Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 250 of 410
Found at i:77284085 original size:40 final size:40
Alignment explanation
Indices: 77284040--77284169 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
77284030 CGGAATACAA
77284040 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
77284080 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
77284120 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
77284160 CCGGATATAA
1 CCGGATATAA
77284170 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:77284184 original size:40 final size:40
Alignment explanation
Indices: 77284040--77284203 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
77284030 CGGAATACAA
* **
77284040 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
77284080 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
77284120 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
77284160 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
77284200 CCGG
1 CCGG
77284204 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:77290292 original size:41 final size:41
Alignment explanation
Indices: 77290235--77290317 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
77290225 TTTAAACATC
* **
77290235 TTAAATGTGTGTCTTAAATACTGTACTTTAATTATGTGTCT
1 TTAAATGCGTGTCTTAAATACTACACTTTAATTATGTGTCT
77290276 TTAAATGCGTGTCTTAAATACTACACTTTAATTATGTGTCT
1 TTAAATGCGTGTCTTAAATACTACACTTTAATTATGTGTCT
77290317 T
1 T
77290318 AGTTTTTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (41 bp):
TTAAATGCGTGTCTTAAATACTACACTTTAATTATGTGTCT
Found at i:77298827 original size:23 final size:23
Alignment explanation
Indices: 77298800--77298844 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
77298790 TTTTAAAATT
77298800 ATAAA-TTAATAATTATTATTATC
1 ATAAATTTAATAA-TATTATTATC
*
77298823 ATAAATTTATTAATATTATTAT
1 ATAAATTTAATAATATTATTAT
77298845 TATTTCTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATAAATTTAATAATATTATTATC
Found at i:77299365 original size:24 final size:24
Alignment explanation
Indices: 77299318--77299366 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
77299308 TATCATAAAT
* *
77299318 AATATATTATAATAAGAAATTATA
1 AATATATTATAATAAAAAAATATA
77299342 AATATATTA-AATCAAAAAAATATA
1 AATATATTATAAT-AAAAAAATATA
77299366 A
1 A
77299367 TAACCTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AATATATTATAATAAAAAAATATA
Found at i:77300278 original size:19 final size:19
Alignment explanation
Indices: 77300234--77300284 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
77300224 TAATAAATCA
*
77300234 TATAAAA-AT-AAAATTAT
1 TATAAAATATAAAAATAAT
*
77300251 TAATTAAATATAAAAATAAT
1 T-ATAAAATATAAAAATAAT
*
77300271 TATAAAATTTAAAA
1 TATAAAATATAAAA
77300285 TGATTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 13 0.48
20 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TATAAAATATAAAAATAAT
Found at i:77301074 original size:3 final size:3
Alignment explanation
Indices: 77301066--77301101 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
77301056 GTTAGCTAGC
77301066 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
77301102 AAGAATCTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:77302110 original size:14 final size:15
Alignment explanation
Indices: 77302093--77302121 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
77302083 GAAATTAATC
77302093 AAATTAAAT-TATAA
1 AAATTAAATCTATAA
77302107 AAATTAAATCTATAA
1 AAATTAAATCTATAA
77302122 CTTTCGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTAAATCTATAA
Found at i:77302504 original size:28 final size:29
Alignment explanation
Indices: 77302458--77302533 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
77302448 ATTAATTAAT
*
77302458 TTTTTTAAAATTTAAAAATATTTTTAT-AC
1 TTTTTTAAAATTT-AAAATATTTTTATAAA
77302487 TTTTTTAATAATTT-AAATATTTTTATAAA
1 TTTTTTAA-AATTTAAAATATTTTTATAAA
77302516 TTTTTTAAAATTTTAAAA
1 TTTTTTAAAA-TTTAAAA
77302534 ATTAACCAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
28 14 0.33
29 20 0.48
30 8 0.19
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTTTAAAATTTAAAATATTTTTATAAA
Found at i:77303160 original size:28 final size:28
Alignment explanation
Indices: 77303120--77303186 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
77303110 ATCTTTATCT
*
77303120 TCAACATTTTACTTTTATTTATATAAAA
1 TCAATATTTTACTTTTATTTATATAAAA
77303148 TCAATATTTTACTTTTATTTATATAAAA
1 TCAATATTTTACTTTTATTTATATAAAA
*
77303176 TCAATTTTTTA
1 TCAATATTTTA
77303187 TTACATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (28 bp):
TCAATATTTTACTTTTATTTATATAAAA
Found at i:77315676 original size:17 final size:18
Alignment explanation
Indices: 77315645--77315678 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
77315635 CGTGTCGTCA
77315645 GCCCGTATGGGCCCACAC
1 GCCCGTATGGGCCCACAC
77315663 GCCCGTAT-GGCCCACA
1 GCCCGTATGGGCCCACA
77315679 TGTCCCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.18, C:0.44, G:0.26, T:0.12
Consensus pattern (18 bp):
GCCCGTATGGGCCCACAC
Found at i:77320523 original size:19 final size:20
Alignment explanation
Indices: 77320494--77320532 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
77320484 TAGATTTGAA
77320494 ATTCTTAGAAAATAAAATTT
1 ATTCTTAGAAAATAAAATTT
77320514 ATTC-TAGAAAATAAAATTT
1 ATTCTTAGAAAATAAAATTT
77320533 CACTACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTCTTAGAAAATAAAATTT
Found at i:77327106 original size:20 final size:20
Alignment explanation
Indices: 77327077--77327117 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
77327067 ATGTTTTTCA
77327077 CATTCGTCTACTCTT-CTTCC
1 CATTCGTCTACT-TTGCTTCC
*
77327097 CATTCTTCTACTTTGCTTCC
1 CATTCGTCTACTTTGCTTCC
77327117 C
1 C
77327118 GTTCCCTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.10, C:0.39, G:0.05, T:0.46
Consensus pattern (20 bp):
CATTCGTCTACTTTGCTTCC
Found at i:77331788 original size:2 final size:2
Alignment explanation
Indices: 77331781--77331830 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
77331771 AGAGTCCCTC
77331781 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
77331823 TA TA TA TA
1 TA TA TA TA
77331831 AGAAAAACTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77338241 original size:26 final size:26
Alignment explanation
Indices: 77338212--77338319 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
77338202 TGATACAAAT
77338212 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
77338238 TGATGATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77338264 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
77338290 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77338316 TGAT
1 TGAT
77338320 TGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:77344599 original size:33 final size:33
Alignment explanation
Indices: 77344562--77344629 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
77344552 TGTTGATTAC
77344562 TATACTTAGTTTTGACCTAATATGTTTTGTTAA
1 TATACTTAGTTTTGACCTAATATGTTTTGTTAA
77344595 TATACTTAGTTTTGACCTAATATGTTTTGTTAA
1 TATACTTAGTTTTGACCTAATATGTTTTGTTAA
77344628 TA
1 TA
77344630 ATGATTCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (33 bp):
TATACTTAGTTTTGACCTAATATGTTTTGTTAA
Found at i:77344617 original size:20 final size:20
Alignment explanation
Indices: 77344562--77344617 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 20
77344552 TGTTGATTAC
77344562 TATACTTAGTTTTGACCT-A
1 TATACTTAGTTTTGACCTAA
*
77344581 -ATA--T-GTTTTG--TTAA
1 TATACTTAGTTTTGACCTAA
77344595 TATACTTAGTTTTGACCTAA
1 TATACTTAGTTTTGACCTAA
77344615 TAT
1 TAT
77344618 GTTTTGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 13
0.65 0.05 0.30
Matches are distributed among these distances:
13 1 0.04
14 1 0.04
15 9 0.32
16 1 0.04
17 1 0.04
18 9 0.32
20 6 0.21
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (20 bp):
TATACTTAGTTTTGACCTAA
Found at i:77344996 original size:24 final size:24
Alignment explanation
Indices: 77344969--77345016 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
77344959 TTTTAAAATG
77344969 TCGTAATGCACTTAACCTTTTTAT
1 TCGTAATGCACTTAACCTTTTTAT
77344993 TCGTAATGCACTTAACCTTTTTAT
1 TCGTAATGCACTTAACCTTTTTAT
77345017 AACATGTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (24 bp):
TCGTAATGCACTTAACCTTTTTAT
Found at i:77347948 original size:6 final size:6
Alignment explanation
Indices: 77347930--77348019 Score: 69
Period size: 6 Copynumber: 14.7 Consensus size: 6
77347920 AAGAAACATT
* *
77347930 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAAA ATCAGA ATCAG- ATGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
77347979 ATTAGA ATCAGA ATCAGT ATCAAGTA A-CAGA ATCAAA ATCA
1 ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCA
77348020 TAATGTGAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 5 0.07
6 54 0.78
7 7 0.10
8 3 0.04
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:77348019 original size:31 final size:31
Alignment explanation
Indices: 77347944--77348019 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
77347934 GAACTAGAAT
*
77347944 CAGAATCAAAATCAAAATCAGAATCAGATGA
1 CAGAATCAAAATCAAAATCAGAATCAGATAA
* * * *
77347975 CAGAATTAGAATCAGAATCAGTATCA-AGTAA
1 CAGAATCAAAATCAAAATCAGAATCAGA-TAA
77348006 CAGAATCAAAATCA
1 CAGAATCAAAATCA
77348020 TAATGTGAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
30 1 0.03
31 36 0.97
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (31 bp):
CAGAATCAAAATCAAAATCAGAATCAGATAA
Found at i:77348190 original size:27 final size:26
Alignment explanation
Indices: 77348142--77348201 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
77348132 GCGAGGCTGC
*
77348142 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
77348169 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
77348195 CAGATAT
1 CAGATAT
77348202 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:77348499 original size:27 final size:27
Alignment explanation
Indices: 77348469--77348639 Score: 145
Period size: 27 Copynumber: 6.3 Consensus size: 27
77348459 TGGGTAAAAT
* *
77348469 GGTAATTTTACCCTATAAAGGTATCTC
1 GGTAATTTTACCCTACAAAGGTATTTC
* *
77348496 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAAGGTATTTC
* * * * *
77348523 AGTAATTCTACCATA-TAGGGATATTTC
1 GGTAATTTTACCCTACAAAGG-TATTTC
77348550 GGT-ATTTCTACCCTAC-AAGAGTATTTC
1 GGTAATTT-TACCCTACAAAG-GTATTTC
**
77348577 AAT-ATTTCTACCCTACAAAGGTATTTC
1 GGTAATTT-TACCCTACAAAGGTATTTC
* *
77348604 GGT-ATTTCTACCCTACAATGGTATTTT
1 GGTAATTT-TACCCTACAAAGGTATTTC
77348631 GGTAATTTT
1 GGTAATTTT
77348640 GTAAATCGAG
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.06
27 106 0.88
28 8 0.07
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAAGGTATTTC
Found at i:77348552 original size:54 final size:54
Alignment explanation
Indices: 77348471--77348629 Score: 194
Period size: 54 Copynumber: 2.9 Consensus size: 54
77348461 GGTAAAATGG
* * * * * *
77348471 TAATTTTACCCTATAAAGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCATACAAAGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAA
* * *
77348525 TAATTCTACCATA-TAGGGATATTTCGGTATTTCTACCCTACAAGAGTATTTCAA
1 TAATTCTACCATACAAAGG-TATTTCGGTATTTCTACCCTACAAGGGTATTTCAA
* * *
77348579 TATTTCTACCCTACAAAGGTATTTCGGTATTTCTACCCTACAATGGTATTT
1 TAATTCTACCATACAAAGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
77348630 TGGTAATTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 3 0.03
54 83 0.93
55 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (54 bp):
TAATTCTACCATACAAAGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAA
Found at i:77348653 original size:27 final size:27
Alignment explanation
Indices: 77348623--77348908 Score: 229
Period size: 27 Copynumber: 10.6 Consensus size: 27
77348613 ACCCTACAAT
** *
77348623 GGTATTTTGGTAATTTTGTAAATCGAG
1 GGTATTTTGGTAATTTTACAAATCAAG
**** * * *
77348650 GGTAAAACGATAATTCTATAAATC-AG
1 GGTATTTTGGTAATTTTACAAATCAAG
* *
77348676 AGGTATTTTGGTAATTTTACAAGTCGAG
1 -GGTATTTTGGTAATTTTACAAATCAAG
*** ** *
77348704 GGTATTTCAATAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACAAATCAAG
** * * *
77348731 GGTATTTCAGTAATTTCACAAATTAGG
1 GGTATTTTGGTAATTTTACAAATCAAG
77348758 GGTATTTTGGTAATTTTACAAA-CTAAG
1 GGTATTTTGGTAATTTTACAAATC-AAG
*
77348785 GGTATTTTGGTAATTTTATAAA-CAAAG
1 GGTATTTTGGTAATTTTACAAATC-AAG
* * *
77348812 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATCAAG
** *
77348839 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCAAG
*
77348866 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAATC-AAG
77348893 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
77348909 GATAAACTAA
Statistics
Matches: 211, Mismatches: 43, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.01
27 205 0.97
28 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCAAG
Found at i:77348896 original size:81 final size:81
Alignment explanation
Indices: 77348677--77348908 Score: 268
Period size: 81 Copynumber: 2.9 Consensus size: 81
77348667 ATAAATCAGA
** * *** ** * *
77348677 GGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTC-GAGGGTATTTCAG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACA-AACAAAGGGTATTTTAG
**
77348741 TAATTTCACAAATTAGG
65 TAATTTCACAAACCAGG
* *
77348758 GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGT
*
77348823 AATTTTACAAACCAGG
66 AATTTCACAAACCAGG
** * * *
77348839 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGT
77348904 AATTT
66 AATTT
77348909 GATAAACTAA
Statistics
Matches: 128, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
80 1 0.01
81 127 0.99
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGT
AATTTCACAAACCAGG
Found at i:77348915 original size:27 final size:27
Alignment explanation
Indices: 77348677--77348918 Score: 236
Period size: 27 Copynumber: 9.0 Consensus size: 27
77348667 ATAAATCAGA
* *
77348677 GGTATTTTGGTAATTTTAC-AAGTCGAG
1 GGTATTTTGGTAATTTTACAAACT-AAG
*** ** *
77348704 GGTATTTCAATAATTTTAC-AGGTCGAG
1 GGTATTTTGGTAATTTTACAAACT-AAG
** * * *
77348731 GGTATTTCAGTAATTTCACAAATTAGG
1 GGTATTTTGGTAATTTTACAAACTAAG
77348758 GGTATTTTGGTAATTTTACAAACTAAG
1 GGTATTTTGGTAATTTTACAAACTAAG
* *
77348785 GGTATTTTGGTAATTTTATAAACAAAG
1 GGTATTTTGGTAATTTTACAAACTAAG
* * *
77348812 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACTAAG
** *
77348839 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAAG
*
77348866 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAAG
* *
77348893 GGTATTTTGGTAATTTGATAAACTAA
1 GGTATTTTGGTAATTTTACAAACTAA
77348919 AGTATTCTAA
Statistics
Matches: 182, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 180 0.99
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAAG
Found at i:77350974 original size:21 final size:23
Alignment explanation
Indices: 77350949--77350990 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
77350939 TAAATAACAT
*
77350949 CACATT-GAATA-ATGAATTTAA
1 CACATTCGAATAGATCAATTTAA
77350970 CACATTCGAATAGATCAATTT
1 CACATTCGAATAGATCAATTT
77350991 TAAGCTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (23 bp):
CACATTCGAATAGATCAATTTAA
Found at i:77355825 original size:146 final size:149
Alignment explanation
Indices: 77355539--77355838 Score: 480
Period size: 146 Copynumber: 2.0 Consensus size: 149
77355529 GAATCATCCC
* *
77355539 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTACCAAACGTATCAATG
*
77355604 TCCGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAATTTTTTCTTTGAAGAACGTAAAATT
66 T---CTACCATAT--AATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
77355669 CAAGCCTAAAATCAGTGAAATCAA
126 CAAGCCTAAAATCAGTGAAATCAA
*
77355693 CATTCTGCAGAATATAAGATAAAATAAAAACTATACACCACAGAATGCTACCAAACGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTACCAAACGTATCAATG
**
77355758 T-TTGC-TAT-ATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAAGC
66 TCTACCATATAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAAGC
77355820 CTAAAATCAGTGAAATCAA
131 CTAAAATCAGTGAAATCAA
77355839 TCTATCTTAC
Statistics
Matches: 140, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
146 72 0.51
149 3 0.02
150 2 0.01
154 63 0.45
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (149 bp):
CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTACCAAACGTATCAATG
TCTACCATATAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAAGC
CTAAAATCAGTGAAATCAA
Found at i:77356779 original size:26 final size:26
Alignment explanation
Indices: 77356726--77356781 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
77356716 TATTGTTTAA
*
77356726 TTTTTTTTTTTTTTCATTTCTAACAT
1 TTTTTTTTTTTTTTCATTTCTAAAAT
77356752 TTTTTTTTAGTTTTTTC-TTTC-AAAAT
1 TTTTTTTT--TTTTTTCATTTCTAAAAT
77356778 TTTT
1 TTTT
77356782 GTGCTGAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 16 0.59
27 4 0.15
28 7 0.26
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (26 bp):
TTTTTTTTTTTTTTCATTTCTAAAAT
Found at i:77356878 original size:8 final size:8
Alignment explanation
Indices: 77356867--77356932 Score: 80
Period size: 8 Copynumber: 7.9 Consensus size: 8
77356857 ATATTAAATA
77356867 TTAAATTT
1 TTAAATTT
*
77356875 TTAAGTTT
1 TTAAATTT
77356883 TT-AATTT
1 TTAAATTT
77356890 TTAAATTT
1 TTAAATTT
77356898 TTAAATTTT
1 TTAAA-TTT
77356907 TTGAAGATTT
1 TT-AA-ATTT
77356917 TTATAATTT
1 TTA-AATTT
77356926 TTAAATT
1 TTAAATT
77356933 AACATATAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
7 6 0.12
8 23 0.45
9 13 0.25
10 8 0.16
11 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (8 bp):
TTAAATTT
Found at i:77356878 original size:15 final size:15
Alignment explanation
Indices: 77356860--77356932 Score: 65
Period size: 15 Copynumber: 4.5 Consensus size: 15
77356850 AACTAAAATA
*
77356860 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* *
77356875 TTAAGTTTTTAATTT
1 TTAAATTTTAAATTT
77356890 TTAAATTTTTAAATTTT
1 TTAAA-TTTTAAA-TTT
77356907 TTGAAGATTTTTATAATTT
1 TT-AA-A-TTTTA-AATTT
77356926 TTAAATT
1 TTAAATT
77356933 AACATATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
15 16 0.33
16 8 0.17
17 6 0.12
18 4 0.08
19 12 0.25
20 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:77357113 original size:28 final size:27
Alignment explanation
Indices: 77357076--77357149 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
77357066 AAATTTATTT
*
77357076 TTATATTTTAGGGTTTATGATTTATGA
1 TTATAGTTTAGGGTTTATGATTTATGA
*
77357103 GTTATAGTTTAGGGTTTGTGATTTATGA
1 -TTATAGTTTAGGGTTTATGATTTATGA
*
77357131 TCTACAGTTTATGGGTTTA
1 T-TATAGTTTA-GGGTTTA
77357150 AAAATTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.03
28 33 0.82
29 6 0.15
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (27 bp):
TTATAGTTTAGGGTTTATGATTTATGA
Found at i:77357184 original size:14 final size:15
Alignment explanation
Indices: 77357167--77357207 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
77357157 ATTTTAGGGC
77357167 TTGGGGTTTAAAGG-
1 TTGGGGTTTAAAGGT
**
77357181 TTGGGGTTT-GGGGT
1 TTGGGGTTTAAAGGT
77357195 TTGGGGTTTAAAG
1 TTGGGGTTTAAAG
77357208 ATTAAAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 2 0.10
14 18 0.86
15 1 0.05
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.39
Consensus pattern (15 bp):
TTGGGGTTTAAAGGT
Found at i:77357217 original size:28 final size:27
Alignment explanation
Indices: 77357143--77357217 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
77357133 TACAGTTTAT
* *
77357143 GGGTTTAAAAATTAATTTTAGGGCTTG
1 GGGTTTAAAGATTAAGTTTAGGGCTTG
* ** * *
77357170 GGGTTTAAAGGTTGGGGTTTGGGGTTTG
1 GGGTTTAAAGATT-AAGTTTAGGGCTTG
77357198 GGGTTTAAAGATTAAAGTTT
1 GGGTTTAAAGATT-AAGTTT
77357218 TAAGGGTTTA
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
27 11 0.31
28 25 0.69
ACGTcount: A:0.24, C:0.01, G:0.35, T:0.40
Consensus pattern (27 bp):
GGGTTTAAAGATTAAGTTTAGGGCTTG
Found at i:77357241 original size:22 final size:22
Alignment explanation
Indices: 77357216--77357310 Score: 83
Period size: 21 Copynumber: 4.4 Consensus size: 22
77357206 AGATTAAAGT
77357216 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
* * *
77357238 TTT-AGGGTTTAAGGTGTTGGGA
1 TTTAAGGGTTTATGAT-TTGAGA
* *
77357260 -TTAA-GGTTTATCG-TTTATAGT
1 TTTAAGGGTTTAT-GATTT-GAGA
77357281 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
77357303 TTT-AGGGT
1 TTTAAGGGT
77357311 CTGGTGTTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.04
21 25 0.44
22 20 0.35
23 10 0.18
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.46
Consensus pattern (22 bp):
TTTAAGGGTTTATGATTTGAGA
Found at i:77358088 original size:41 final size:40
Alignment explanation
Indices: 77358001--77358167 Score: 221
Period size: 40 Copynumber: 4.1 Consensus size: 40
77357991 AATTTTTCTT
77358001 AATCTTTTAGCGGCG-TTT-TTAAAAAAGCGCCGCTAATGCTC
1 AATC-TTTAGCGGCGCTTTCTT-AAAAA-CGCCGCTAATGCTC
* *
77358042 AATCTTTAGCGGCGCTTTCTTAAAGACGCTGCTAATGCTC
1 AATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTC
* * *
77358082 AGATCTTTAGCGGCGCTTTTTTAAAAACGCCACTGATGCTC
1 A-ATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTC
* *
77358123 GATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATACTC
1 AATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTC
77358163 AATCT
1 AATCT
77358168 ATTCAATTTT
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
40 63 0.57
41 45 0.41
42 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (40 bp):
AATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTC
Found at i:77358138 original size:81 final size:80
Alignment explanation
Indices: 77358001--77358167 Score: 237
Period size: 81 Copynumber: 2.1 Consensus size: 80
77357991 AATTTTTCTT
*
77358001 AATCTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAATCTTTAGCGGCGCTTTCTTAAA
1 AATC-TTTAGCGGCGTTTTTAAAAAAGCGCCACTAATGCTCAATCTTTAGCGGCGCTTTCTTAAA
* * *
77358066 GACGCTGCTAATGCTC
65 AACGCCGCTAATACTC
* * *
77358082 AGATCTTTAGCGGCGCTTTTTTAAAAA-CGCCACTGATGCTCGATCTTTAGCGGCGCTTTCTTAA
1 A-ATCTTTAGCGGCG-TTTTTAAAAAAGCGCCACTAATGCTCAATCTTTAGCGGCGCTTTCTTAA
77358146 AAACGCCGCTAATACTC
64 AAACGCCGCTAATACTC
77358163 AATCT
1 AATCT
77358168 ATTCAATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
80 4 0.05
81 60 0.78
82 13 0.17
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (80 bp):
AATCTTTAGCGGCGTTTTTAAAAAAGCGCCACTAATGCTCAATCTTTAGCGGCGCTTTCTTAAAA
ACGCCGCTAATACTC
Found at i:77361065 original size:14 final size:14
Alignment explanation
Indices: 77361046--77361088 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
77361036 TCAAAGGGAT
77361046 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
*
77361060 GGAGATTTAGAGAT
1 GGAGATTTAGAGAA
77361074 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
77361088 G
1 G
77361089 CAGGAAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (14 bp):
GGAGATTTAGAGAA
Found at i:77361175 original size:14 final size:14
Alignment explanation
Indices: 77361156--77361183 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
77361146 TGGTGGAAGA
77361156 ATTTCGATTTGGGG
1 ATTTCGATTTGGGG
77361170 ATTTCGATTTGGGG
1 ATTTCGATTTGGGG
77361184 GAAATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.36, T:0.43
Consensus pattern (14 bp):
ATTTCGATTTGGGG
Found at i:77362617 original size:23 final size:21
Alignment explanation
Indices: 77362582--77362629 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
77362572 CTAAACCCCT
*
77362582 AACCCCTAACCTTTTGAATCATA
1 AACCCCTAACC--TTGAACCATA
77362605 AACCCC-AACCCTTGAACCATA
1 AACCCCTAA-CCTTGAACCATA
77362626 AACC
1 AACC
77362630 ATAATCCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 13 0.57
22 2 0.09
23 8 0.35
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.21
Consensus pattern (21 bp):
AACCCCTAACCTTGAACCATA
Found at i:77362942 original size:25 final size:25
Alignment explanation
Indices: 77362914--77362964 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
77362904 TTTCTAAAAA
*
77362914 GTGCAGCTAATGCTCGATCTATAGC
1 GTGCAGCTAATGCTCGAGCTATAGC
* * *
77362939 GTGCCGCTAGTGCTCTAGCTATAGC
1 GTGCAGCTAATGCTCGAGCTATAGC
77362964 G
1 G
77362965 GCGTTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (25 bp):
GTGCAGCTAATGCTCGAGCTATAGC
Found at i:77363026 original size:39 final size:40
Alignment explanation
Indices: 77362941--77363042 Score: 118
Period size: 39 Copynumber: 2.6 Consensus size: 40
77362931 TCTATAGCGT
* *
77362941 GCCGCTAGTGCTCTAGCTATAGCGGCGTTTTTTAAAAAGC
1 GCCGCTAGTGCTCGACCTATAGCGGCGTTTTTTAAAAAGC
** *
77362981 ATCGCTAGTGATCGACCTATAGC-G-GTATTTTTAAAAAGC
1 GCCGCTAGTGCTCGACCTATAGCGGCGT-TTTTTAAAAAGC
* *
77363020 GCCGCTAATGCTCGATCTATAGC
1 GCCGCTAGTGCTCGACCTATAGC
77363043 AATTTTTTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
38 2 0.04
39 31 0.61
40 18 0.35
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (40 bp):
GCCGCTAGTGCTCGACCTATAGCGGCGTTTTTTAAAAAGC
Found at i:77363051 original size:39 final size:39
Alignment explanation
Indices: 77362968--77363051 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 39
77362958 TATAGCGGCG
* * **
77362968 TTTTTTAAAAAGCATCGCTAGTGATCGACCTATAGCGGT
1 TTTTTTAAAAAGCACCGCTAATGATCGACCTATAGCAAT
* * * *
77363007 ATTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCAAT
1 TTTTTTAAAAAGCACCGCTAATGATCGACCTATAGCAAT
77363046 TTTTTT
1 TTTTTT
77363052 TATCCAAACG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (39 bp):
TTTTTTAAAAAGCACCGCTAATGATCGACCTATAGCAAT
Found at i:77367747 original size:18 final size:19
Alignment explanation
Indices: 77367712--77367752 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
77367702 ATTAAATAGT
*
77367712 TCGAGTTATTTGAGTTAA-
1 TCGAGTTATTAGAGTTAAC
77367730 TCGAGTTATTCAGA-TTAAC
1 TCGAGTTATT-AGAGTTAAC
77367749 TCGA
1 TCGA
77367753 ATAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (19 bp):
TCGAGTTATTAGAGTTAAC
Found at i:77368346 original size:33 final size:33
Alignment explanation
Indices: 77368304--77368404 Score: 202
Period size: 33 Copynumber: 3.1 Consensus size: 33
77368294 TAGTTAAGTA
77368304 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
1 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
77368337 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
1 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
77368370 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
1 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
77368403 TG
1 TG
77368405 GCAGCTGCAG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.24, C:0.09, G:0.31, T:0.37
Consensus pattern (33 bp):
TGATTGAGAGGCATGATGATTGGCTTATTTCAG
Found at i:77379168 original size:18 final size:18
Alignment explanation
Indices: 77379128--77379170 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
77379118 GAATATTGTA
*
77379128 ATAATAATAATCATCATT
1 ATAATAATAATCATCAAT
*
77379146 ATAATAATAA-CATTAAT
1 ATAATAATAATCATCAAT
77379163 ATTAATAA
1 A-TAATAA
77379171 CCATATCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATAATAATCATCAAT
Found at i:77379279 original size:19 final size:19
Alignment explanation
Indices: 77379257--77379297 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
77379247 AATATGACAT
77379257 GAAAAT-ATAAAAATAATAA
1 GAAAATAAT-AAAATAATAA
*
77379276 G-AAATAATAAAATAATGA
1 GAAAATAATAAAATAATAA
77379294 GAAA
1 GAAA
77379298 GAAAAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.20
Consensus pattern (19 bp):
GAAAATAATAAAATAATAA
Found at i:77381347 original size:13 final size:13
Alignment explanation
Indices: 77381329--77381355 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77381319 TTCAGGGAGA
77381329 TAAAGTTTGTAGC
1 TAAAGTTTGTAGC
77381342 TAAAGTTTGTAGC
1 TAAAGTTTGTAGC
77381355 T
1 T
77381356 TTAATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TAAAGTTTGTAGC
Found at i:77381422 original size:45 final size:44
Alignment explanation
Indices: 77381347--77381664 Score: 264
Period size: 45 Copynumber: 7.1 Consensus size: 44
77381337 GTAGCTAAAG
* *
77381347 TTTGTAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGA
1 TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * * *
77381391 TTTGCTATCTTCAATCTACTCCATTGCAACTTTAGGGAGATAAAA
1 TTTG-TATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * ** * *
77381436 TTTGTTATTTTTAACCTGTTCCACTACAACTTCA-AGGAGATAAGG
1 TTTG-TATCTTTAATCTACTCCACTGCAACTTCAGA-GAGATAAGA
* * * * ** * *
77381481 TTTGTAGCTTTAATATGCTCTACTGCTGCTTTAGAGAGACAAGA
1 TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * *
77381525 TTTGCTAT-TTACAATCTACTCCACTGCAAATTCAGGGAGATAATA
1 TTTG-TATCTT-TAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * *
77381570 TTTGTTATTTTTAA-CTTGCTCCACTGCAACTTCAGAAAGATAAGG
1 TTTG-TATCTTTAATC-TACTCCACTGCAACTTCAGAGAGATAAGA
** *
77381615 TTTGTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGA
1 TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
77381659 TTTGTA
1 TTTGTA
77381665 GCCTGTAGCT
Statistics
Matches: 207, Mismatches: 59, Indels: 16
0.73 0.21 0.06
Matches are distributed among these distances:
44 73 0.35
45 132 0.64
46 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (44 bp):
TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
Found at i:77381574 original size:89 final size:87
Alignment explanation
Indices: 77381355--77381666 Score: 243
Period size: 89 Copynumber: 3.5 Consensus size: 87
77381345 AGTTTGTAGC
* * * * * *
77381355 TTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAA-TCTACTCCATTGCA
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAACT-TGCTCCACTGCA
* ** * * *
77381419 ACTTTAGGGAGATAAAATTTGTTA
64 ACTTCAGAAAGACAAGATTTGTGA
* ** * * * *
77381443 TTTTTAACCTGTTCCACTACAACTTCAAGGAGATAAGGTTTGTAGCTTTAA-TATGCTCTACTGC
1 --TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAACT-TGCTCCACTGC
** * *
77381507 TGCTTTAGAGAGACAAGATTTGCT-A
63 AACTTCAGAAAGACAAGATTTG-TGA
* * **
77381532 TTTACAATCTACTCCACTGCAAATTCAGGGAGATAATATTTGTTATTTTTAACTTGCTCCACTGC
1 TTT--AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAACTTGCTCCACTGC
* * *
77381597 AACTTCAGAAAGATAAGGTTTGTGGC
63 AACTTCAGAAAGACAAGATTTGT-GA
77381623 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
77381667 CTGTAGCTTT
Statistics
Matches: 174, Mismatches: 41, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
87 3 0.02
88 2 0.01
89 99 0.57
90 66 0.38
91 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (87 bp):
TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAACTTGCTCCACTGCAAC
TTCAGAAAGACAAGATTTGTGA
Found at i:77381593 original size:134 final size:134
Alignment explanation
Indices: 77381346--77381662 Score: 431
Period size: 134 Copynumber: 2.4 Consensus size: 134
77381336 TGTAGCTAAA
* *
77381346 GTTTGTAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACT
1 GTTTGTAGCTTTAATATACTCTACTGCAACTTCAGAGAGACAAGATTTGCTATCTTCAATCTACT
* * * * *
77381411 CCATTGCAACTTTAGGGAGATAAAATTTGTTATTTTTAACCTGTTCCACTACAACTTCA-AGGAG
66 CCACTGCAAATTCAGGGAGATAAAATTTGTTATTTTTAACCTGCTCCACTACAACTTCAGA-AAG
77381475 ATAAG
130 ATAAG
* ** *
77381480 GTTTGTAGCTTTAATATGCTCTACTGCTGCTTTAGAGAGACAAGATTTGCTAT-TTACAATCTAC
1 GTTTGTAGCTTTAATATACTCTACTGCAACTTCAGAGAGACAAGATTTGCTATCTT-CAATCTAC
* * *
77381544 TCCACTGCAAATTCAGGGAGATAATATTTGTTATTTTTAACTTGCTCCACTGCAACTTCAGAAAG
65 TCCACTGCAAATTCAGGGAGATAAAATTTGTTATTTTTAACCTGCTCCACTACAACTTCAGAAAG
77381609 ATAAG
130 ATAAG
* * * * *
77381614 GTTTGTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG
1 GTTTGTAGCTTTAATATACTCTACTGCAACTTCAGAGAGACAAGATTTG
77381663 TAGCCTGTAG
Statistics
Matches: 158, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
133 2 0.01
134 155 0.98
135 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (134 bp):
GTTTGTAGCTTTAATATACTCTACTGCAACTTCAGAGAGACAAGATTTGCTATCTTCAATCTACT
CCACTGCAAATTCAGGGAGATAAAATTTGTTATTTTTAACCTGCTCCACTACAACTTCAGAAAGA
TAAG
Found at i:77381826 original size:94 final size:93
Alignment explanation
Indices: 77381728--77381898 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 93
77381718 GGTAGATTTG
* * * *
77381728 ATCCGACCTACTGCAACTTCAGAGGTATAGGACTTATCATTTCAATCTGCTCCACTGTAACTTCA
1 ATCCGACCCACTGCAACTTCAGAGGTATAGGACTTAT-AATTCAATCTACTCCACTGCAACTTCA
*
77381793 GGGAGATAAGATTCGCCATTATAACTTCA
65 CGGAGATAAGATTCGCCATTATAACTTCA
* * * * * * *
77381822 ATCCGTCCCATTGCAGCTTCAGAGGTATGGGATTTGTAATTCAATCTACTCTACTGCAACTTCAC
1 ATCCGACCCACTGCAACTTCAGAGGTATAGGACTTATAATTCAATCTACTCCACTGCAACTTCAC
77381887 GGAGATAAGATT
66 GGAGATAAGATT
77381899 TGTTATTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
93 35 0.54
94 30 0.46
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (93 bp):
ATCCGACCCACTGCAACTTCAGAGGTATAGGACTTATAATTCAATCTACTCCACTGCAACTTCAC
GGAGATAAGATTCGCCATTATAACTTCA
Found at i:77381899 original size:43 final size:42
Alignment explanation
Indices: 77381852--77381991 Score: 118
Period size: 48 Copynumber: 3.1 Consensus size: 42
77381842 AGAGGTATGG
* *
77381852 GATTTGTAATTCAATCTACTCTACTGCAACTTCACGGAGATAA
1 GATTTGTAATTCAATCTGCTCCACTGCAACTTCA-GGAGATAA
* * * *
77381895 GATTTGTTATTTTTTTTAACCTGCTCCAATGCAACTTCAGGGAGATAA
1 GATTTG-TA----ATTCAATCTGCTCCACTGCAACTTCA-GGAGATAA
* * * *
77381943 GGTTTGTGACTTCAATATGCTCCACTGCAACTTTAGGAGATAA
1 GATTTGT-AATTCAATCTGCTCCACTGCAACTTCAGGAGATAA
77381986 GATTTG
1 GATTTG
77381992 CCATAATGAT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 19 0.25
44 22 0.29
47 1 0.01
48 34 0.45
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (42 bp):
GATTTGTAATTCAATCTGCTCCACTGCAACTTCAGGAGATAA
Found at i:77387073 original size:43 final size:43
Alignment explanation
Indices: 77386947--77387110 Score: 149
Period size: 43 Copynumber: 3.8 Consensus size: 43
77386937 CGAAAAGCTC
* * * *
77386947 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGT-AATTAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
* * * *
77386989 ATATCGATGCC-ACTATCCTAGA-GAAGGTCTTACATG-AAATCAA
1 ATA-CGATGCCAAC-GTCCCAGACG-TGGTCTTACACGTAAATCAA
*
77387032 ATACGATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCATA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-A
* *
77387076 AGT-CGATGCCAACGTCCCAGACATGCTCTTACACG
1 A-TACGATGCCAACGTCCCAGACGTGGTCTTACACG
77387111 ATAACACATA
Statistics
Matches: 101, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
42 28 0.28
43 41 0.41
44 31 0.31
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
Found at i:77389828 original size:20 final size:20
Alignment explanation
Indices: 77389803--77389913 Score: 68
Period size: 21 Copynumber: 5.6 Consensus size: 20
77389793 CCCAAAATCT
*
77389803 GTGCTAACTAAAGCACATAA
1 GTGCTAACTGAAGCACATAA
* ***
77389823 GTGCTAAACGGAAGC-CCGGA
1 GTGCT-AACTGAAGCACATAA
77389843 G-GCTAACTGAAGCACATAA
1 GTGCTAACTGAAGCACATAA
* **
77389862 GTGCTAAACGGAAGC-CCGAA
1 GTGCT-AACTGAAGCACATAA
* *
77389882 G-GCTAACTGAAGCTCATCA
1 GTGCTAACTGAAGCACATAA
*
77389901 GAGCTGAACTGAA
1 GTGCT-AACTGAA
77389914 ACCCCAAAAG
Statistics
Matches: 68, Mismatches: 16, Indels: 13
0.70 0.16 0.13
Matches are distributed among these distances:
18 16 0.24
19 12 0.18
20 18 0.26
21 22 0.32
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (20 bp):
GTGCTAACTGAAGCACATAA
Found at i:77389848 original size:39 final size:39
Alignment explanation
Indices: 77389805--77389894 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 39
77389795 CAAAATCTGT
* *
77389805 GCTAACTAAAGCACATAAGTGCTAAACGGAAGCCCGGAG
1 GCTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAG
77389844 GCTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAG
1 GCTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAG
77389883 GCTAACTGAAGC
1 GCTAACTGAAGC
77389895 TCATCAGAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (39 bp):
GCTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAG
Found at i:77395505 original size:40 final size:40
Alignment explanation
Indices: 77395397--77395526 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 40
77395387 CGGAATATAA
*
77395397 CCGGATATAATC-ACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * * *
77395437 CCGGATAGAATAACTCGCACGAACGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
77395477 CCGGATATAGCCACTAGCAC-ATTTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACGA-ATGCCTTCGGGTCTTAGC
77395517 CCGGATATAA
1 CCGGATATAA
77395527 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.97
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:77398366 original size:37 final size:37
Alignment explanation
Indices: 77398307--77398415 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
77398297 AGCTCAGACG
* *
77398307 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
* *
77398344 AAATCTCCACACGTAGCCATCGGGTCTTACCCGGACA
1 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
*
77398381 TAATCTCCACATGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGA
77398416 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
Found at i:77398635 original size:46 final size:46
Alignment explanation
Indices: 77398567--77398837 Score: 138
Period size: 47 Copynumber: 5.8 Consensus size: 46
77398557 TATATATACA
* * *
77398567 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
77398613 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT-
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * * *
77398658 -AT-TCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCA--TACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* *
77398708 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-C
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* *
77398754 GCATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-C
1 -CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* *
77398801 GCATGT--T-CACATTCATCACATTGGCCATTCGGCCTTA
1 -CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA
77398838 TCACGCATAT
Statistics
Matches: 200, Mismatches: 15, Indels: 19
0.85 0.06 0.08
Matches are distributed among these distances:
43 3 0.01
44 2 0.01
45 4 0.02
46 40 0.20
47 140 0.70
48 2 0.01
49 6 0.03
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:77398693 original size:47 final size:47
Alignment explanation
Indices: 77398631--77399019 Score: 535
Period size: 47 Copynumber: 8.1 Consensus size: 47
77398621 ACACGTTTCG
* * * **
77398631 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
77398678 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
77398725 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
77398772 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
77398819 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
77398872 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
77398919 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
77398970 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
77399017 CAT
1 CAT
77399020 AAAATCCTAA
Statistics
Matches: 309, Mismatches: 23, Indels: 20
0.88 0.07 0.06
Matches are distributed among these distances:
47 222 0.72
49 1 0.00
51 44 0.14
53 42 0.14
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:77398898 original size:100 final size:98
Alignment explanation
Indices: 77398631--77399019 Score: 596
Period size: 94 Copynumber: 4.0 Consensus size: 98
77398621 ACACGTTTCG
* *
77398631 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * *
77398692 CCTTATCTCATATATGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
** *
77398725 CATTGGCCATTCGGCCTTATCACAC----ATACGCATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
77398786 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
*
77398819 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CACATATATATACAGGTTCACATTCATCACATTGGCCATTC
77398884 GGCCTTATCACACATACGCATGTTCACATTCATCA
64 GGCCTTATCACACATACGCATGTTCACATTCATCA
* *
77398919 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTAGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
77398984 CCTTATCACACATACGCATGTTCACATCCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
77399017 CAT
1 CAT
77399020 AAAATCCTAA
Statistics
Matches: 272, Mismatches: 13, Indels: 16
0.90 0.04 0.05
Matches are distributed among these distances:
92 2 0.01
94 101 0.37
95 1 0.00
96 5 0.02
98 75 0.28
100 88 0.32
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACACATACGCATGTTCACATTCATCA
Found at i:77406325 original size:29 final size:28
Alignment explanation
Indices: 77406290--77406393 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
77406280 ATAATCGATT
*
77406290 TCGCACACTTAGTGCCATGTGATTTAAGC
1 TCGCACACTTAGTGCCATAT-ATTTAAGC
* * *
77406319 TCGCACACATAGTGCCATACAATTTAAGT
1 TCGCACACTTAGTGCCATA-TATTTAAGC
77406348 TCGCACACTTAGTGCCATATATTTCAAGC
1 TCGCACACTTAGTGCCATATATTT-AAGC
*
77406377 TTGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
77406394 ATCTTGTCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATATATTTAAGC
Found at i:77427524 original size:23 final size:24
Alignment explanation
Indices: 77427480--77427535 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
77427470 TGAGTATTTA
*
77427480 AATGTATAT-ATTTAATTGAATTG
1 AATGTATATGATTTAATTAAATTG
*
77427503 AATGTATATGATTTGA-TAAATTG
1 AATGTATATGATTTAATTAAATTG
77427526 AAT-TAT-TGAT
1 AATGTATATGAT
77427536 CATTAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 18 0.60
24 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
AATGTATATGATTTAATTAAATTG
Found at i:77427754 original size:23 final size:24
Alignment explanation
Indices: 77427703--77427758 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
77427693 TCAGCTCGTA
* *
77427703 AGAGCTTACTGATTTCAGCTCATT
1 AGAGCTTACCGATTTCAGCTCAAT
* *
77427727 GGAGCTTACCG-TTTCAGCTTAAT
1 AGAGCTTACCGATTTCAGCTCAAT
77427750 AGAGCTTAC
1 AGAGCTTAC
77427759 TGCTCATTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (24 bp):
AGAGCTTACCGATTTCAGCTCAAT
Found at i:77427962 original size:20 final size:20
Alignment explanation
Indices: 77427939--77428049 Score: 125
Period size: 20 Copynumber: 5.5 Consensus size: 20
77427929 GTGTTTATAT
77427939 GGATGAATTACTGTTAATAC
1 GGATGAATTACTGTTAATAC
77427959 GGATGAATTACTGTTAATAC
1 GGATGAATTACTGTTAATAC
*
77427979 GGATGAATTACTGTTATTAC
1 GGATGAATTACTGTTAATAC
* * * * *
77427999 TGATAAACTACTATTTATAC
1 GGATGAATTACTGTTAATAC
* *
77428019 GGATGAACTACTGGTT-ATAT
1 GGATGAATTACT-GTTAATAC
*
77428039 GAATGAATTAC
1 GGATGAATTAC
77428050 AATTTATACG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 75 0.97
21 2 0.03
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (20 bp):
GGATGAATTACTGTTAATAC
Found at i:77427984 original size:40 final size:40
Alignment explanation
Indices: 77427930--77428059 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
77427920 AAAAGATATG
*
77427930 TGTTTATATGGATGAATTACTGTTAATACGGATGAATTAC
1 TGTTTATACGGATGAATTACTGTTAATACGGATGAATTAC
* * * * *
77427970 TGTTAATACGGATGAATTACTGTTATTACTGATAAACTAC
1 TGTTTATACGGATGAATTACTGTTAATACGGATGAATTAC
* * * *
77428010 TATTTATACGGATGAACTACTGGTT-ATATGAATGAATTAC
1 TGTTTATACGGATGAATTACT-GTTAATACGGATGAATTAC
**
77428050 AATTTATACG
1 TGTTTATACG
77428060 AATAGAAATG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 70 0.96
41 3 0.04
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (40 bp):
TGTTTATACGGATGAATTACTGTTAATACGGATGAATTAC
Found at i:77430118 original size:13 final size:14
Alignment explanation
Indices: 77430102--77430143 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
77430092 TTTCAATTTT
77430102 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
77430115 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
77430130 ATTTTAAATAATAT
1 ATTTT-AATAATAT
77430144 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:77430128 original size:16 final size:16
Alignment explanation
Indices: 77430106--77430142 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
77430096 AATTTTATTT
77430106 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
77430123 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
77430138 TAATA
1 TAATA
77430143 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:77430195 original size:15 final size:15
Alignment explanation
Indices: 77430175--77430231 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
77430165 ATTCAATATT
77430175 AATATTTTAATAATA
1 AATATTTTAATAATA
*
77430190 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
77430209 AATATATTAATAATA
1 AATATTTTAATAATA
*
77430224 AATGTTTT
1 AATATTTT
77430232 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:77430708 original size:14 final size:13
Alignment explanation
Indices: 77430689--77430727 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
77430679 CTAGAAAAGT
77430689 AAATCATTTTCCAG
1 AAATCATTTTCC-G
77430703 AAATCATTTTCCG
1 AAATCATTTTCCG
77430716 AAAGTCATTTTC
1 AAA-TCATTTTC
77430728 AGTGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:77434595 original size:2 final size:2
Alignment explanation
Indices: 77434588--77434655 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
77434578 TTTTCTTATA
77434588 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
77434630 AC AC AC AC AC AC AC AC AA AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
77434656 TCTAAAGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:77438835 original size:9 final size:10
Alignment explanation
Indices: 77438812--77438841 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
77438802 TTCACATCTT
77438812 TCTCTCAAGC
1 TCTCTCAAGC
77438822 TCTCTCAA-C
1 TCTCTCAAGC
77438831 TCTCTCAAGC
1 TCTCTCAAGC
77438841 T
1 T
77438842 TTTTATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.20, C:0.40, G:0.07, T:0.33
Consensus pattern (10 bp):
TCTCTCAAGC
Found at i:77441206 original size:36 final size:36
Alignment explanation
Indices: 77441166--77441238 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
77441156 GTTATACACA
*
77441166 GAAATCCTCCACACGACCGTTGTTCACCGCCTTGCG
1 GAAATCCTCCACACCACCGTTGTTCACCGCCTTGCG
* *
77441202 GAAATCCTCCACACCACCGTTGTTTATCGCCTTGCG
1 GAAATCCTCCACACCACCGTTGTTCACCGCCTTGCG
77441238 G
1 G
77441239 CACACATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.25
Consensus pattern (36 bp):
GAAATCCTCCACACCACCGTTGTTCACCGCCTTGCG
Found at i:77448124 original size:36 final size:36
Alignment explanation
Indices: 77448074--77448239 Score: 226
Period size: 36 Copynumber: 4.6 Consensus size: 36
77448064 GTACATCAAC
* * * *
77448074 AATCCAACCAAAACACACCAGATGCTCATTAGAGCT
1 AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
77448110 AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
1 AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
* * *
77448146 CATCCATCTGAAACACACCAAATGCTTATAAGAGCT
1 AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
**
77448182 AATCCATCCGAAACACACC-AATGGCTCCGAAGAGCT
1 AATCCATCCGAAACACACCAAAT-GCTCATAAGAGCT
*
77448218 AATCCAACCGAAACACACCAAA
1 AATCCATCCGAAACACACCAAA
77448240 ACAGAAAGTA
Statistics
Matches: 115, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
35 3 0.03
36 110 0.96
37 2 0.02
ACGTcount: A:0.42, C:0.31, G:0.11, T:0.16
Consensus pattern (36 bp):
AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
Found at i:77450371 original size:17 final size:18
Alignment explanation
Indices: 77450339--77450379 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
77450329 GGAACAGTTG
77450339 ATAA-CAATTTATATTCA
1 ATAATCAATTTATATTCA
*
77450356 ATAATCAATTTA-ATTCC
1 ATAATCAATTTATATTCA
77450373 ATAATCA
1 ATAATCA
77450380 TAAGTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATCAATTTATATTCA
Found at i:77450593 original size:19 final size:19
Alignment explanation
Indices: 77450543--77450593 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
77450533 GGCTGTTTGT
* *
77450543 CCAGGCCGTGTGATAGAGC
1 CCAGCCCGTGTGGTAGAGC
77450562 CCAGCCCGTGTGGTAGAGC
1 CCAGCCCGTGTGGTAGAGC
* *
77450581 CTAGCCCTTGTGG
1 CCAGCCCGTGTGG
77450594 CTCTAACATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.16, C:0.29, G:0.35, T:0.20
Consensus pattern (19 bp):
CCAGCCCGTGTGGTAGAGC
Found at i:77451671 original size:15 final size:14
Alignment explanation
Indices: 77451651--77451701 Score: 61
Period size: 13 Copynumber: 3.7 Consensus size: 14
77451641 TTAGTATATA
77451651 AATATTCAATAAGAG
1 AATATT-AATAAGAG
77451666 AATATTAATAA-AG
1 AATATTAATAAGAG
*
77451679 AATATTAA-CAGAG
1 AATATTAATAAGAG
*
77451692 AATATAAATA
1 AATATTAATA
77451702 CTATTAGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 1 0.03
13 19 0.61
14 5 0.16
15 6 0.19
ACGTcount: A:0.59, C:0.04, G:0.10, T:0.27
Consensus pattern (14 bp):
AATATTAATAAGAG
Found at i:77451720 original size:34 final size:34
Alignment explanation
Indices: 77451682--77451750 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
77451672 AATAAAGAAT
77451682 ATTAACAGAGAATATAAATACTATTAGAAGCATA
1 ATTAACAGAGAATATAAATACTATTAGAAGCATA
77451716 ATTAACAGAGAATATAAATACTATTAGAAGCATA
1 ATTAACAGAGAATATAAATACTATTAGAAGCATA
77451750 A
1 A
77451751 ATAAATGTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.26
Consensus pattern (34 bp):
ATTAACAGAGAATATAAATACTATTAGAAGCATA
Found at i:77451744 original size:17 final size:17
Alignment explanation
Indices: 77451690--77451744 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
77451680 ATATTAACAG
77451690 AGAATATAAATACTATT
1 AGAATATAAATACTATT
* * *
77451707 AGAAGCATAATTAAC-A-G
1 AGAA-TATAAAT-ACTATT
77451724 AGAATATAAATACTATT
1 AGAATATAAATACTATT
77451741 AGAA
1 AGAA
77451745 GCATAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
15 2 0.07
16 6 0.21
17 12 0.43
18 6 0.21
19 2 0.07
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (17 bp):
AGAATATAAATACTATT
Found at i:77466739 original size:26 final size:26
Alignment explanation
Indices: 77466708--77466759 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
77466698 GCAAAATATG
77466708 TATTTCTACTATTTAATTATTGAATT
1 TATTTCTACTATTTAATTATTGAATT
*
77466734 TATTTCTATTATTTAATTATTGAATT
1 TATTTCTACTATTTAATTATTGAATT
77466760 AAATTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (26 bp):
TATTTCTACTATTTAATTATTGAATT
Found at i:77467206 original size:19 final size:19
Alignment explanation
Indices: 77467182--77467223 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
77467172 ACTCAACTCG
* *
77467182 AATTAAAAAAATTAAGTAA
1 AATTAAAAAAATAAAATAA
*
77467201 AATTAAAATAATAAAATAA
1 AATTAAAAAAATAAAATAA
77467220 AATT
1 AATT
77467224 TATCAACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AATTAAAAAAATAAAATAA
Found at i:77470387 original size:36 final size:36
Alignment explanation
Indices: 77470340--77470412 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
77470330 AAGATTGGGA
77470340 TAGAATCCCTTACATTTTTGGAACGTATTCAAGGTG
1 TAGAATCCCTTACATTTTTGGAACGTATTCAAGGTG
*
77470376 TAGAATCCCTTACATTTTTGGAACGTATTTAAGGTG
1 TAGAATCCCTTACATTTTTGGAACGTATTCAAGGTG
77470412 T
1 T
77470413 TTATTTTGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (36 bp):
TAGAATCCCTTACATTTTTGGAACGTATTCAAGGTG
Found at i:77471047 original size:20 final size:18
Alignment explanation
Indices: 77470997--77471048 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
77470987 CTATAAGATA
77470997 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
77471014 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
77471034 AATATTAAATTAATA
1 AATATTAAATTAATA
77471049 AAAGACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:77471356 original size:9 final size:9
Alignment explanation
Indices: 77471342--77471367 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
77471332 TTTTAAAATC
77471342 ATCATCATT
1 ATCATCATT
77471351 ATCATCATT
1 ATCATCATT
77471360 ATCATCAT
1 ATCATCAT
77471368 CACCACTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (9 bp):
ATCATCATT
Found at i:77481967 original size:121 final size:121
Alignment explanation
Indices: 77481820--77482063 Score: 416
Period size: 121 Copynumber: 2.0 Consensus size: 121
77481810 CATCAGCCAC
* *
77481820 TAACACATATCCCAAGACGGTTTAATTTCTATTTTGGACCTTTGGTTAATTGCAATTTAAATCCC
1 TAACACATATCCCAAGACGGTTTAATTTCCATTTTGGACCTTTGGTTAATTACAATTTAAATCCC
* * * *
77481885 TAAATCTTTGGCTAATTAAAAACCTATAACGATAAAGTTTTACAATTTAGTCCTTG
66 TAAATCTTTGGCCAATTAAAAACCTATAACAATAAAATTTTACAATTTAGTCCATG
*
77481941 TAACACATATCCCAAGATGGTTTAATTTCCATTTTGGACCTTTGGTTAATTACAATTTAAATCCC
1 TAACACATATCCCAAGACGGTTTAATTTCCATTTTGGACCTTTGGTTAATTACAATTTAAATCCC
*
77482006 TAAATCTTTGGCCAATTAAAAACCTATAGCAATAAAATTTTACAATTTAGTCCATG
66 TAAATCTTTGGCCAATTAAAAACCTATAACAATAAAATTTTACAATTTAGTCCATG
77482062 TA
1 TA
77482064 CCTTAATTAA
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 115 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (121 bp):
TAACACATATCCCAAGACGGTTTAATTTCCATTTTGGACCTTTGGTTAATTACAATTTAAATCCC
TAAATCTTTGGCCAATTAAAAACCTATAACAATAAAATTTTACAATTTAGTCCATG
Found at i:77483515 original size:20 final size:20
Alignment explanation
Indices: 77483487--77483534 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
77483477 TTATTATATT
* *
77483487 ATGCGGGGCAAGCGGGGATG
1 ATGCAGGGCAAGCGAGGATG
*
77483507 ATGCAGGGCAAGTGAGGATG
1 ATGCAGGGCAAGCGAGGATG
77483527 ATGCAGGG
1 ATGCAGGG
77483535 ATGGGGCAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.50, T:0.12
Consensus pattern (20 bp):
ATGCAGGGCAAGCGAGGATG
Found at i:77490804 original size:117 final size:118
Alignment explanation
Indices: 77490653--77490876 Score: 315
Period size: 117 Copynumber: 1.9 Consensus size: 118
77490643 AAGAATGCAA
* * **
77490653 AGATAATAAAGAGGCATATAAAAATTCAATACCATAAACAAGTCATGGCCAGATTTGAATCTTGA
1 AGATAATAAAGAGGCATATAAAAATTCAATACCATAAACAAGACATGACCAGATTTGAATCCAGA
* * * *
77490718 AATTTCTTTTTACAGCCTATCTAG-CCAAGAATAATTAGCAGAAAGAGTACAG
66 AATTTCTGTTTACAGCCTAACTAGTCCAAAAATAACTAGCAGAAAGAGTACAG
* * * * *
77490770 AGATAATAATGATGCATGTAAAAATTCAATACCATACACAAGACATGACTAGATTTGAATCCAGA
1 AGATAATAAAGAGGCATATAAAAATTCAATACCATAAACAAGACATGACCAGATTTGAATCCAGA
*
77490835 AATTTCTGTTTACAGCCTAAGTAGTCCAAAAATAACTAGCAG
66 AATTTCTGTTTACAGCCTAACTAGTCCAAAAATAACTAGCAG
77490877 TGCACAGTGA
Statistics
Matches: 92, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
117 77 0.84
118 15 0.16
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (118 bp):
AGATAATAAAGAGGCATATAAAAATTCAATACCATAAACAAGACATGACCAGATTTGAATCCAGA
AATTTCTGTTTACAGCCTAACTAGTCCAAAAATAACTAGCAGAAAGAGTACAG
Found at i:77490960 original size:27 final size:27
Alignment explanation
Indices: 77490930--77490983 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
77490920 TTCTTAAAGA
*
77490930 AAATTTATTTTTGACATGAAATGAGTT
1 AAATTTATTTTTAACATGAAATGAGTT
*
77490957 AAATTTATTTTTAACATGAATTGAGTT
1 AAATTTATTTTTAACATGAAATGAGTT
77490984 TTGTTCTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (27 bp):
AAATTTATTTTTAACATGAAATGAGTT
Found at i:77493216 original size:141 final size:141
Alignment explanation
Indices: 77492962--77493247 Score: 572
Period size: 141 Copynumber: 2.0 Consensus size: 141
77492952 TAATAACACA
77492962 AGGAACCAGAAAATTCTGATGCAATATGCTTAAGATATTATAGAATGAATATCTTACAACATTGA
1 AGGAACCAGAAAATTCTGATGCAATATGCTTAAGATATTATAGAATGAATATCTTACAACATTGA
77493027 TCATAAAAGATGAGTTCCAGAAAGAAATGCCGAGAGTGCAAGAAAACAGGTATGGAAGGATGCTC
66 TCATAAAAGATGAGTTCCAGAAAGAAATGCCGAGAGTGCAAGAAAACAGGTATGGAAGGATGCTC
77493092 CCCAAATTGAT
131 CCCAAATTGAT
77493103 AGGAACCAGAAAATTCTGATGCAATATGCTTAAGATATTATAGAATGAATATCTTACAACATTGA
1 AGGAACCAGAAAATTCTGATGCAATATGCTTAAGATATTATAGAATGAATATCTTACAACATTGA
77493168 TCATAAAAGATGAGTTCCAGAAAGAAATGCCGAGAGTGCAAGAAAACAGGTATGGAAGGATGCTC
66 TCATAAAAGATGAGTTCCAGAAAGAAATGCCGAGAGTGCAAGAAAACAGGTATGGAAGGATGCTC
77493233 CCCAAATTGAT
131 CCCAAATTGAT
77493244 AGGA
1 AGGA
77493248 GTTCAAAGCA
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 145 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (141 bp):
AGGAACCAGAAAATTCTGATGCAATATGCTTAAGATATTATAGAATGAATATCTTACAACATTGA
TCATAAAAGATGAGTTCCAGAAAGAAATGCCGAGAGTGCAAGAAAACAGGTATGGAAGGATGCTC
CCCAAATTGAT
Found at i:77500141 original size:33 final size:33
Alignment explanation
Indices: 77500043--77500143 Score: 184
Period size: 33 Copynumber: 3.1 Consensus size: 33
77500033 TTCTTCTTGA
*
77500043 CATTCCAGCTCCTGTCCAGCAACCAAACACTCA
1 CATTCCAGCTCCTGTCCAGCAACCAAACACTCC
77500076 CATTCCAGCTCCTGTCCAGCAACCAAACACTCC
1 CATTCCAGCTCCTGTCCAGCAACCAAACACTCC
*
77500109 CATTCCAGCTCCTGTCCAGCAACCAACCACTCC
1 CATTCCAGCTCCTGTCCAGCAACCAAACACTCC
77500142 CA
1 CA
77500144 CTCAATCCTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.28, C:0.46, G:0.09, T:0.18
Consensus pattern (33 bp):
CATTCCAGCTCCTGTCCAGCAACCAAACACTCC
Found at i:77508594 original size:20 final size:21
Alignment explanation
Indices: 77508561--77508600 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
77508551 AAGCATGGCT
77508561 GAAAACTGGCTT-CCACTAAG
1 GAAAACTGGCTTCCCACTAAG
* *
77508581 GAAAATTGGGTTCCCACTAA
1 GAAAACTGGCTTCCCACTAA
77508601 TTGAGTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (21 bp):
GAAAACTGGCTTCCCACTAAG
Found at i:77522775 original size:14 final size:14
Alignment explanation
Indices: 77522752--77522918 Score: 122
Period size: 14 Copynumber: 11.9 Consensus size: 14
77522742 TCTTTTTAAC
*
77522752 TCAATACTCAATTT
1 TCAATTCTCAATTT
*
77522766 TCAATCCTCAATTT
1 TCAATTCTCAATTT
* *
77522780 TCAATTTTCAATTC
1 TCAATTCTCAATTT
*
77522794 TCAATTCTTAATTT
1 TCAATTCTCAATTT
* *
77522808 TTAATCCTCAATTT
1 TCAATTCTCAATTT
**
77522822 TCAATTCTCAATCC
1 TCAATTCTCAATTT
* *
77522836 ACAATTTTCAATTT
1 TCAATTCTCAATTT
77522850 TCAATT-TCCAATTT
1 TCAATTCT-CAATTT
* * * *
77522864 CCAATTTTCAGTTC
1 TCAATTCTCAATTT
*
77522878 TCAA-TCATCAATTG
1 TCAATTC-TCAATTT
* **
77522892 TCAATCCTCAATCC
1 TCAATTCTCAATTT
*
77522906 TCAATTCTAAATT
1 TCAATTCTCAATT
77522919 CTGAATTATT
Statistics
Matches: 117, Mismatches: 32, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
13 2 0.02
14 113 0.97
15 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.01, T:0.44
Consensus pattern (14 bp):
TCAATTCTCAATTT
Found at i:77522775 original size:21 final size:21
Alignment explanation
Indices: 77522751--77522911 Score: 148
Period size: 21 Copynumber: 7.7 Consensus size: 21
77522741 TTCTTTTTAA
*
77522751 CTCAATACTCAATTTTCAATC
1 CTCAATTCTCAATTTTCAATC
* *
77522772 CTCAATTTTCAATTTTCAATT
1 CTCAATTCTCAATTTTCAATC
* *
77522793 CTCAATTCTTAATTTTTAATC
1 CTCAATTCTCAATTTTCAATC
* *
77522814 CTCAATTTTCAATTCTCAATC
1 CTCAATTCTCAATTTTCAATC
* *
77522835 CACAATTTTCAATTTTCAAT-
1 CTCAATTCTCAATTTTCAATC
* * *
77522855 TTCCAATT-TCCAATTTTCAGTT
1 CT-CAATTCT-CAATTTTCAATC
*
77522877 CTCAA-TCATCAATTGTCAATC
1 CTCAATTC-TCAATTTTCAATC
*
77522898 CTCAATCCTCAATT
1 CTCAATTCTCAATT
77522912 CTAAATTCTG
Statistics
Matches: 113, Mismatches: 21, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
20 2 0.02
21 108 0.96
22 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.01, T:0.44
Consensus pattern (21 bp):
CTCAATTCTCAATTTTCAATC
Found at i:77522783 original size:7 final size:7
Alignment explanation
Indices: 77522759--77522896 Score: 107
Period size: 7 Copynumber: 19.7 Consensus size: 7
77522749 AACTCAATAC
77522759 TCAATTT
1 TCAATTT
**
77522766 TCAATCC
1 TCAATTT
77522773 TCAATTT
1 TCAATTT
77522780 TCAATTT
1 TCAATTT
*
77522787 TCAATTC
1 TCAATTT
77522794 TCAATTCT
1 TCAATT-T
77522802 T-AATTT
1 TCAATTT
* **
77522808 TTAATCC
1 TCAATTT
77522815 TCAATTT
1 TCAATTT
*
77522822 TCAATTC
1 TCAATTT
**
77522829 TCAATCC
1 TCAATTT
*
77522836 ACAATTT
1 TCAATTT
77522843 TCAATTT
1 TCAATTT
77522850 TCAATTT
1 TCAATTT
*
77522857 CCAATTT
1 TCAATTT
*
77522864 CCAATTT
1 TCAATTT
* *
77522871 TCAGTTC
1 TCAATTT
**
77522878 TCAATCA
1 TCAATTT
*
77522885 TCAATTG
1 TCAATTT
77522892 TCAAT
1 TCAAT
77522897 CCTCAATCCT
Statistics
Matches: 103, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
6 2 0.02
7 100 0.97
8 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.01, T:0.46
Consensus pattern (7 bp):
TCAATTT
Found at i:77524635 original size:42 final size:43
Alignment explanation
Indices: 77524576--77524710 Score: 120
Period size: 42 Copynumber: 3.2 Consensus size: 43
77524566 GACATTAGGG
* *
77524576 TTATGAG-TTTACGTGTAAGACCATATTTGGGATATGGCATC-A
1 TTATGAGATTT-CGTGTAAGACCATATCTGGGACATGGCATCGA
* *
77524618 TTATGAGATTTCGTGTAAGAACATGTCTGGGACATGGCATCGA
1 TTATGAGATTTCGTGTAAGACCATATCTGGGACATGGCATCGA
* * * * *
77524661 -TATGATA-ATCGTGCAAGACCATAGCTGGG-CTATTGGTATCGA
1 TTATGAGATTTCGTGTAAGACCATATCTGGGAC-A-TGGCATCGA
77524703 -TATGAGAT
1 TTATGAGAT
77524711 CACATATAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 18 0.24
42 53 0.70
43 4 0.05
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (43 bp):
TTATGAGATTTCGTGTAAGACCATATCTGGGACATGGCATCGA
Found at i:77527117 original size:33 final size:33
Alignment explanation
Indices: 77527075--77527140 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
77527065 ATTGTATAAA
* *
77527075 ATTGACTTGCGAGGGAGACTTGAGGAAGATTGG
1 ATTGACTTGCGAGAGAGACTCGAGGAAGATTGG
77527108 ATTGACTTGCGAGAGAGACTCGAGGAAGATTGG
1 ATTGACTTGCGAGAGAGACTCGAGGAAGATTGG
77527141 CCAACATTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.38, T:0.23
Consensus pattern (33 bp):
ATTGACTTGCGAGAGAGACTCGAGGAAGATTGG
Found at i:77527918 original size:25 final size:25
Alignment explanation
Indices: 77527879--77527951 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
77527869 TATTTGTAAT
*
77527879 TTTCCCGAATTGTATACTTTATTTT-
1 TTTCCC-AAATGTATACTTTATTTTA
*
77527904 TCTTCCCAAATGTATACTTTGTTTTA
1 T-TTCCCAAATGTATACTTTATTTTA
* *
77527930 TATCCCAAATGTACA-TTTATTT
1 TTTCCCAAATGTATACTTTATTT
77527952 ACATTCTACG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 6 0.15
25 29 0.71
26 6 0.15
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.51
Consensus pattern (25 bp):
TTTCCCAAATGTATACTTTATTTTA
Found at i:77534948 original size:10 final size:10
Alignment explanation
Indices: 77534929--77534978 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
77534919 TTAAATTCTA
77534929 AAAGATAAAT
1 AAAGATAAAT
77534939 ACAA-ATAAAT
1 A-AAGATAAAT
*
77534949 AAAGATAATT
1 AAAGATAAAT
77534959 AAAGATAAAT
1 AAAGATAAAT
77534969 GAAA-ATAAAT
1 -AAAGATAAAT
77534979 TCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:77535826 original size:97 final size:96
Alignment explanation
Indices: 77535661--77535847 Score: 252
Period size: 97 Copynumber: 1.9 Consensus size: 96
77535651 ATTTAATTTA
* * * *
77535661 TTTATTTTTACTTAGAAATATATTGAACCTTTTGACTGAAGAAAGATGACAGCCAAGCACCCCAC
1 TTTATTTTTACTTAGAAACATATCGAACCTTTTGACCGAAGAAAGATGACAACCAAGCACCCCAC
*
77535726 CCCGGTTACTCAGCCTAACATATTCCTAATT
66 CCCGGTTACTCAGCCCAACATATTCCTAATT
* **
77535757 TTTATTTTT-CTTA-AGAACATATCGAACCTTTTTGACGCGAAGAGAGATGACAACCAAGCACTT
1 TTTATTTTTACTTAGA-AACATATCGAACC-TTTTGAC-CGAAGAAAGATGACAACCAAGCACCC
*
77535820 CACCCCGGTTACTTAGCCCAACATATTC
63 CACCCCGGTTACTCAGCCCAACATATTC
77535848 TTAAAAATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
94 1 0.01
95 15 0.19
96 16 0.20
97 47 0.59
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (96 bp):
TTTATTTTTACTTAGAAACATATCGAACCTTTTGACCGAAGAAAGATGACAACCAAGCACCCCAC
CCCGGTTACTCAGCCCAACATATTCCTAATT
Found at i:77536567 original size:5 final size:5
Alignment explanation
Indices: 77536557--77536653 Score: 123
Period size: 5 Copynumber: 19.6 Consensus size: 5
77536547 ATCAACATCC
77536557 AAATA AAATA AAATA AAATA AAAT- -AATA AAATA AAATA AGAAT- AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA A-AATA AAATA
77536605 AGAAT- AAATA AAATA AAATA AAATA AAAT- AAATAA AAATAA AAATA
1 A-AATA AAATA AAATA AAATA AAATA AAATA AAAT-A AAAT-A AAATA
77536651 AAA
1 AAA
77536654 ATTGGGTTGC
Statistics
Matches: 84, Mismatches: 0, Indels: 16
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.04
4 10 0.12
5 55 0.65
6 16 0.19
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:77540259 original size:31 final size:30
Alignment explanation
Indices: 77540224--77540322 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 30
77540214 ATGATGCTAA
77540224 AGATATTTTGATATTTTATAATTATTTAATT
1 AGATATTTT-ATATTTTATAATTATTTAATT
** *
77540255 AGATA-AATATTATTTTATTAA-TATTTTAATA
1 AGATATTTTA-TATTTTA-TAATTA-TTTAATT
* *
77540286 AGATATTTTAT-TATTTATTATTATTTTATT
1 AGATATTTTATAT-TTTATAATTATTTAATT
77540316 AGTATAT
1 AG-ATAT
77540323 AAAGAAAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
29 1 0.02
30 20 0.38
31 30 0.57
32 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (30 bp):
AGATATTTTATATTTTATAATTATTTAATT
Found at i:77540308 original size:10 final size:11
Alignment explanation
Indices: 77540262--77540316 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
77540252 ATTAGATAAA
77540262 TATTATTTTAT
1 TATTATTTTAT
* *
77540273 TAATATTTTAA
1 TATTATTTTAT
** *
77540284 TAAGATATT-T
1 TATTATTTTAT
77540294 TATTA-TTTAT
1 TATTATTTTAT
77540304 TATTATTTTAT
1 TATTATTTTAT
77540315 TA
1 TA
77540317 GTATATAAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 2 0.06
10 9 0.26
11 23 0.68
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:77540736 original size:21 final size:21
Alignment explanation
Indices: 77540706--77540788 Score: 58
Period size: 21 Copynumber: 3.6 Consensus size: 21
77540696 TTGATATGTT
77540706 AGTGAAGAGAAAATAAGAGAA
1 AGTGAAGAGAAAATAAGAGAA
* * *
77540727 AGTGATGAGAAATAGTGTAGAAAAAGATT
1 AGTGAAGAGAAA-A---T---AAGAGA-A
77540756 AGTGAAGAGAAAATAAGAGAA
1 AGTGAAGAGAAAATAAGAGAA
*
77540777 AGTGATGAGAAA
1 AGTGAAGAGAAA
77540789 TAGTGTAGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
21 22 0.47
22 6 0.13
25 2 0.04
28 6 0.13
29 11 0.23
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.16
Consensus pattern (21 bp):
AGTGAAGAGAAAATAAGAGAA
Found at i:77540779 original size:50 final size:50
Alignment explanation
Indices: 77540704--77540800 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
77540694 TCTTGATATG
77540704 TTAGTGAAGAGAAAATAAGAGAAAGTGATGAGAAATAGTGTAGAAAAAGA
1 TTAGTGAAGAGAAAATAAGAGAAAGTGATGAGAAATAGTGTAGAAAAAGA
77540754 TTAGTGAAGAGAAAATAAGAGAAAGTGATGAGAAATAGTGTAGAAAA
1 TTAGTGAAGAGAAAATAAGAGAAAGTGATGAGAAATAGTGTAGAAAA
77540801 GAAAATAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.19
Consensus pattern (50 bp):
TTAGTGAAGAGAAAATAAGAGAAAGTGATGAGAAATAGTGTAGAAAAAGA
Found at i:77544510 original size:33 final size:33
Alignment explanation
Indices: 77544467--77544533 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
77544457 AGAGAAAGTT
*
77544467 TCTTACGTGGCGAGATTCTAGCCTCTGGTTGTC
1 TCTTACGTGGCGAGATTCCAGCCTCTGGTTGTC
*
77544500 TCTTATGTGGCGAGATTCCAGCCTCTGGTTGTC
1 TCTTACGTGGCGAGATTCCAGCCTCTGGTTGTC
77544533 T
1 T
77544534 TGTTCTGCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.12, C:0.24, G:0.27, T:0.37
Consensus pattern (33 bp):
TCTTACGTGGCGAGATTCCAGCCTCTGGTTGTC
Found at i:77545196 original size:10 final size:10
Alignment explanation
Indices: 77545177--77545226 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
77545167 TTAAATTCTA
77545177 AAAGATAAAT
1 AAAGATAAAT
77545187 ACAA-ATAAAT
1 A-AAGATAAAT
*
77545197 AAAGATAATT
1 AAAGATAAAT
77545207 AAAGATAAAT
1 AAAGATAAAT
77545217 GAAA-ATAAAT
1 -AAAGATAAAT
77545227 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:77551163 original size:18 final size:17
Alignment explanation
Indices: 77551130--77551165 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
77551120 AAGGGTATAG
77551130 TAAAATATTTTAAAAAA
1 TAAAATATTTTAAAAAA
77551147 TAAATATATATTTAAAAAA
1 TAAA-ATAT-TTTAAAAAA
77551166 AGACACGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAATATTTTAAAAAA
Found at i:77551732 original size:31 final size:31
Alignment explanation
Indices: 77551684--77551745 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
77551674 TTTGATGAAG
*
77551684 CATTGTAATCATCCCTTTGATTAATAAAGTA
1 CATTATAATCATCCCTTTGATTAATAAAGTA
*
77551715 CATTATAATTATCCCTTTGATTAATAAAGTA
1 CATTATAATCATCCCTTTGATTAATAAAGTA
77551746 TATTCTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (31 bp):
CATTATAATCATCCCTTTGATTAATAAAGTA
Found at i:77552895 original size:40 final size:40
Alignment explanation
Indices: 77552819--77552947 Score: 170
Period size: 39 Copynumber: 3.2 Consensus size: 40
77552809 TAAAGCACAA
* * *
77552819 AAACGCCGCAAAAAGTAAAGTAATAGCGACTTTTTTTTCAT
1 AAACGCCGCAAAAAGTAAAGCAATAGCG-GTGTTTTTTCAT
* * *
77552860 AAACACCGCAAAAGGTAAAGCAATAGCGGTG-TTTTTAAT
1 AAACGCCGCAAAAAGTAAAGCAATAGCGGTGTTTTTTCAT
* *
77552899 AAACGCCGCAAAAAGTAAAACAATAACGGTGTTTTTTCAT
1 AAACGCCGCAAAAAGTAAAGCAATAGCGGTGTTTTTTCAT
77552939 AAACGCCGC
1 AAACGCCGC
77552948 TAAAGGTTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
39 34 0.45
40 17 0.22
41 25 0.33
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (40 bp):
AAACGCCGCAAAAAGTAAAGCAATAGCGGTGTTTTTTCAT
Found at i:77552960 original size:40 final size:40
Alignment explanation
Indices: 77552851--77552963 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
77552841 ATAGCGACTT
* *
77552851 TTTTTTCATAAACACCGCAAAAGG-TAAAGCAATAGCGGTG
1 TTTTTTCATAAACGCCGCAAAAGGTTAAA-CAATAACGGTG
* * *
77552891 -TTTTTAATAAACGCCGCAAAAAGTAAAACAATAACGGTG
1 TTTTTTCATAAACGCCGCAAAAGGTTAAACAATAACGGTG
*
77552930 TTTTTTCATAAACGCCGCTAAAGGTTAAACAATA
1 TTTTTTCATAAACGCCGCAAAAGGTTAAACAATA
77552964 TCATTTTTCC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 30 0.48
40 32 0.52
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.27
Consensus pattern (40 bp):
TTTTTTCATAAACGCCGCAAAAGGTTAAACAATAACGGTG
Found at i:77554050 original size:73 final size:73
Alignment explanation
Indices: 77553930--77554077 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 73
77553920 GTTAATTGAT
* *
77553930 TTACTTTAGATAAGATCTCTTTAAAGGTTACTATCTATGTGATTGCTGGTCGAAGTTTCTCTTGA
1 TTACTTTAGATAAGATCTCTTTAAAGGTTACCATCTATGTGAGTGCTGGTCGAAGTTTCTCTTGA
77553995 AAAGCACA
66 AAAGCACA
* * *
77554003 TTACTTTAGATAAGATCTCTTTAAGGGTTGCCATCTATGTGAGTGCTGGTTGAAGTTTCTCTTGA
1 TTACTTTAGATAAGATCTCTTTAAAGGTTACCATCTATGTGAGTGCTGGTCGAAGTTTCTCTTGA
77554068 AAAGCACA
66 AAAGCACA
77554076 TT
1 TT
77554078 GATATTTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (73 bp):
TTACTTTAGATAAGATCTCTTTAAAGGTTACCATCTATGTGAGTGCTGGTCGAAGTTTCTCTTGA
AAAGCACA
Found at i:77556836 original size:24 final size:26
Alignment explanation
Indices: 77556782--77556836 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 26
77556772 ATCCAATTTT
77556782 TATTATTTATTTTAGTTTTGATTCTAA
1 TATT-TTTATTTTAGTTTTGATTCTAA
* *
77556809 -ATTTTT-TTTTA-TTTTTATTTTAA
1 TATTTTTATTTTAGTTTTGATTCTAA
77556832 TATTT
1 TATTT
77556837 AAGATAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 10 0.40
24 9 0.36
25 3 0.12
26 3 0.12
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (26 bp):
TATTTTTATTTTAGTTTTGATTCTAA
Found at i:77557145 original size:43 final size:43
Alignment explanation
Indices: 77557078--77557178 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
77557068 ATAATTTTTT
* * * * *
77557078 TAAAGGTCAAGTTCTTTTAGCGGCATTTGTAGGAGAAGCGCTGC
1 TAAAGGTCATGTTCTATTAGCGGCATTTGCA-GAAAAACGCTGC
*
77557122 TAAAGGTCATGTTC-ATTAGCGGCATTTGCAGAAAAACGGTGC
1 TAAAGGTCATGTTCTATTAGCGGCATTTGCAGAAAAACGCTGC
*
77557164 TAAAAGTCATGTTCT
1 TAAAGGTCATGTTCT
77557179 TCGAAAAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 22 0.45
43 14 0.29
44 13 0.27
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATTAGCGGCATTTGCAGAAAAACGCTGC
Found at i:77557774 original size:41 final size:40
Alignment explanation
Indices: 77557716--77557964 Score: 245
Period size: 41 Copynumber: 6.1 Consensus size: 40
77557706 GCAAAAATTA
* * *
77557716 TAAAACACAGAGCAATAGAGGCCTTTTTTGGTAAAACGTCGC
1 TAAAA-ACAGAGCATTAGCGGCC-TTTTTGGTAAAACGCCGC
* *
77557758 TAAAAACAGAGCAATAGCGGCATTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCCTTTTTGGTAAAACGCCGC
*
77557798 TAAAAACCAGAGCATTAGCGGCGC-TTTTGGTAAAACGCTGC
1 TAAAAA-CAGAGCATTAGCGGC-CTTTTTGGTAAAACGCCGC
* * * * *
77557839 TAAAAATCAAAGCATTAGCTGCGC-TTTCGGTAAAATGTCGC
1 TAAAAA-CAGAGCATTAGCGGC-CTTTTTGGTAAAACGCCGC
* * *
77557880 TAAAAAAAGAGCATTAGTGG-CTTTTTTGTAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCCTTTTTGGTAAAACGCCGC
* * *
77557919 TAAAAACTAGAACATTAGCGGCGC-TTCTAGTAAAACGCCGC
1 TAAAAAC-AGAGCATTAGCGGC-CTTTTTGGTAAAACGCCGC
77557960 TAAAA
1 TAAAA
77557965 GTCATATAAC
Statistics
Matches: 175, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.01
39 19 0.11
40 44 0.25
41 105 0.60
42 6 0.03
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCCTTTTTGGTAAAACGCCGC
Found at i:77557799 original size:40 final size:40
Alignment explanation
Indices: 77557741--77557964 Score: 261
Period size: 41 Copynumber: 5.5 Consensus size: 40
77557731 TAGAGGCCTT
* * **
77557741 TTTTGGTAAAACGTCGCTAAAAACAGAGCAATAGCGGCAT
1 TTTTGGTAAAACGCCGCTAAAAACAGAGCATTAGCGGCGC
77557781 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGC
* * *
77557822 TTTTGGTAAAACGCTGCTAAAAATCAAAGCATTAGCTGCGC
1 TTTTGGTAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGC
* * * * * *
77557863 TTTCGGTAAAATGTCGCTAAAAAAAGAGCATTAGTGGC-T
1 TTTTGGTAAAACGCCGCTAAAAACAGAGCATTAGCGGCGC
* *
77557902 TTTTTGTAAAACGCCGCTAAAAACTAGAACATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAAC-AGAGCATTAGCGGCGC
* *
77557943 TTCTAGTAAAACGCCGCTAAAA
1 TTTTGGTAAAACGCCGCTAAAA
77557965 GTCATATAAC
Statistics
Matches: 154, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
39 19 0.12
40 45 0.29
41 90 0.58
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (40 bp):
TTTTGGTAAAACGCCGCTAAAAACAGAGCATTAGCGGCGC
Found at i:77557891 original size:81 final size:80
Alignment explanation
Indices: 77557717--77557964 Score: 225
Period size: 80 Copynumber: 3.0 Consensus size: 80
77557707 CAAAAATTAT
* * * *
77557717 AAAACACAGAGCAATAGAGGCCTTTTTTGGTAAAACG-TCGCTAAAAACAGAGCAATAGCGGCAT
1 AAAACA-AGAGCATTAGCGGCC--TTTTGGTAAAACGCT-GCTAAAAACAAAGCAATAGCGGCAC
*
77557781 TTTTGGTAAAACGCCGCTA
62 TTTCGGTAAAACGCCGCTA
* * * *
77557800 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCTGCTAAAAATCAAAGCATTAGCTGCGCTT
1 AAAACAAGAGCATTAGCGGC-CTTTTGGTAAAACGCTGCTAAAAA-CAAAGCAATAGCGGCACTT
* *
77557865 TCGGTAAAATGTCGCTA
64 TCGGTAAAACGCCGCTA
* * * * * *
77557882 AAAA-AAGAGCATTAGTGGCTTTTTTGTAAAACGCCGCTAAAAACTAGAA-CATTAGCGGCGC-T
1 AAAACAAGAGCATTAGCGGCCTTTTGGTAAAACGCTGCTAAAAAC-A-AAGCAATAGCGGCACTT
*
77557944 TCTAGTAAAACGCCGCTA
64 TC-GGTAAAACGCCGCTA
77557962 AAA
1 AAA
77557965 GTCATATAAC
Statistics
Matches: 139, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
79 4 0.03
80 48 0.35
81 36 0.26
82 45 0.32
83 6 0.04
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (80 bp):
AAAACAAGAGCATTAGCGGCCTTTTGGTAAAACGCTGCTAAAAACAAAGCAATAGCGGCACTTTC
GGTAAAACGCCGCTA
Found at i:77557936 original size:121 final size:122
Alignment explanation
Indices: 77557745--77557964 Score: 343
Period size: 121 Copynumber: 1.8 Consensus size: 122
77557735 GGCCTTTTTT
* *
77557745 GGTAAAACGTCGCTAAAAACAGAGCAATAGCGGCATTTTTGGTAAAACGCCGCTAAAAACCAGAG
1 GGTAAAACGTCGCTAAAAAAAGAGCAATAGCGGCATTTTTGGTAAAACGCCGCTAAAAACCAGAA
* * *
77557810 CATTAGCGGCGCTTTTGGTAAAACGCTGCTAAAAATCAAAGCATTAGCTGCGCTTTC
66 CATTAGCGGCGCTTCTAGTAAAACGCCGCTAAAAATCAAAGCATTAGCTGCGCTTTC
* * * * *
77557867 GGTAAAATGTCGCTAAAAAAAGAGCATTAGTGGC-TTTTTTGTAAAACGCCGCTAAAAACTAGAA
1 GGTAAAACGTCGCTAAAAAAAGAGCAATAGCGGCATTTTTGGTAAAACGCCGCTAAAAACCAGAA
77557931 CATTAGCGGCGCTTCTAGTAAAACGCCGCTAAAA
66 CATTAGCGGCGCTTCTAGTAAAACGCCGCTAAAA
77557965 GTCATATAAC
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
121 58 0.66
122 30 0.34
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (122 bp):
GGTAAAACGTCGCTAAAAAAAGAGCAATAGCGGCATTTTTGGTAAAACGCCGCTAAAAACCAGAA
CATTAGCGGCGCTTCTAGTAAAACGCCGCTAAAAATCAAAGCATTAGCTGCGCTTTC
Found at i:77558063 original size:17 final size:18
Alignment explanation
Indices: 77558035--77558069 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
77558025 TTAAAACATT
*
77558035 AAACCTCTAAACCCTAAA
1 AAACCTCTAAACACTAAA
77558053 AAACC-CTAAACACTAAA
1 AAACCTCTAAACACTAAA
77558070 CTATAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.14
Consensus pattern (18 bp):
AAACCTCTAAACACTAAA
Found at i:77558074 original size:56 final size:53
Alignment explanation
Indices: 77557984--77558098 Score: 158
Period size: 56 Copynumber: 2.1 Consensus size: 53
77557974 CCTCTAAAAT
* *
77557984 CCTAAACCCCAAAAAATCATAAACACTAATCTATATAACCCTTAAAACATTAAAC
1 CCTAAACCCCAAAAAACCATAAACACTAAAC--TATAACCCTTAAAACATTAAAC
* * *
77558039 CTCTAAACCCTAAAAAACCCTAAACACTAAACTATAACCCTTAAAACCTTAAAC
1 C-CTAAACCCCAAAAAACCATAAACACTAAACTATAACCCTTAAAACATTAAAC
77558093 CCTAAA
1 CCTAAA
77558099 AAACATCACA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 5 0.09
54 22 0.41
55 1 0.02
56 26 0.48
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.21
Consensus pattern (53 bp):
CCTAAACCCCAAAAAACCATAAACACTAAACTATAACCCTTAAAACATTAAAC
Found at i:77558291 original size:15 final size:15
Alignment explanation
Indices: 77558268--77558327 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
77558258 TAATTTAACT
*
77558268 TTTATGGATTATGGG
1 TTTAGGGATTATGGG
77558283 TTTAGGGATTAT-GG
1 TTTAGGGATTATGGG
*
77558297 TTTAAGGG-TT-GGGG
1 TTT-AGGGATTATGGG
* *
77558311 TTTAAGGTTTATGGG
1 TTTAGGGATTATGGG
77558326 TT
1 TT
77558328 ATGGGTTAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 3 0.08
14 14 0.38
15 20 0.54
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (15 bp):
TTTAGGGATTATGGG
Done.