAATAGGCTCTAAGTCCC
1 ATATATTAATTATTA--ATATATTATTGTTTATTATTATACTATTTGAAATAGGCTCTAAGTCCC
* *
55350978 TATACTTTTTAGACATTTGAAAATTATCCCTACTACTACATTATATAATATTATATCATATCATA
64 TATACTTTTCAGACATTTGAAAATTAGCCCTACTACTA-ATTATATAATATTATATCATATCA-A
* *
55351043 TCATATAGTATATAATATATTGATAGTTTTTATATATGCATCAATGATTAAATATTATAATATCA
127 TCATATA-TATATAATATATTAATAGTTTTTATATATGCATCAATGATTAAACATTATAATATCA
* *
55351108 TGTAATTCTATATCTTTTATTGTAATCTATAATATAATAATAGTTATATATAATAGA-AGTAAAT
191 TGTAATCCTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATA-ATAGTAAAT
55351172 T
255 T
* * *
55351173 ATATATTAATTATTAAT-TATTAATGTTTATTATTATACTATTTGAAATATGCTCTAAGTTCCTA
1 ATATATTAATTATTAATATATTATTGTTTATTATTATACTATTTGAAATAGGCTCTAAGTCCCTA
* * * *
55351237 TACTTTTCATAGATTTGAAAGTTAGCCCT-CTTACT-ATTATATAATGTTATATCATATC-AT-A
66 TACTTTTCAGACATTTGAAAATTAGCCCTAC-TACTAATTATATAATATTATATCATATCAATCA
* *
55351298 TAT-TATATAATATATTAATAGTTTATATATATATATGCATTAATTATTAAACATTATAATATCA
130 TATATATATAATATATTAATAG-TT-T-T-TATATATGCATCAATGATTAAACATTATAATATCA
* * * * *
55351362 TGTACTCCTATATTTTTTATTATAATTTATAATATAATAATAGTTATATATGATAATAGTACATT
191 TGTAATCCTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAATAGTAAATT
*
55351427 ATATATTAATTATT-ATATATTATTGTTTATTATTATATTATATTGA
1 ATATATTAATTATTAATATATTATTGTTTATTATTATACTAT-TTGA
55351473 TTATTGAATA
Statistics
Matches: 268, Mismatches: 24, Indels: 21
0.86 0.08 0.07
Matches are distributed among these distances:
250 17 0.06
251 2 0.01
252 5 0.02
253 6 0.02
254 124 0.46
255 26 0.10
256 1 0.00
257 70 0.26
258 2 0.01
260 15 0.06
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.47
Consensus pattern (255 bp):
ATATATTAATTATTAATATATTATTGTTTATTATTATACTATTTGAAATAGGCTCTAAGTCCCTA
TACTTTTCAGACATTTGAAAATTAGCCCTACTACTAATTATATAATATTATATCATATCAATCAT
ATATATATAATATATTAATAGTTTTTATATATGCATCAATGATTAAACATTATAATATCATGTAA
TCCTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAATAGTAAATT
Found at i:55351417 original size:16 final size:17
Alignment explanation
Indices: 55351388--55351421 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
55351378 TTATTATAAT
55351388 TTATAATATAATAATAG
1 TTATAATATAATAATAG
*
55351405 TTAT-ATATGATAATAG
1 TTATAATATAATAATAG
55351421 T
1 T
55351422 ACATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
TTATAATATAATAATAG
Found at i:55351460 original size:20 final size:20
Alignment explanation
Indices: 55351435--55351477 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
55351425 TTATATATTA
*
55351435 ATTATTATA-TATTATTGTTT
1 ATTATTATATTA-TATTGATT
55351455 ATTATTATATTATATTGATT
1 ATTATTATATTATATTGATT
55351475 ATT
1 ATT
55351478 GAATAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTATTATATTATATTGATT
Found at i:55352550 original size:249 final size:243
Alignment explanation
Indices: 55352076--55352597 Score: 629
Period size: 249 Copynumber: 2.1 Consensus size: 243
55352066 TTCATATAGT
*
55352076 ATATAATATATTAATAGTTTATATATATACGCATCAATGATTAAACATTATAATATAATGTAATA
1 ATATAATATATTAATAGTTTATA-A-ATATGCATCAATGATTAAACATTATAATATAATGTAATA
* * * * *
55352141 TTACATCTTTTATTACATTCTATAATATAATAGTAGTACATTATATATATTAGTTATTATAAAAA
64 TTACATCTTTTATTACAATCTATAATATAATAATAGTACATTATAAATAGTAGTCATTATAAAAA
* * *
55352206 AATATAATATATTATTTTTTATTATTATATGGGTTGAAATATACTCAAGTCCCTATAATTTTTGT
129 AATATAATATATTATTTTTTATTATCATATGAGTTGAAATATACTCAAGTCCCTATAATTTTCGT
* * *
55352271 ACATTTGAAAGTTAATCCTCCTATTATATTACATAATGCTATATCATATC
194 AAATTTGAAAGTTAATCCTCCTACTATATTACATAATGATATATCATATC
* * *
55352321 ATATAATATGTTAATAGTTTATAAATATGCATCAATGATTAAACATTATAATATCATGTAATGTT
1 ATATAATATATTAATAGTTTATAAATATGCATCAATGATTAAACATTATAATATAATGTAATATT
* * * **
55352386 ATATTTTTTAATTATAATCTATAATATAATAATA-TTTA-TATAAATAGTAGTGCATTATATATT
66 ACATCTTTT-ATTACAATCTATAATATAATAATAGTACATTATAAATAGTAGT-CATTATA-A--
* * * * * *
55352449 ACATATTATTACATATATT-TTTTTTATTATCCTACT-AGTTGAAATATGCTCTAAGTCCTTATT
126 A-AAAATA-TA-ATATATTATTTTTTATTATCATA-TGAGTTGAAATATACTC-AAGTCCCTATA
* * *
55352512 ATTTTCGTAAATTTGAAAGTTAGTCCTCTTACTATATTATATAATGATATATCATATC
186 ATTTTCGTAAATTTGAAAGTTAATCCTCCTACTATATTACATAATGATATATCATATC
* *
55352570 ATATAATTTATTAATAGTTTATATATAT
1 ATATAATATATTAATAGTTTATAAATAT
55352598 ACATGCATCA
Statistics
Matches: 235, Mismatches: 32, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
242 11 0.05
243 53 0.23
244 23 0.10
245 22 0.09
246 1 0.00
247 4 0.02
248 28 0.12
249 93 0.40
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (243 bp):
ATATAATATATTAATAGTTTATAAATATGCATCAATGATTAAACATTATAATATAATGTAATATT
ACATCTTTTATTACAATCTATAATATAATAATAGTACATTATAAATAGTAGTCATTATAAAAAAA
TATAATATATTATTTTTTATTATCATATGAGTTGAAATATACTCAAGTCCCTATAATTTTCGTAA
ATTTGAAAGTTAATCCTCCTACTATATTACATAATGATATATCATATC
Found at i:55354373 original size:29 final size:28
Alignment explanation
Indices: 55354332--55354387 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
55354322 CCGAAGTACT
*
55354332 GATATCATGGCCCAAAGTCAAATCAGTC
1 GATATCATGGCCCAAAGCCAAATCAGTC
*
55354360 GATATGCATGGCCCAATGCCAAATCAGT
1 GATAT-CATGGCCCAAAGCCAAATCAGT
55354388 ATAACTCGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (28 bp):
GATATCATGGCCCAAAGCCAAATCAGTC
Found at i:55356007 original size:12 final size:12
Alignment explanation
Indices: 55355990--55356015 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
55355980 GTGTTCTTTA
55355990 TTTTATTTTATT
1 TTTTATTTTATT
55356002 TTTTATTTTATT
1 TTTTATTTTATT
55356014 TT
1 TT
55356016 CACAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:55360435 original size:5 final size:5
Alignment explanation
Indices: 55360425--55360452 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
55360415 TTACGTGTTC
55360425 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
55360453 CACAGTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:55363822 original size:13 final size:13
Alignment explanation
Indices: 55363804--55363828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55363794 TATGTGATAT
55363804 GTGTGAAAATTTC
1 GTGTGAAAATTTC
55363817 GTGTGAAAATTT
1 GTGTGAAAATTT
55363829 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:55365019 original size:44 final size:42
Alignment explanation
Indices: 55364944--55365105 Score: 139
Period size: 42 Copynumber: 3.8 Consensus size: 42
55364934 CCGATATGTA
* ** *
55364944 ATTTCGTGTGAGACCACATCTGGGACGTTGGCATCGATTTGAG
1 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATTT-AG
* *
55364987 ATTTACGTGTAAGACCATGTCTGAGACATTGGCATCG-TATATG
1 ATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATTTA-G
* * * * *
55365030 ATTTCGTGTAAGACCTTGTTTGGGATAGTGGCATCGATATTTG
1 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT-TTAG
* * * *
55365073 ATTACATGTAAGA-CTTGTCTGGGACGTTGGCAT
1 ATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
55365106 TGTACAAGCT
Statistics
Matches: 96, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
42 44 0.46
43 24 0.25
44 28 0.29
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34
Consensus pattern (42 bp):
ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATTTAG
Found at i:55370281 original size:25 final size:25
Alignment explanation
Indices: 55370253--55370303 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
55370243 AGTTTTAGAA
55370253 AATGAGATATCGGGACCTCGTTTCT
1 AATGAGATATCGGGACCTCGTTTCT
55370278 AATGAGATATCGGGACCTCGTTTCT
1 AATGAGATATCGGGACCTCGTTTCT
55370303 A
1 A
55370304 TAAACTGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
AATGAGATATCGGGACCTCGTTTCT
Found at i:55371594 original size:29 final size:29
Alignment explanation
Indices: 55371395--55371583 Score: 247
Period size: 29 Copynumber: 6.5 Consensus size: 29
55371385 GCATCGATTA
* ** * *
55371395 ATGAAAAGGGATAGTTTCGACTATCGACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
*
55371424 ATGAAAAGGGATGGTGACGACCATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCAACT
55371453 ATGAAAAGGGATGGTGACGACCATC-ACAT
1 ATGAAAAGGGATGGTGACGACCATCAAC-T
* *
55371482 AAGAAAAGGGATGGTGATGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
* *
55371511 TTGAAAAGGGATGGTGACCACCATCGAA-T
1 ATGAAAAGGGATGGTGACGACCATC-AACT
*
55371540 GTGAAAAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
55371569 ATGAAAAGGGATGGT
1 ATGAAAAGGGATGGT
55371584 TTCGACTATC
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.02
29 133 0.95
30 4 0.03
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.20
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAACT
Found at i:55373423 original size:40 final size:40
Alignment explanation
Indices: 55373352--55373427 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
55373342 TAGTGCCACA
***
55373352 TATAGCCGAAGCTATTCTAATTTGCAAACTAAGTGCTATT
1 TATAGCCGAAGCTATTCTAAAACGCAAACTAAGTGCTATT
*
55373392 TATAGCCGAAGCTA-TCTCAAAACGCACACTAAGTGC
1 TATAGCCGAAGCTATTCT-AAAACGCAAACTAAGTGC
55373428 CAAACATAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.10
40 28 0.90
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (40 bp):
TATAGCCGAAGCTATTCTAAAACGCAAACTAAGTGCTATT
Found at i:55381195 original size:53 final size:53
Alignment explanation
Indices: 55381012--55381218 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
55381002 ATTAGGGTTT
* * * *
55381012 AAGGATACCAAGTAAGACAATGCCAAGGCATGGCATTGGTAAGTT-ATACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAT--AAGGC
* * * * * * * *
55381066 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
55381121 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
55381174 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
55381219 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
53 45 0.37
54 36 0.30
55 39 0.32
57 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:55388606 original size:55 final size:54
Alignment explanation
Indices: 55388471--55388608 Score: 141
Period size: 55 Copynumber: 2.5 Consensus size: 54
55388461 GTTTAAGGAT
* * * * *
55388471 ACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAA
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAA
* * * * * * *
55388525 ATCATGTTAGGCCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGAT
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAAGAA
* *
55388580 CCCATGTAAGACCCTGCCAAGGCATGGCA
1 ACCATGTAAGACCATGCCAAGGCATGGCA
55388609 ATGGTGAATT
Statistics
Matches: 64, Mismatches: 19, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
54 27 0.42
55 37 0.58
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (54 bp):
ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAA
Found at i:55392123 original size:29 final size:29
Alignment explanation
Indices: 55392090--55392179 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
55392080 TGAGCATGAC
*
55392090 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
* *
55392119 TATAAATGTGATTTGGGCCTAATGGGTCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
55392148 TATAAATGTG-ATTGGGCCTAATGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
55392176 TATA
1 TATA
55392180 CAGGTATATG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 20 0.36
29 36 0.64
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTAATGGGCCA
Found at i:55396083 original size:29 final size:29
Alignment explanation
Indices: 55396049--55396124 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
55396039 TGAGCATGAC
* *
55396049 TATAAATGTGAATTGGGCCGGATGATCCA
1 TATAAATGTGAATTGGGCCGAATGAGCCA
* *
55396078 TATAAATGT-AATTTGGGCCTAATGGGCCA
1 TATAAATGTGAA-TTGGGCCGAATGAGCCA
55396107 TATAAATGTG-ATTGGGCC
1 TATAAATGTGAATTGGGCC
55396125 TAGTAGGCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.22
29 32 0.78
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCGAATGAGCCA
Found at i:55396133 original size:28 final size:29
Alignment explanation
Indices: 55396075--55396138 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
55396065 GCCGGATGAT
*
55396075 CCATATAAATGTAATTTGGGCCTAATGGG
1 CCATATAAATGTAATTTGGGCCTAATAGG
* *
55396104 CCATATAAATGTGA-TTGGGCCTAGTAGG
1 CCATATAAATGTAATTTGGGCCTAATAGG
55396132 CCATATA
1 CCATATA
55396139 CAGGTATGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
CCATATAAATGTAATTTGGGCCTAATAGG
Found at i:55401668 original size:40 final size:40
Alignment explanation
Indices: 55401597--55401672 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
55401587 TAGTGACACA
* *
55401597 TATAGCCGAAGCTATTCTAATTCGCAAACTAAGTGCTATT
1 TATAGCCGAAGCTATTCGAATACGCAAACTAAGTGCTATT
*
55401637 TATAGCCGAAGCTATCTCGAA-ACGCACACTAAGTGC
1 TATAGCCGAAGCTAT-TCGAATACGCAAACTAAGTGC
55401673 CAAACATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (40 bp):
TATAGCCGAAGCTATTCGAATACGCAAACTAAGTGCTATT
Found at i:55424542 original size:43 final size:43
Alignment explanation
Indices: 55424475--55424642 Score: 198
Period size: 43 Copynumber: 3.9 Consensus size: 43
55424465 AAAGCTCATA
* * * *
55424475 CAATGCC-ATATCCCAGATATGGTCTTACATGTTACCACAAAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAAAT
* * * * *
55424517 CGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCACAACA-
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA-AT
*
55424560 CAATGCCAATGTCCCAGACATGATCTTACATGTAATCAC-AAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAAAT
*
55424602 ACAATGCCAATGTCCCAGACATGGTTTTACATGTAATCACA
1 -CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
55424643 TCTCGATAAC
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 95 0.91
44 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.24
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAAAT
Found at i:55429154 original size:55 final size:53
Alignment explanation
Indices: 55429067--55429321 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 53
55429057 ATTAGGGTTT
* * *
55429067 AAGGATACCATGTAAGACCATGCCAAGGCATGGTAATTGGTATGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTA-AGTTTCTAAGGC
* * *
55429122 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTT--TCTAAGGC
** * *
55429177 AAAGG-T-CCTATGTAAGACCATGTCAAGATGTGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* *
55429230 GAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* * *
55429279 AAGGATACCATGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAG
55429322 GCACCTGTGT
Statistics
Matches: 169, Mismatches: 21, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
48 2 0.01
49 36 0.21
52 6 0.04
53 37 0.22
54 15 0.09
55 69 0.41
56 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:55432437 original size:93 final size:93
Alignment explanation
Indices: 55432325--55432495 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
55432315 GCCCCTAAGT
* * *
55432325 GAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55432390 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
55432418 GAACTCTGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55432483 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55432496 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55432492 original size:46 final size:46
Alignment explanation
Indices: 55432320--55432492 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
55432310 AACCCGCCCC
* * * *
55432320 TAAGTGAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
55432366 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
55432414 TCA-CGAACTCTGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
55432459 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55432493 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:55432952 original size:30 final size:30
Alignment explanation
Indices: 55432918--55432977 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
55432908 ATTTAATACG
55432918 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
55432948 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
55432978 GGATCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:55439731 original size:40 final size:40
Alignment explanation
Indices: 55439657--55439868 Score: 270
Period size: 40 Copynumber: 5.2 Consensus size: 40
55439647 AAGTATCTTT
* *
55439657 GGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTC
* **
55439696 GGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
*
55439736 GGGACTTAGCCAGGATATAGTCACTAGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
55439776 GGGACTTAGCCCAGG-TATAG-CAGCTACTCGCACAAATGCCTTC
1 GGGACTTAGCCC-GGATATAGTCA-CTA---GCACAAATGCCTTC
* *
55439819 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
55439859 GGGACTTAGC
1 GGGACTTAGC
55439869 TCGAATATCA
Statistics
Matches: 152, Mismatches: 12, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 9 0.06
40 104 0.68
41 3 0.02
42 2 0.01
43 33 0.22
44 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
Found at i:55439849 original size:83 final size:80
Alignment explanation
Indices: 55439657--55439868 Score: 277
Period size: 83 Copynumber: 2.6 Consensus size: 80
55439647 AAGTATCTTT
* * * *
55439657 GGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACT
1 GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACT
**
55439721 AGCATGAATGCCTTC
66 AGCACAAATGCCTTC
* *
55439736 GGGACTTAGCCAGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCAGG-TATAG-CAG
1 GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCC-GGATATAGTCA-
55439799 CTACTCGCACAAATGCCTTC
64 CTA---GCACAAATGCCTTC
*
55439819 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGC
1 GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
55439869 TCGAATATCA
Statistics
Matches: 116, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
79 10 0.09
80 45 0.39
81 2 0.02
83 59 0.51
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (80 bp):
GGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACT
AGCACAAATGCCTTC
Found at i:55444100 original size:37 final size:37
Alignment explanation
Indices: 55444050--55444123 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
55444040 ATCTGATAAG
55444050 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
1 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
55444087 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
1 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
55444124 ATTGTGAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (37 bp):
TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
Found at i:55446476 original size:39 final size:39
Alignment explanation
Indices: 55446431--55446738 Score: 553
Period size: 39 Copynumber: 7.9 Consensus size: 39
55446421 ATGCAAGACA
*
55446431 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
55446470 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
55446509 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
55446548 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
55446587 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
55446626 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
55446665 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* **
55446704 CGGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTT
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTT
55446739 TGTATTGGTA
Statistics
Matches: 259, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 259 1.00
ACGTcount: A:0.21, C:0.27, G:0.31, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
Found at i:55452412 original size:40 final size:40
Alignment explanation
Indices: 55452334--55452549 Score: 276
Period size: 40 Copynumber: 5.3 Consensus size: 40
55452324 ACCCAAGTAT
* *
55452334 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
55452373 CTTCGGGCCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
55452413 CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
55452453 CTTCGAGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
55452496 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
55452536 CTTCGGGACTTAGC
1 CTTCGGGACTTAGC
55452550 TCGAATATCA
Statistics
Matches: 154, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 12 0.08
40 106 0.69
41 1 0.01
43 35 0.23
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:55452530 original size:83 final size:80
Alignment explanation
Indices: 55452334--55452549 Score: 283
Period size: 83 Copynumber: 2.7 Consensus size: 80
55452324 ACCCAAGTAT
* * * *
55452334 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGCCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
55452398 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* * * *
55452413 CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGCCTTCGAGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
55452477 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
55452496 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
55452550 TCGAATATCA
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 13 0.11
80 47 0.40
83 58 0.49
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:55462478 original size:55 final size:54
Alignment explanation
Indices: 55462391--55462599 Score: 266
Period size: 55 Copynumber: 3.9 Consensus size: 54
55462381 ATTAGGGTTT
* * * *
55462391 AAGGATACCATGTAAGACCATGCCGAGGCATGGCAATTGGTAAGGTTTGTAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAA-GTTTATAAGGA
*
55462446 AAGGATACCATGTAAGA-CAGTGTCAAGACATGG-AATTGTTAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCA-TGTCAAGACATGGCAATTGGTAAGTT--TATAAGG-A
* * *
55462502 AAGG-TCCCATGTAAGACCATGTCAAGACATGGC-ATTGGTGAGTTCATAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTATAAGGA
55462554 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTT
55462600 CAAAAGGATA
Statistics
Matches: 134, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
52 5 0.04
53 45 0.34
54 11 0.08
55 66 0.49
56 7 0.05
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTATAAGGA
Found at i:55462597 original size:108 final size:110
Alignment explanation
Indices: 55462398--55462598 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 110
55462388 TTTAAGGATA
* * **
55462398 CCATGTAAGACCATGCCGAGGCATGGCAATTGGTAAGGTTTGTAAGGAAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTCATAAGGAAAGGATACCATGTAAGA
*
55462463 CAGTGTCAAGACATGGAATTGTTAAGTTACTATAAGGAAAAGGTC
66 CAGTGTCAAGACATGGAATTGGTAAGTTACTATAAGGAAAAGGTC
* *
55462508 CCATGTAAGACCATGTCAAGACATGGC-ATTGGTGA-GTTCATAAGGAAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTCATAAGGAAAGGATACCATGTAAGA
55462571 CCA-TGTCAAGACATGGCAA-TGGTAAGTT
66 -CAGTGTCAAGACATGG-AATTGGTAAGTT
55462599 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
108 47 0.57
109 11 0.13
110 24 0.29
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTCATAAGGAAAGGATACCATGTAAGA
CAGTGTCAAGACATGGAATTGGTAAGTTACTATAAGGAAAAGGTC
Found at i:55467436 original size:40 final size:40
Alignment explanation
Indices: 55467381--55467598 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
55467371 CGGATGATAA
* *
55467381 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
55467421 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
55467461 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
55467501 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
55467541 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
55467581 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
55467599 TACTCGGTTT
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.10
40 150 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Done.