Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 164 of 186
Found at i:54516099 original size:55 final size:52
Alignment explanation
Indices: 54515993--54516177 Score: 160
Period size: 55 Copynumber: 3.4 Consensus size: 52
54515983 TTACCATTGC
* * * *
54515993 CATGTCTTGACATGGTCTTACGTG-GTATCCTTGCCTTAT-GAACTCACCAATG
1 CATGCCTTG-CATGGTCTTACATGAGGA-CCTTGCCTTATAGAACTCATCAATG
* *
54516045 TCATGCCTTAGCATGGTCTTACATG-GGACCTTTGTCTTCTAGTAACTCATCAATG
1 -CATGCCTT-GCATGGTCTTACATGAGGACC-TTGCCTTATAG-AACTCATCAATG
* *** *
54516100 CGATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 C-ATGCCTTG-CATGGTCTTACATGAGGACCTTGCCTTATAGAACTCATCAATG
54516154 CCATGCCTTGGCATGGTCTTACAT
1 -CATGCCTT-GCATGGTCTTACAT
54516178 CATATCCTTA
Statistics
Matches: 109, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
52 2 0.02
53 29 0.27
54 34 0.31
55 42 0.39
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (52 bp):
CATGCCTTGCATGGTCTTACATGAGGACCTTGCCTTATAGAACTCATCAATG
Found at i:54516170 original size:54 final size:54
Alignment explanation
Indices: 54515979--54516186 Score: 206
Period size: 53 Copynumber: 3.9 Consensus size: 54
54515969 TTTCCTTTTT
* * * * *
54515979 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* ** * *
54516032 GAACTCACCAATGTCATGCCTT-AGCATGGTCTTACATGGGA-CCTTTGTCTTCTA
1 GAACTCACCAATGCCATGCCTTGA-CATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
54516086 GTAACTCATCAATGCGATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
54516141 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATCATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
54516187 ATCTTACCAA
Statistics
Matches: 126, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 3 0.02
53 40 0.32
54 40 0.32
55 40 0.32
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:54521517 original size:25 final size:24
Alignment explanation
Indices: 54521457--54521517 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
54521447 ATAGCTCAAA
*
54521457 CGAGCAATCCTGTTATAAGCCCTCT
1 CGAGC-ATCCTGTTATAAGCCCTCG
*
54521482 CGAGCGTCCTGTTATATAGCTCCT-G
1 CGAGCATCCTGTTATA-AGC-CCTCG
*
54521507 GGAGCATCCTG
1 CGAGCATCCTG
54521518 ATCGGTAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 10 0.33
25 17 0.57
26 3 0.10
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.28
Consensus pattern (24 bp):
CGAGCATCCTGTTATAAGCCCTCG
Found at i:54523972 original size:19 final size:20
Alignment explanation
Indices: 54523940--54523985 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
54523930 CCAAAAATAA
54523940 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
54523960 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
54523979 TTTCTGG
1 TTTCTGG
54523986 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:54537076 original size:40 final size:40
Alignment explanation
Indices: 54536993--54537173 Score: 170
Period size: 40 Copynumber: 4.5 Consensus size: 40
54536983 AATCAAGCAT
** * *
54536993 CTTCGGGGT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTC-GGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
54537031 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
54537071 CTTCGGGACTTAGCCCGGATTTAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
54537111 CTTCGGATCTTAGTCCGGATGTAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
** *
54537152 CTTCGGGAGTTAGCTCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
54537174 CATTCGAGTA
Statistics
Matches: 114, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
37 4 0.04
38 7 0.06
39 15 0.13
40 61 0.54
41 27 0.24
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:54547812 original size:15 final size:15
Alignment explanation
Indices: 54547788--54547824 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
54547778 TTACTACATT
*
54547788 CCGAGCTCGTTTCGA
1 CCGAGTTCGTTTCGA
54547803 CCGAGTTCGTTTCGA
1 CCGAGTTCGTTTCGA
54547818 CCGAGTT
1 CCGAGTT
54547825 ACGACATCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.27, T:0.30
Consensus pattern (15 bp):
CCGAGTTCGTTTCGA
Found at i:54547954 original size:44 final size:44
Alignment explanation
Indices: 54547887--54548003 Score: 191
Period size: 44 Copynumber: 2.7 Consensus size: 44
54547877 CATGACATAG
*
54547887 GATTCCGATATACGTGTGAGAGTAAGACCATGGCATCGATATGT
1 GATTCCGATATATGTGTGAGAGTAAGACCATGGCATCGATATGT
*
54547931 GATTCCGATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
1 GATTCCGATATATGTGTGAGAGTAAGACCATGGCATCGATATGT
*
54547975 GATTCCAATATATGTGT-ATGAGTAAGACC
1 GATTCCGATATATGTGTGA-GAGTAAGACC
54548004 CTGTTGGGAC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (44 bp):
GATTCCGATATATGTGTGAGAGTAAGACCATGGCATCGATATGT
Found at i:54558235 original size:39 final size:39
Alignment explanation
Indices: 54558181--54558490 Score: 530
Period size: 39 Copynumber: 7.9 Consensus size: 39
54558171 TTATATTATT
* *
54558181 AGCACAAAGCCTGCGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
54558220 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
54558259 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
54558298 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACACTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* * *
54558337 AGCACGAAGCCTGCGGGACTTTGGCCTGGATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
54558376 AGCACGAAGCCTGCGGGACTTTAGCCCAGATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
54558415 CGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
54558454 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
54558491 TCAGTGTCTT
Statistics
Matches: 257, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 257 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.22
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:54558515 original size:39 final size:39
Alignment explanation
Indices: 54558472--54558549 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
54558462 GCCTGCGGGA
54558472 CTTTAGCCCGGATACATTTTCAGTGTCTTGCATATTTAT
1 CTTTAGCCCGGATACATTTTCAGTGTCTTGCATATTTAT
54558511 CTTTAGCCCGGATACATTTTCAGTGTCTTGCATATTTAT
1 CTTTAGCCCGGATACATTTTCAGTGTCTTGCATATTTAT
54558550 TCACATGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (39 bp):
CTTTAGCCCGGATACATTTTCAGTGTCTTGCATATTTAT
Found at i:54565523 original size:40 final size:40
Alignment explanation
Indices: 54565479--54565702 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
54565469 AAGTGAATAT
* * * * **
54565479 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
54565519 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
54565559 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
54565599 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
54565639 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
54565678 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
54565703 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:54565577 original size:80 final size:80
Alignment explanation
Indices: 54565440--54565702 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
54565430 TTGAATGCTG
* * * * *
54565440 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
54565502 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
54565520 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
54565585 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
54565600 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
54565664 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
54565679 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
54565703 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:54565654 original size:120 final size:120
Alignment explanation
Indices: 54565440--54565702 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
54565430 TTGAATGCTG
* * *
54565440 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
54565504 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
54565560 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
54565622 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
54565679 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
54565703 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:54573506 original size:40 final size:39
Alignment explanation
Indices: 54573475--54573684 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
54573465 GGACTAAGAT
* *
54573475 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
54573515 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
54573555 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
54573595 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
54573635 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
54573674 CCGAAGGCATT
1 CCGAAGGCATT
54573685 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:54573638 original size:120 final size:120
Alignment explanation
Indices: 54573422--54573684 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
54573412 TTGAATGCTG
* *
54573422 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
54573486 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
54573542 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
54573605 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
54573661 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
54573685 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:54573704 original size:79 final size:80
Alignment explanation
Indices: 54573423--54573719 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
54573413 TGAATGCTGT
* ** * * * **
54573423 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
54573486 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
54573503 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
54573567 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
54573583 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
54573647 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
54573662 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
54573720 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:54590684 original size:39 final size:39
Alignment explanation
Indices: 54590628--54590703 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
54590618 TTATATTATT
*
54590628 AGCACAAAGCCTACGGGACTTTGGCCCGGATACATTTCC
1 AGCACAAAGCCTACGGGACTTTAGCCCGGATACATTTCC
* *
54590667 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 AGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
54590704 TCAGTGTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (39 bp):
AGCACAAAGCCTACGGGACTTTAGCCCGGATACATTTCC
Found at i:54592151 original size:29 final size:29
Alignment explanation
Indices: 54592109--54592167 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
54592099 GACGATATGT
54592109 ATGTTAATAAAAGGTTTTAATTTGGGCAA
1 ATGTTAATAAAAGGTTTTAATTTGGGCAA
54592138 ATGTTAATAAAAGGTTTTAATTTGGGCAA
1 ATGTTAATAAAAGGTTTTAATTTGGGCAA
54592167 A
1 A
54592168 ATCTTATGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.37
Consensus pattern (29 bp):
ATGTTAATAAAAGGTTTTAATTTGGGCAA
Found at i:54597083 original size:2 final size:2
Alignment explanation
Indices: 54597078--54597102 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
54597068 CTTTTTTTTT
54597078 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
54597103 ATAAAAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:54598211 original size:29 final size:30
Alignment explanation
Indices: 54598176--54598235 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
54598166 GCTGAATTTT
54598176 GATATAAATT-TTTTAAAAGAAAAGGAAAA
1 GATATAAATTGTTTTAAAAGAAAAGGAAAA
54598205 GATATAAATTGTTTTAAAAGAAAAGGAAAA
1 GATATAAATTGTTTTAAAAGAAAAGGAAAA
54598235 G
1 G
54598236 GACAGTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.27
Consensus pattern (30 bp):
GATATAAATTGTTTTAAAAGAAAAGGAAAA
Found at i:54606781 original size:27 final size:27
Alignment explanation
Indices: 54606751--54606837 Score: 133
Period size: 27 Copynumber: 3.2 Consensus size: 27
54606741 ATGACGAAGT
54606751 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
54606778 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
54606805 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
54606832 CACCAG
1 CACCAG
54606838 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
26 8 0.14
27 46 0.82
28 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:54615059 original size:27 final size:27
Alignment explanation
Indices: 54615011--54615169 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
54615001 GCGAGGCTGC
* * *
54615011 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
54615038 CAGATATTGTGGCAGAGCCACCGGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
54615064 CAGATATATGTGGCAGAGCCACCATAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
54615091 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
54615118 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
54615145 CAGATAATTGTGGCATAGCCGCCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
54615170 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 10 0.09
27 98 0.88
28 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:54615104 original size:54 final size:54
Alignment explanation
Indices: 54615011--54615172 Score: 231
Period size: 54 Copynumber: 3.0 Consensus size: 54
54615001 GCGAGGCTGC
* * * *
54615011 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACC-GGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGG-A
*
54615064 CAGATATATGTGGCAGAGCCACCATATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
*
54615118 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCGCCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
54615172 C
1 C
54615173 GCTTCCTCCA
Statistics
Matches: 99, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
53 12 0.12
54 85 0.86
55 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:54615130 original size:81 final size:80
Alignment explanation
Indices: 54615011--54615164 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 80
54615001 GCGAGGCTGC
* * *
54615011 CAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCAGAGCCACCGGAACAGAT-ATATGT
1 CAGATATTGTGACAAAGCCACCAGAGACAGATATTGTGGCAGAGCCACCAGAACAGATAAT-TGT
54615075 GGCAGAGCCACCATAT
65 GGCAGAGCCACCATAT
* * *
54615091 CAGATAATTGTGGCATAGCCACCAG-GACAGATATATGTGGCAGAGCCACCAGATCAGATAATTG
1 CAGAT-ATTGTGACAAAGCCACCAGAGACAGATAT-TGTGGCAGAGCCACCAGAACAGATAATTG
*
54615155 TGGCATAGCC
64 TGGCAGAGCC
54615165 GCCAGGACGC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
80 13 0.20
81 49 0.77
82 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (80 bp):
CAGATATTGTGACAAAGCCACCAGAGACAGATATTGTGGCAGAGCCACCAGAACAGATAATTGTG
GCAGAGCCACCATAT
Found at i:54618741 original size:38 final size:38
Alignment explanation
Indices: 54618689--54618782 Score: 152
Period size: 38 Copynumber: 2.5 Consensus size: 38
54618679 TCAATATATG
** *
54618689 TAACCGTGACATATCCACTTAGCACCACGTTACATGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGCT
*
54618727 TAACCGTGGTATATCCACTTAGCACTACGTTACATGCT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGCT
54618765 TAACCGTGGTATATCCAC
1 TAACCGTGGTATATCCAC
54618783 AAATTCAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (38 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGCT
Found at i:54620154 original size:26 final size:25
Alignment explanation
Indices: 54620125--54620177 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
54620115 CTTATGAGTG
*
54620125 TCCTGA-TATATGGCTCTTCGTGAGCT
1 TCCTGATTA-ATGGCTCTCCG-GAGCT
54620151 TCCTGATTAATGGCTCTCCGGAGCT
1 TCCTGATTAATGGCTCTCCGGAGCT
54620176 TC
1 TC
54620178 TCGATATGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 16 0.64
27 2 0.08
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (25 bp):
TCCTGATTAATGGCTCTCCGGAGCT
Found at i:54625864 original size:15 final size:16
Alignment explanation
Indices: 54625841--54625876 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
54625831 ATGTGAATAA
54625841 TATTATTAAAA-TTAT
1 TATTATTAAAATTTAT
*
54625856 TATTTTTAAAATTTAT
1 TATTATTAAAATTTAT
54625872 TATTA
1 TATTA
54625877 AAATAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATTAAAATTTAT
Found at i:54625873 original size:16 final size:15
Alignment explanation
Indices: 54625841--54625880 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
54625831 ATGTGAATAA
54625841 TATTATTAAAATTAT
1 TATTATTAAAATTAT
*
54625856 TATTTTTAAAA-T-T
1 TATTATTAAAATTAT
54625869 TATTATTAAAAT
1 TATTATTAAAAT
54625881 AAAATTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 11 0.50
14 1 0.05
15 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATTAAAATTAT
Found at i:54625928 original size:22 final size:22
Alignment explanation
Indices: 54625888--54625943 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
54625878 AATAAAATTG
*
54625888 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
54625908 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
54625930 TATTAATAATTTAT
1 AAATAATAAATTAT
54625944 TATAAGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:54627330 original size:43 final size:43
Alignment explanation
Indices: 54627232--54627351 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
54627222 ATCAAGACGT
* ** * *
54627232 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAACGTAATCA
*
54627275 GATTACGAGTAAGACCATGTCTGGGACATTGGCAACGTTAATCA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAACG-TAATCA
* * *
54627319 TG-TT-CGTGTAAGACCCTGTCTAGGACAGTGGCA
1 -GATTACGTGTAAGACCATGTCTGGGACATTGGCA
54627352 TCGATATGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 58 0.89
44 6 0.09
45 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCAACGTAATCA
Found at i:54633682 original size:42 final size:44
Alignment explanation
Indices: 54633576--54633734 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 44
54633566 TATGTGTTAT
* ** * * *
54633576 CGTGTAAGATCACATCTGGGAC-GTTGGCATTGATTTGTGATTTA
1 CGTGTAAGACCATGTCTGGGACAG-TGGCATCGATATATGATTTA
*
54633620 CGTGTAAGACCATGTCTGGGACATTGGCATC-ATATATGATTT-
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTTA
* * * * *
54633662 CGTGTAAGACCCTGTTTGGGATAGTGGCATCGATATTTCA-TTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTTA
** *
54633705 CACGTAAGACCAAGTCTGGGAC-GTTGGCAT
1 CGTGTAAGACCATGTCTGGGACAG-TGGCAT
54633735 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
42 30 0.33
43 37 0.40
44 25 0.27
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTTA
Found at i:54636884 original size:43 final size:43
Alignment explanation
Indices: 54636823--54636905 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
54636813 ACATGAATCA
*
54636823 CATCCATCATGAACTCGGACCTCTCAACAAGCTCGGATGCTTG
1 CATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGCTTG
* *
54636866 CATCCATAATGAACTCGGACCTCTCAACGAGCTTGGATGC
1 CATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGC
54636906 CACATATCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGCTTG
Found at i:54638403 original size:27 final size:27
Alignment explanation
Indices: 54638373--54638542 Score: 177
Period size: 27 Copynumber: 6.3 Consensus size: 27
54638363 GGTGAAATAG
* *
54638373 TCATATTACCATAAAAGGGCAAAACAA
1 TCATTTTACCATATAAGGGCAAAACAA
** *
54638400 TCATTTTACCACCTAAGGGAAAAACAA
1 TCATTTTACCATATAAGGGCAAAACAA
54638427 TCATTTTACC-TCATAAGGGCAAAACAA
1 TCATTTTACCAT-ATAAGGGCAAAACAA
* * *
54638454 TCATTTTACCCTATAAGGCCAAAACAG
1 TCATTTTACCATATAAGGGCAAAACAA
*
54638481 TCATTTTACC-TCATAAGGGTAAAA-AA
1 TCATTTTACCAT-ATAAGGGCAAAACAA
* *
54638507 GTCATTTTACC-TCATAAGGTCAAAATAA
1 -TCATTTTACCAT-ATAAGGGCAAAACAA
54638535 TCATTTTA
1 TCATTTTA
54638543 TTAATTAGGG
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.02
27 118 0.96
28 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (27 bp):
TCATTTTACCATATAAGGGCAAAACAA
Found at i:54638436 original size:54 final size:53
Alignment explanation
Indices: 54638387--54638542 Score: 206
Period size: 54 Copynumber: 2.9 Consensus size: 53
54638377 ATTACCATAA
* **
54638387 AAGGGCAAAACAATCATTTTACCACCTAAGGGAAAAACAATCATTTTACCTCAT
1 AAGGGCAAAACAATCATTTTACC-CATAAGGCCAAAACAATCATTTTACCTCAT
*
54638441 AAGGGCAAAACAATCATTTTACCCTATAAGGCCAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAACAATCATTTTACCC-ATAAGGCCAAAACAATCATTTTACCTCAT
* * *
54638495 AAGGGTAAAA-AAGTCATTTTACCTCATAAGGTCAAAATAATCATTTTA
1 AAGGGCAAAACAA-TCATTTTACC-CATAAGGCCAAAACAATCATTTTA
54638543 TTAATTAGGG
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
53 3 0.03
54 87 0.96
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (53 bp):
AAGGGCAAAACAATCATTTTACCCATAAGGCCAAAACAATCATTTTACCTCAT
Found at i:54638498 original size:81 final size:81
Alignment explanation
Indices: 54638373--54638542 Score: 234
Period size: 81 Copynumber: 2.1 Consensus size: 81
54638363 GGTGAAATAG
* * *
54638373 TCATATTACCATAAAAGGGCAAAACAATCATTTTACCACCTAAGGG-AAAAACAATCATTTTACC
1 TCATTTTACCATAAAAGGCCAAAACAATCATTTTACCACATAAGGGTAAAAA-AATCATTTTACC
54638437 TCATAAGGGCAAAACAA
65 TCATAAGGGCAAAACAA
* * * * *
54638454 TCATTTTACCCTATAAGGCCAAAACAGTCATTTTACCTCATAAGGGTAAAAAAGTCATTTTACCT
1 TCATTTTACCATAAAAGGCCAAAACAATCATTTTACCACATAAGGGTAAAAAAATCATTTTACCT
* *
54638519 CATAAGGTCAAAATAA
66 CATAAGGGCAAAACAA
54638535 TCATTTTA
1 TCATTTTA
54638543 TTAATTAGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 73 0.94
82 5 0.06
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (81 bp):
TCATTTTACCATAAAAGGCCAAAACAATCATTTTACCACATAAGGGTAAAAAAATCATTTTACCT
CATAAGGGCAAAACAA
Found at i:54641840 original size:18 final size:18
Alignment explanation
Indices: 54641801--54641844 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
54641791 GGCCCTTTCA
54641801 AGTAACAGTAAACAGTAC
1 AGTAACAGTAAACAGTAC
* **
54641819 AGTAATAGTAAACAGTGT
1 AGTAACAGTAAACAGTAC
54641837 AGTAACAG
1 AGTAACAG
54641845 AAAATAGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.20
Consensus pattern (18 bp):
AGTAACAGTAAACAGTAC
Found at i:54642216 original size:27 final size:27
Alignment explanation
Indices: 54642174--54642431 Score: 184
Period size: 27 Copynumber: 9.6 Consensus size: 27
54642164 ACACAGGGAT
* *
54642174 AAAACAGTCATCTTACCATAAAAGGGA
1 AAAACAGTCATTTTACCATAAAAGGGC
* * *
54642201 AAAACAATCTTTTTACCACATAAAGGGC
1 AAAACAGTCATTTTACCATA-AAAGGGC
* * *
54642229 AAAACAATCATTTTACC-TCATAAGAGC
1 AAAACAGTCATTTTACCAT-AAAAGGGC
* *
54642256 AAAACAGTCATTTTACCCTATAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
** *
54642283 AAAACAGTCATTTTACCCCATAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
* * *
54642310 AAAATAGTCATTTTACC-TCATAAGGGT
1 AAAACAGTCATTTTACCAT-AAAAGGGC
* * ** *
54642337 AAAGCATTCATTTTACCCCATAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
* * * *
54642364 AAAATAGTAATTTTACC-TCATAAGGGA
1 AAAACAGTCATTTTACCAT-AAAAGGGC
* * *
54642391 AAAATAGTCTTTTTACC-TCATAAGGGC
1 AAAACAGTCATTTTACCAT-AAAAGGGC
54642418 AAAAC-GTCATTTTA
1 AAAACAGTCATTTTA
54642432 TCAATTAGAG
Statistics
Matches: 194, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.04
27 162 0.84
28 24 0.12
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATAAAAGGGC
Found at i:54642295 original size:54 final size:54
Alignment explanation
Indices: 54642174--54642431 Score: 297
Period size: 54 Copynumber: 4.8 Consensus size: 54
54642164 ACACAGGGAT
* * * * * *
54642174 AAAACAGTCATCTTACCAT-AAAAGGGAAAAACAATCTTTTTACCACATAAAGGGC
1 AAAACAGTCATTTTACC-TCATAAGGGCAAAACAGTCATTTTACCTCAT-AAGGGC
* *
54642229 AAAACAATCATTTTACCTCATAAGAGCAAAACAGTCATTTTACC-CTATAAGGGC
1 AAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTTACCTC-ATAAGGGC
* * *
54642283 AAAACAGTCATTTTACCCCATAAGGGCAAAATAGTCATTTTACCTCATAAGGGT
1 AAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
* * * * * *
54642337 AAAGCATTCATTTTACCCCATAAGGGCAAAATAGTAATTTTACCTCATAAGGGA
1 AAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
* *
54642391 AAAATAGTCTTTTTACCTCATAAGGGCAAAAC-GTCATTTTA
1 AAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTTA
54642432 TCAATTAGAG
Statistics
Matches: 177, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 8 0.05
54 131 0.74
55 38 0.21
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (54 bp):
AAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
Found at i:54642348 original size:81 final size:81
Alignment explanation
Indices: 54642174--54642431 Score: 329
Period size: 81 Copynumber: 3.2 Consensus size: 81
54642164 ACACAGGGAT
* * * * * * * *
54642174 AAAACAGTCATCTTACCATAAAAGGGAAAAACAATCTTTTTACCACATAAAGGGCAAAACAATCA
1 AAAACAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTACCACAT-AAGGGCAAAATAGTCA
*
54642239 TTTTACCTCATAAGAGC
65 TTTTACCTCATAAGGGC
*
54642256 AAAACAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAATAGTCAT
1 AAAACAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCAT
*
54642321 TTTACCTCATAAGGGT
66 TTTACCTCATAAGGGC
* * * * * * * *
54642337 AAAGCATTCATTTTACCCCATAAGGGCAAAATAGTAATTTTACCTCATAAGGGAAAAATAGTCTT
1 AAAACAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCAT
54642402 TTTACCTCATAAGGGC
66 TTTACCTCATAAGGGC
54642418 AAAAC-GTCATTTTA
1 AAAACAGTCATTTTA
54642432 TCAATTAGAG
Statistics
Matches: 154, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 8 0.05
81 105 0.68
82 41 0.27
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (81 bp):
AAAACAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCAT
TTTACCTCATAAGGGC
Found at i:54643118 original size:13 final size:13
Alignment explanation
Indices: 54643083--54643118 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
54643073 TAGCAAAAAG
54643083 AAAAATAAAATAA
1 AAAAATAAAATAA
* *
54643096 AATAAGAAAATAA
1 AAAAATAAAATAA
54643109 AAAAATAAAA
1 AAAAATAAAA
54643119 ATCCCTCTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:54648738 original size:42 final size:44
Alignment explanation
Indices: 54648633--54648786 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 44
54648623 TCGTACAACA
* ** * * *
54648633 CCAACGTCCCAAATGTGGTCTTACATGT-AATCACATATAGATG
1 CCAATGTCCCAAACATGGTCTTACACGTAAATCACAAATCGATG
* * * * * *
54648676 CCACTGTCCCAGACAGGGTCTTACACG-AACTCATATAT-GATG
1 CCAATGTCCCAAACATGGTCTTACACGTAAATCACAAATCGATG
* * *
54648718 TCGATGTCCCAAACATGGTCTTACATGTAAATCACAAATCGATG
1 CCAATGTCCCAAACATGGTCTTACACGTAAATCACAAATCGATG
*
54648762 CCAACGTCCCAAACATGGTCTTACA
1 CCAATGTCCCAAACATGGTCTTACA
54648787 TGAATCACAT
Statistics
Matches: 87, Mismatches: 21, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 25 0.29
43 36 0.41
44 26 0.30
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (44 bp):
CCAATGTCCCAAACATGGTCTTACACGTAAATCACAAATCGATG
Found at i:54649925 original size:13 final size:13
Alignment explanation
Indices: 54649907--54649931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54649897 TCAAACGATA
54649907 AAATTTTCACACG
1 AAATTTTCACACG
54649920 AAATTTTCACAC
1 AAATTTTCACAC
54649932 ATATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:54652674 original size:42 final size:44
Alignment explanation
Indices: 54652607--54652710 Score: 133
Period size: 42 Copynumber: 2.4 Consensus size: 44
54652597 TATCAATTTC
* *
54652607 TGATTTACGTGTAAGACCATGTCTAGGACATTGGCATC-ATATA
1 TGATTTACGTGTAAGACCATATCTAGGACAGTGGCATCGATATA
* *
54652650 TGATTT-CGTGTAAGACCCTATCTAGGACAGTGGCATCGATATT
1 TGATTTACGTGTAAGACCATATCTAGGACAGTGGCATCGATATA
**
54652693 TGA-TTACAAGTAAGACCA
1 TGATTTACGTGTAAGACCA
54652711 CGTCTGGGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 30 0.58
43 22 0.42
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATATCTAGGACAGTGGCATCGATATA
Found at i:54652727 original size:43 final size:42
Alignment explanation
Indices: 54652570--54652728 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
54652560 TATGTGTTAT
* * *
54652570 CGTGTAAGACCACATTTGGGACGTTGGTATCA-ATTTCTGATTTA
1 CGTGTAAGACCACATCTAGGACGTTGGCATCATA-TT-TGA-TTA
** * * *
54652614 CGTGTAAGACCATGTCTAGGACATTGGCATCATATATGATTT
1 CGTGTAAGACCACATCTAGGACGTTGGCATCATATTTGATTA
54652656 CGTGTAAGACC-CTATCTAGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-ATCTAGGAC-GTTGGCATC-ATATTTGATTA
** * *
54652699 CAAGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACATCTAGGACGTTGGCAT
54652729 TGTATGAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 29 0.32
43 34 0.37
44 28 0.30
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACATCTAGGACGTTGGCATCATATTTGATTA
Found at i:54654828 original size:46 final size:48
Alignment explanation
Indices: 54654760--54654884 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 48
54654750 GTATGTAAGC
*
54654760 CAGTGTAAGACGTGTCTGGGACATGCATCGGCCACATT-ATGA-G-G-G
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGA-GACGAGAG
*
54654805 TCAGTGTAAGACATGTCTAGGACATGCATC-G--ACATTGAGACGAGAG
1 -CAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGAGACGAGAG
*
54654851 CTAGTGTAAGACATGTTTGGGACATGCATCGGCC
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCC
54654885 TCGACATATA
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
43 7 0.10
44 2 0.03
45 3 0.04
46 54 0.81
47 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGAGACGAGAG
Found at i:54655032 original size:49 final size:49
Alignment explanation
Indices: 54654947--54655074 Score: 125
Period size: 49 Copynumber: 2.6 Consensus size: 49
54654937 TGTGTGTCAA
*
54654947 TGTAAGACCTGTCCGGGACATGGCATCGACACCGATAGATAAGAACT-AG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATAA-AACTCAG
* * * * * *
54654996 TGTAAGACCTGTCTGGGACATGGCTTTGGC-CTCGATATATGAAAGTCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATAAAACTCAG
* * **
54655045 TGTAATACCTGTTTGGGACACAGCATCGAC
1 TGTAAGACCTGTCTGGGACATGGCATCGAC
54655075 TTTAATGTAC
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
48 4 0.06
49 59 0.94
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATAAAACTCAG
Found at i:54661366 original size:15 final size:16
Alignment explanation
Indices: 54661346--54661375 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
54661336 AAGGTCTTAT
54661346 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
54661361 AATCATAACCTTACT
1 AATCATAACCTTACT
54661376 GAGGGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:54661686 original size:42 final size:40
Alignment explanation
Indices: 54661546--54661703 Score: 167
Period size: 42 Copynumber: 3.9 Consensus size: 40
54661536 TACCGTACCA
** * *
54661546 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTC-TAT-T
* * *
54661588 ATGCCAATAGCCCAGCTATGGTCTTACACAAAGTCTC-A-T
1 ATGCC-ATATCCCAGATATGGTCTTACACATAGTCTCTATT
* *
54661627 ATGCCATATCCCAGATATAGTCTTACACGTAGTCTCATATT
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTC-TATT
*
54661668 GATGCCATATCCTAGATATGGTCTTACACATAGTCT
1 -ATGCCATATCCCAGATATGGTCTTACACATAGTCT
54661704 TAGTAACCCT
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
38 26 0.27
39 5 0.05
40 1 0.01
41 2 0.02
42 37 0.39
43 25 0.26
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (40 bp):
ATGCCATATCCCAGATATGGTCTTACACATAGTCTCTATT
Found at i:54663667 original size:33 final size:31
Alignment explanation
Indices: 54663612--54663683 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 31
54663602 AGGGTTAGAG
54663612 AAAAAAAAAGAAGAAAAAGGAAATAGAGAAAAT
1 AAAAAAAAAGAAGAAAAAGGAAA-AG-GAAAAT
* **
54663645 AAAAGAAAAGAAGAAATTGGAAAAGGAAAA-
1 AAAAAAAAAGAAGAAAAAGGAAAAGGAAAAT
*
54663675 AAATAAAAA
1 AAAAAAAAA
54663684 TCAAAGTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 7 0.21
31 5 0.15
32 2 0.06
33 20 0.59
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (31 bp):
AAAAAAAAAGAAGAAAAAGGAAAAGGAAAAT
Found at i:54666501 original size:16 final size:16
Alignment explanation
Indices: 54666482--54666514 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54666472 TTTCCCCAAT
54666482 TTTATTTTCATATGCA
1 TTTATTTTCATATGCA
*
54666498 TTTATTTTTATATGCA
1 TTTATTTTCATATGCA
54666514 T
1 T
54666515 ATTTAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTATTTTCATATGCA
Found at i:54667068 original size:15 final size:15
Alignment explanation
Indices: 54667048--54667086 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
54667038 TTGTAAAGTA
* *
54667048 ACATTCTCGACAATC
1 ACATTCTCAACAACC
*
54667063 ACATTCCCAACAACC
1 ACATTCTCAACAACC
54667078 ACATTCTCA
1 ACATTCTCA
54667087 TAACATGGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.38, G:0.03, T:0.23
Consensus pattern (15 bp):
ACATTCTCAACAACC
Found at i:54669995 original size:28 final size:29
Alignment explanation
Indices: 54669936--54670002 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
54669926 AATATTTCTC
* *
54669936 CAAATTAATTATTAAATAAAATAGTTTAA
1 CAAATCAATTATTAAATAAAATAATTTAA
*
54669965 CAAATCAATT-TTAAGT-AAATAATTTACA
1 CAAATCAATTATTAAATAAAATAATTTA-A
*
54669993 CAACTCAATT
1 CAAATCAATT
54670003 CTAATTCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 9 0.27
28 15 0.45
29 9 0.27
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (29 bp):
CAAATCAATTATTAAATAAAATAATTTAA
Found at i:54671772 original size:29 final size:29
Alignment explanation
Indices: 54671730--54671786 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
54671720 TTATAACTAG
54671730 GTCAATTACTTGGAGGCAAAGGAAGGGTA
1 GTCAATTACTTGGAGGCAAAGGAAGGGTA
54671759 GTCAATTACTTGGAGGCAAAGGAAGGGT
1 GTCAATTACTTGGAGGCAAAGGAAGGGT
54671787 TGTTTCCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.21
Consensus pattern (29 bp):
GTCAATTACTTGGAGGCAAAGGAAGGGTA
Found at i:54675273 original size:46 final size:46
Alignment explanation
Indices: 54675136--54675311 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
54675126 TCACTTGTGT
* * ** * *
54675136 GAGCTAGTGTAGGACATGTCTGGGACATGCATCGGCC-ACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GACGA
* *
54675182 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGACGA
* * * *
54675230 GTGCTAGTGTAAGACATGTGTGGGACATGCTTCGGCCTTGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACG-A
* *
54675277 -AGCCAGTGTATGACATGTCTGAGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
54675312 TACGAGATGT
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 56 0.53
47 26 0.25
48 23 0.22
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACGA
Found at i:54677590 original size:42 final size:42
Alignment explanation
Indices: 54677544--54677644 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
54677534 GGTTGAACGA
* **
54677544 AAGCTCATAGGAGTTGGACAAAAACCCATTAGGGTTAAACAG
1 AAGCTCATAAGAGTTAAACAAAAACCCATTAGGGTTAAACAG
* * * ** *
54677586 AAGCTCAAAAAAGCTAAACGGAAACCCATTAGGGTTAAACGG
1 AAGCTCATAAGAGTTAAACAAAAACCCATTAGGGTTAAACAG
* *
54677628 AAACTCATATGAGTTAA
1 AAGCTCATAAGAGTTAA
54677645 TTGAAGCTCA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.19
Consensus pattern (42 bp):
AAGCTCATAAGAGTTAAACAAAAACCCATTAGGGTTAAACAG
Found at i:54677643 original size:21 final size:21
Alignment explanation
Indices: 54677600--54677644 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
54677590 TCAAAAAAGC
*
54677600 TAAACGGAAACCCATTAGGGT
1 TAAACGGAAACCCATTAGAGT
*
54677621 TAAACGGAAACTCA-TATGAGT
1 TAAACGGAAACCCATTA-GAGT
54677642 TAA
1 TAA
54677645 TTGAAGCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (21 bp):
TAAACGGAAACCCATTAGAGT
Found at i:54683736 original size:85 final size:84
Alignment explanation
Indices: 54683580--54683740 Score: 193
Period size: 85 Copynumber: 1.9 Consensus size: 84
54683570 GGAAAGCTCG
* **
54683580 TACAATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAGATA
1 TACAATGCCAACATCCCAGACGTGCTCTTACATGTAATCAAATATCGATGCCAACGTCCCAGATA
54683645 GGGTCTTACACGAAATCAAA
66 -GGTCTTACACGAAATCAAA
* * * *
54683665 TACAATGCCAACGT-CCAGACGTGCTCTTACATGTAAATTATAA-GTCGATGCTAACGTCCCAGA
1 TACAATGCCAACATCCCAGACGTGCTCTTACATGT-AATCA-AATATCGATGCCAACGTCCCAGA
54683728 CGTA-GTCTTACAC
64 --TAGGTCTTACAC
54683741 AATAACACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
84 19 0.29
85 42 0.65
86 2 0.03
87 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (84 bp):
TACAATGCCAACATCCCAGACGTGCTCTTACATGTAATCAAATATCGATGCCAACGTCCCAGATA
GGTCTTACACGAAATCAAA
Found at i:54684841 original size:13 final size:13
Alignment explanation
Indices: 54684823--54684847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54684813 ATAAATGATA
54684823 AAATTTTCACACT
1 AAATTTTCACACT
54684836 AAATTTTCACAC
1 AAATTTTCACAC
54684848 ATGTCAATTC
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:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTTCACACT
Found at i:54688291 original size:40 final size:39
Alignment explanation
Indices: 54688190--54688412 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
54688180 TCCTCGTTCA
* * *
54688190 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
54688229 AATGCCTTCGGGACATAGCCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
54688268 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGTAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * *
54688308 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGG-ATTTAGTAACTCGCAC
* * * * *
54688348 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
54688389 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
54688413 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 41 0.26
40 102 0.66
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:54688421 original size:41 final size:41
Alignment explanation
Indices: 54688344--54688421 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
54688334 TTTGTATCTC
* * *
54688344 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
54688385 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
54688422 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:54690019 original size:27 final size:27
Alignment explanation
Indices: 54689967--54690056 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 27
54689957 GTGATAGAGT
*
54689967 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* *
54689996 CATCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
**
54690023 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAGGGC
54690051 CACCAG
1 CACCAG
54690057 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 23 0.43
28 24 0.45
29 6 0.11
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:54690209 original size:28 final size:28
Alignment explanation
Indices: 54690162--54690223 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
54690152 AAATTAACCC
*
54690162 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
54690190 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
54690218 TAGGGG
1 TAGGGG
54690224 CATTCTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:54693131 original size:46 final size:46
Alignment explanation
Indices: 54693081--54693256 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
54693071 TGGTTGAGCA
*
54693081 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54693127 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
54693172 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54693220 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54693257 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54693237 original size:93 final size:93
Alignment explanation
Indices: 54693078--54693249 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
54693068 GGATGGTTGA
* *
54693078 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
54693143 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
54693171 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
54693236 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
54693250 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54693842 original size:217 final size:217
Alignment explanation
Indices: 54693467--54693899 Score: 803
Period size: 217 Copynumber: 2.0 Consensus size: 217
54693457 TACAACCACT
* **
54693467 ATAAGGTAATAAGATGATGAAAAATGATCAGAAATGTGATATGTGTTTTAGTGATGTATGCTAAT
1 ATAAGGTAATAAGATGATGAAAAATGATCAAAAATGTGATATGTGTTTTAGTGATACATGCTAAT
54693532 GTTGATTGGTATAACTGTTTGTTATGTTACTTATTATTTGCATATAAACTTACTAAGCATTTATG
66 GTTGATTGGTATAACTGTTTGTTATGTTACTTATTATTTGCATATAAACTTACTAAGCATTTATG
54693597 CTTACTCCCTCCTTCTTACTCATTGTAGTTTTGGACAAGCCAGCTCAGGAGTCGGGATAGGTCGA
131 CTTACTCCCTCCTTCTTACTCATTGTAGTTTTGGACAAGCCAGCTCAGGAGTCGGGATAGGTCGA
54693662 AGGCTCAGTCACACTATCCGGG
196 AGGCTCAGTCACACTATCCGGG
*
54693684 ATAAGGTAATAAGATGATGAAAAATGATTAAAAATGTGATATGTGTTTTAGTGATACATGCTAAT
1 ATAAGGTAATAAGATGATGAAAAATGATCAAAAATGTGATATGTGTTTTAGTGATACATGCTAAT
* *
54693749 GTTGATTGGTATGACTGTTTGTTATGTTACTTATTATTTGCATATGAACTTACTAAGCATTTATG
66 GTTGATTGGTATAACTGTTTGTTATGTTACTTATTATTTGCATATAAACTTACTAAGCATTTATG
*
54693814 CTTACTCCCTCCTTCTTACTCATTGTAGTTTTGGACAAGCCAGCTCAGGGGTCGGGATAGGTCGA
131 CTTACTCCCTCCTTCTTACTCATTGTAGTTTTGGACAAGCCAGCTCAGGAGTCGGGATAGGTCGA
54693879 AGGCTCAGTCACACTATCCGG
196 AGGCTCAGTCACACTATCCGG
54693900 AAGACTTTTG
Statistics
Matches: 209, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
217 209 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (217 bp):
ATAAGGTAATAAGATGATGAAAAATGATCAAAAATGTGATATGTGTTTTAGTGATACATGCTAAT
GTTGATTGGTATAACTGTTTGTTATGTTACTTATTATTTGCATATAAACTTACTAAGCATTTATG
CTTACTCCCTCCTTCTTACTCATTGTAGTTTTGGACAAGCCAGCTCAGGAGTCGGGATAGGTCGA
AGGCTCAGTCACACTATCCGGG
Found at i:54701730 original size:15 final size:15
Alignment explanation
Indices: 54701693--54701732 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
54701683 ACCCTCCCCG
*
54701693 CTCTTCTTCTCTTTT
1 CTCTTCTTTTCTTTT
*
54701708 CTCCTCTTTTCTTTT
1 CTCTTCTTTTCTTTT
*
54701723 CTTTTCTTTT
1 CTCTTCTTTT
54701733 TTCCCCCATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
CTCTTCTTTTCTTTT
Found at i:54701732 original size:10 final size:10
Alignment explanation
Indices: 54701696--54701730 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
54701686 CTCCCCGCTC
54701696 TTCTTCTCTT
1 TTCTTCTCTT
*
54701706 TTCTCCTCTT
1 TTCTTCTCTT
*
54701716 TTCTTTTCTT
1 TTCTTCTCTT
54701726 TTCTT
1 TTCTT
54701731 TTTTCCCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTCTCTT
Found at i:54703627 original size:6 final size:6
Alignment explanation
Indices: 54703582--54703636 Score: 65
Period size: 6 Copynumber: 8.8 Consensus size: 6
54703572 TTGAGTCCGA
* * *
54703582 TTATTT CTATGT TTATGT TTATTT TTATCTT TTATCTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTAT-TT TTAT-TT TTATTT TTATTT
54703632 TTATT
1 TTATT
54703637 CTTCTTGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
6 31 0.70
7 13 0.30
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:54703639 original size:20 final size:20
Alignment explanation
Indices: 54703599--54703635 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
54703589 TATGTTTATG
54703599 TTTATTTTTATCTTTTATCT
1 TTTATTTTTATCTTTTATCT
54703619 TTTATTTTTAT-TTTTAT
1 TTTATTTTTATCTTTTAT
54703636 TCTTCTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTATTTTTATCTTTTATCT
Found at i:54711205 original size:42 final size:42
Alignment explanation
Indices: 54711090--54711206 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
54711080 GGAAAGCTCG
* * *
54711090 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATAAAA
1 TACAATGCCAACGTCCTAGACGTGGTCTTACACGAAACAAAA
* * * * * *
54711132 TATCGATACC-ACTGTCCTAAATGGGGTCTTACACGAAACCAAA
1 TA-CAATGCCAAC-GTCCTAGACGTGGTCTTACACGAAACAAAA
*
54711175 TACAATGCCAACATCCTAGACGTGGTCTTACA
1 TACAATGCCAACGTCCTAGACGTGGTCTTACA
54711207 TGATAACACA
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
TACAATGCCAACGTCCTAGACGTGGTCTTACACGAAACAAAA
Found at i:54723810 original size:6 final size:6
Alignment explanation
Indices: 54723765--54723819 Score: 65
Period size: 6 Copynumber: 8.8 Consensus size: 6
54723755 TTGAGTCCGA
* * *
54723765 TTATTT CTATGT TTATGT TTATTT TTATCTT TTATCTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTAT-TT TTAT-TT TTATTT TTATTT
54723815 TTATT
1 TTATT
54723820 CTTCTTGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
6 31 0.70
7 13 0.30
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:54723822 original size:20 final size:20
Alignment explanation
Indices: 54723782--54723818 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
54723772 TATGTTTATG
54723782 TTTATTTTTATCTTTTATCT
1 TTTATTTTTATCTTTTATCT
54723802 TTTATTTTTAT-TTTTAT
1 TTTATTTTTATCTTTTAT
54723819 TCTTCTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTATTTTTATCTTTTATCT
Found at i:54731388 original size:42 final size:42
Alignment explanation
Indices: 54731273--54731389 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
54731263 GGAAAGCTCG
* * *
54731273 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATAAAA
1 TACAATGCCAACGTCCTAGACGTGGTCTTACACGAAACAAAA
* * * * * *
54731315 TATCGATACC-ACTGTCCTAAATGGGGTCTTACACGAAACCAAA
1 TA-CAATGCCAAC-GTCCTAGACGTGGTCTTACACGAAACAAAA
*
54731358 TACAATGCCAACATCCTAGACGTGGTCTTACA
1 TACAATGCCAACGTCCTAGACGTGGTCTTACA
54731390 TGATAACACA
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
TACAATGCCAACGTCCTAGACGTGGTCTTACACGAAACAAAA
Found at i:54736330 original size:19 final size:20
Alignment explanation
Indices: 54736298--54736336 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
54736288 AAAGTTGTGA
54736298 AAATTAATGAAAAAT-TATG
1 AAATTAATGAAAAATATATG
* *
54736317 AAATTTATGGAAAATATATG
1 AAATTAATGAAAAATATATG
54736337 CTGTAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (20 bp):
AAATTAATGAAAAATATATG
Found at i:54745559 original size:95 final size:97
Alignment explanation
Indices: 54745331--54745603 Score: 297
Period size: 95 Copynumber: 2.8 Consensus size: 97
54745321 GTAAGGGTCG
** * * **
54745331 ATGCCATGTCCCGGACATGGTCTTACACTAGCTCACA-C-ATCAAAGTCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATCTATC-GGGTCGATGCCATGTCCCAGA
* **
54745394 CATGGTCTTACACTAACTCTCGTATATCGAGGCCA
65 CATGGTCTTACACTAAC-CACG-ATATCGAAACCA
* **
54745429 ATGCCATGTCCCAGAA-ATGGTGTTACACGGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAG
1 ATGCCATGTCCCA-AACATGGTATTACACTAGCTCTCATCTATCGG-GTCGATGCCATGTCCCAG
*
54745493 ACATGGTCTTACACTGA-CAC-ATATC-AAACCA
64 ACATGGTCTTACACTAACCACGATATCGAAACCA
* * * *
54745524 ATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATATCTTGAGGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATCTATCG-GGTCGATGCCATGTCCCAGA
54745589 CATGGTCTTACACTA
65 CATGGTCTTACACTA
54745604 GCTCTCATAT
Statistics
Matches: 149, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
94 2 0.01
95 71 0.48
96 6 0.04
98 31 0.21
99 2 0.01
100 37 0.25
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (97 bp):
ATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATCTATCGGGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTAACCACGATATCGAAACCA
Found at i:54745594 original size:145 final size:148
Alignment explanation
Indices: 54745326--54745655 Score: 425
Period size: 145 Copynumber: 2.2 Consensus size: 148
54745316 ATAGGGTAAG
* * * *
54745326 GGTCGATGCCATGTCCCGGACATGGTCTTACACTAGCTCACACATCAAAGTCGATGCCATGTCCC
1 GGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAAGCCAATGCCATGTCCC
* * * *
54745391 AGACATGGTCTTACACTAACTCTCGTATATCGAGGCCAATGCCATGTCCCAGAAATGGTGTTACA
66 AAACATGGTATTACACTAACTCTCATATATCGAGGCCAATGCCATGTCCCAGAAATGGTCTTACA
* * *
54745456 CGGGCTCTCATCTATC-G
131 CGAGCTCTCATATATCAA
*
54745473 GTGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCAAA-CCAATGCCATGTCC
1 G-GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAAGCCAATGCCATGTCC
* * * * *
54745535 CAAACATGGTATTACACTAGCTCTCATATCTTGAGGCCGATGCCATGTCCCAGACATGGTCTTAC
65 CAAACATGGTATTACACTAACTCTCATATATCGAGGCCAATGCCATGTCCCAGAAATGGTCTTAC
* *
54745600 ACTAGCTCTCATATCTCAA
130 ACGAGCTCTCATATATCAA
* * *
54745619 GGCCGATGCCATGTCCTAGACATGGTCTTAAACTAGC
1 GGTCGATGCCATGTCCCAGACATGGTCTTACACTAGC
54745656 TTTCATATCT
Statistics
Matches: 157, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
145 111 0.71
146 12 0.08
147 2 0.01
148 32 0.20
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (148 bp):
GGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAAGCCAATGCCATGTCCC
AAACATGGTATTACACTAACTCTCATATATCGAGGCCAATGCCATGTCCCAGAAATGGTCTTACA
CGAGCTCTCATATATCAA
Found at i:54745664 original size:50 final size:50
Alignment explanation
Indices: 54745329--54745666 Score: 350
Period size: 50 Copynumber: 6.9 Consensus size: 50
54745319 GGGTAAGGGT
* * * * *
54745329 CGATGCCATGTCCCGGACATGGTCTTACACTAGCTCACACA--TCAAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
* * * *
54745377 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTATATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
* * * ** * * * *
54745427 CAATGCCATGTCCCAGAAATGGTGTTACACGGGCTCTCATCTATC-GGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAG-GC
* * *
54745477 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATA--TCAA-AC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
* * * **
54745522 CAATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATATCTTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
54745572 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
* * *
54745622 CGATGCCATGTCCTAGACATGGTCTTAAACTAGCTTTCATATCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
54745667 CCTAGCATCA
Statistics
Matches: 237, Mismatches: 44, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
45 28 0.12
46 3 0.01
47 5 0.02
48 40 0.17
49 4 0.02
50 157 0.66
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
Found at i:54748138 original size:43 final size:42
Alignment explanation
Indices: 54748091--54748217 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
54748081 TCTTATATGT
*
54748091 AATCAAATACTGATGCCACTGTCCCAGACAGGGTCTTACACAA
1 AATCAAATAC-GATGCCAATGTCCCAGACAGGGTCTTACACAA
* *
54748134 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACAC-AA
* **
54748177 AATCATAAGT-TGATGCCAACATCCCAGAC-GTGGTCTTACAC
1 AATCA-AA-TACGATGCCAATGTCCCAGACAG-GGTCTTACAC
54748218 GATAACACAT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 28 0.38
43 16 0.22
44 28 0.38
45 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACAA
Found at i:54748161 original size:42 final size:43
Alignment explanation
Indices: 54748091--54748219 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 43
54748081 TCTTATATGT
*
54748091 AATCAAATACTGATGCCACTGTCCCAGACAGGGTCTTACAC-AA
1 AATCAAATAC-GATGCCAATGTCCCAGACAGGGTCTTACACGAA
* *
54748134 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACGAA
* **
54748177 AATCATAAGT-TGATGCCAACATCCCAGAC-GTGGTCTTACACGA
1 AATCA-AA-TACGATGCCAATGTCCCAGACAG-GGTCTTACACGA
54748220 TAACACATAT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 28 0.38
43 16 0.22
44 29 0.39
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (43 bp):
AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACGAA
Found at i:54750209 original size:30 final size:30
Alignment explanation
Indices: 54750163--54750219 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
54750153 TTTTCGAGCC
54750163 TAGGGGAAAATCGTAATTCTG-CAAAGGTT
1 TAGGGGAAAATCGTAATTCTGCCAAAGGTT
* *
54750192 TAGGGGCAAAATTGTAATTTTGCCAAAG
1 TAGGGG-AAAATCGTAATTCTGCCAAAG
54750220 TTTGAGTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.25
30 13 0.54
31 5 0.21
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAATCGTAATTCTGCCAAAGGTT
Found at i:54751043 original size:47 final size:47
Alignment explanation
Indices: 54750982--54751146 Score: 244
Period size: 47 Copynumber: 3.5 Consensus size: 47
54750972 GCATTGGCAC
*
54750982 TAAGAC-AAGTATACCATGTAAGACCATGTTT-GAGACATGGCGTTTGG
1 TAAGACAAAG-ATACCATGTAAGACCATGTTTGGA-ACATGGCATTTGG
54751029 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
54751076 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
54751123 TAAGATAAGGATATCATGTAAGAC
1 TAAGACAAAGATACCATGTAAGAC
54751147 TATGCCAAGG
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
47 106 0.95
48 5 0.05
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:54751337 original size:53 final size:54
Alignment explanation
Indices: 54751124--54751336 Score: 187
Period size: 55 Copynumber: 3.9 Consensus size: 54
54751114 GACATTTGGT
* * * *
54751124 AAGATAAGGATATCATGTAAGACTATGCCAAGGCGTGGCATTGATAAGTTCTATA
1 AAGA-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATA
* * * * ** * *
54751179 AGGCAAGGAAATCATGTAAGACCATATCAAGACATGTCATTGATGAGTTACTATA
1 AAGAAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATA
* * * * * *
54751234 AGGCAAATG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATA
1 AAG-AAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATA
* * * *
54751287 AAGAAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGAAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
54751337 AAAAAGGAAA
Statistics
Matches: 127, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
52 4 0.03
53 40 0.31
54 38 0.30
55 42 0.33
56 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGAAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATA
Found at i:54753352 original size:40 final size:40
Alignment explanation
Indices: 54753293--54753510 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
54753283 CGGATGATAA
* * * *
54753293 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
54753333 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54753373 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54753413 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
54753453 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54753493 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54753511 TACCTGGCTT
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 16 0.10
40 140 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54767949 original size:29 final size:29
Alignment explanation
Indices: 54767907--54767964 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
54767897 TGACCCTAGT
54767907 CGGGAAGTGGTTTCGGGACCACAAAATCA
1 CGGGAAGTGGTTTCGGGACCACAAAATCA
*
54767936 CGGGAATTGGTTTCGGGACCACAAAATCA
1 CGGGAAGTGGTTTCGGGACCACAAAATCA
54767965 AGTCATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (29 bp):
CGGGAAGTGGTTTCGGGACCACAAAATCA
Found at i:54769299 original size:14 final size:14
Alignment explanation
Indices: 54769280--54769309 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54769270 CATTCCGAAG
*
54769280 TATATATATATACA
1 TATATACATATACA
54769294 TATATACATATACA
1 TATATACATATACA
54769308 TA
1 TA
54769310 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATACATATACA
Found at i:54769826 original size:28 final size:28
Alignment explanation
Indices: 54769758--54770023 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
54769748 CATGAGATTG
* * * *
54769758 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
54769787 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54769815 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54769843 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54769871 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54769899 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
54769927 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54769955 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54769983 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54770010 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
54770024 GACTTAATAT
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.11
28 186 0.82
29 18 0.08
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:54777305 original size:39 final size:40
Alignment explanation
Indices: 54777199--54777379 Score: 192
Period size: 40 Copynumber: 4.5 Consensus size: 40
54777189 TTGAATGATG
* * * *
54777199 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAT
* * *
54777238 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCAATTGTGCGAGTTACTAAT
*
54777279 TCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAT
*
54777318 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAT
* *
54777357 AACCGGGCTATGTCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCA
54777380 TTTGAACGAG
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAT
Found at i:54777335 original size:79 final size:81
Alignment explanation
Indices: 54777199--54777379 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 81
54777189 TTGAATGATG
* * *
54777199 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
54777263 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
54777278 TTCCGGGCTAAG-CCCGAAGGCAATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCAATTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
54777340 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
54777358 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
54777380 TTTGAACGAG
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.66
80 28 0.33
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCAATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:54777405 original size:79 final size:79
Alignment explanation
Indices: 54777252--54777416 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
54777242 GGACTAAGAT
* * **
54777252 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCAATTGAACGAGTTACTAA
*
54777317 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
54777331 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCAATTGAACGAGTTA-C
* *
54777394 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54777410 CCGAAGG
1 CCGAAGG
54777417 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCAATTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54784794 original size:39 final size:40
Alignment explanation
Indices: 54784678--54784858 Score: 174
Period size: 40 Copynumber: 4.5 Consensus size: 40
54784668 TTGAATGATG
* * * *
54784678 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAT
* * * *
54784717 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCAATTGTGCGAGTTACTAAT
*
54784758 TCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAT
*
54784797 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAT
* * *
54784836 AACCGGGCTATGTCTCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCA
54784859 TTTGAACGAG
Statistics
Matches: 118, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 34 0.29
40 75 0.64
41 9 0.08
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAT
Found at i:54784814 original size:79 final size:80
Alignment explanation
Indices: 54784678--54784860 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 80
54784668 TTGAATGATG
* * *
54784678 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
54784743 GTACGAGATACTAAT
66 GTACGAGATACTAAT
* * * **
54784758 TCCGGGCTAAG-CCCGAAGGCAATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
* *
54784820 TTGTGCGAGTTACT-AT
64 TTGTACGAGATACTAAT
* * *
54784836 AACCGGGCTATGTCTCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
54784861 TGAACGAGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.67
80 25 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTACGAGATACTAAT
Found at i:54784884 original size:79 final size:79
Alignment explanation
Indices: 54784731--54784895 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
54784721 GGACTAAGAT
* * **
54784731 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCAATTGAACGAGTTACTAA
*
54784796 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * * *
54784810 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCTCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCAATTGAACGAGTTA-C
* *
54784873 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54784889 CCGAAGG
1 CCGAAGG
54784896 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCAATTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54785846 original size:19 final size:20
Alignment explanation
Indices: 54785822--54785859 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
54785812 GGTACCACCA
54785822 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
54785841 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
54785860 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:54786155 original size:46 final size:46
Alignment explanation
Indices: 54786088--54786209 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
54786078 CGCCCCTAAG
* * *
54786088 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
54786134 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
54786180 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
54786210 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:54801619 original size:22 final size:22
Alignment explanation
Indices: 54801594--54801635 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
54801584 TTATTGAAAA
54801594 ATTATGATATTGTCATTGACAG
1 ATTATGATATTGTCATTGACAG
54801616 ATTATGATATTGTCATTGAC
1 ATTATGATATTGTCATTGAC
54801636 TACCATTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (22 bp):
ATTATGATATTGTCATTGACAG
Found at i:54810376 original size:13 final size:14
Alignment explanation
Indices: 54810330--54810367 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
54810320 TGCAGAGAAT
*
54810330 CCAAA-TCCAAATT
1 CCAAAGTCCAAATA
*
54810343 TCAAAGTCCAAATA
1 CCAAAGTCCAAATA
54810357 CCAAAGTCCAA
1 CCAAAGTCCAA
54810368 GTGCAAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.47, C:0.29, G:0.05, T:0.18
Consensus pattern (14 bp):
CCAAAGTCCAAATA
Found at i:54842624 original size:30 final size:29
Alignment explanation
Indices: 54842550--54842669 Score: 127
Period size: 29 Copynumber: 4.2 Consensus size: 29
54842540 CACATACCTG
* * * *
54842550 TATATGGCCCACTAGACCC-AATTATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
54842578 CACATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
54842607 TATATGGCCTCTTTAGGCCCAAATCACATT
1 TATATGGCC-CATTAGGCCCAAATCACATT
* * *
54842637 TATGTAGCCCATTAGACCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAAATCACATT
54842665 TATAT
1 TATAT
54842670 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 20 0.26
29 30 0.39
30 26 0.34
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:54842661 original size:29 final size:29
Alignment explanation
Indices: 54842584--54842669 Score: 120
Period size: 30 Copynumber: 3.0 Consensus size: 29
54842574 TATTCACATG
*
54842584 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATTTATATA
* *
54842613 GCCTCTTTAGGCCCAAATCACATTTATGTA
1 GCC-CATTAGGCCCAAATCACATTTATATA
*
54842643 GCCCATTAGACCCAAATCACA-TTATAT
1 GCCCATTAGGCCCAAATCACATTTATAT
54842670 TCATGCTCAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
28 5 0.10
29 19 0.38
30 26 0.52
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATTTATATA
Found at i:54842922 original size:16 final size:16
Alignment explanation
Indices: 54842885--54842915 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54842875 CTAAATTTTG
*
54842885 GCTTTCCGGCATTTCA
1 GCTTTTCGGCATTTCA
54842901 GCTTTTCGGCATTTC
1 GCTTTTCGGCATTTC
54842916 GACTTTTGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.29, G:0.19, T:0.42
Consensus pattern (16 bp):
GCTTTTCGGCATTTCA
Found at i:54844850 original size:16 final size:16
Alignment explanation
Indices: 54844813--54844843 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54844803 CTAAATTTTG
*
54844813 GCTTTCCGGCATTTCA
1 GCTTTTCGGCATTTCA
54844829 GCTTTTCGGCATTTC
1 GCTTTTCGGCATTTC
54844844 GACTTTTGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.29, G:0.19, T:0.42
Consensus pattern (16 bp):
GCTTTTCGGCATTTCA
Found at i:54847729 original size:24 final size:24
Alignment explanation
Indices: 54847697--54847744 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
54847687 TAGACGTGAG
54847697 GGTAATGAATTTTTATGTAGGTTT
1 GGTAATGAATTTTTATGTAGGTTT
54847721 GGTAATGAATTTTTATGTAGGTTT
1 GGTAATGAATTTTTATGTAGGTTT
54847745 TCTTAGTGGA
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:0.00, G:0.25, T:0.50
Consensus pattern (24 bp):
GGTAATGAATTTTTATGTAGGTTT
Found at i:54849371 original size:21 final size:20
Alignment explanation
Indices: 54849347--54849386 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
54849337 CATGTATTTT
54849347 AATGATTAATGATAGATTATG
1 AATGATTAATGATAG-TTATG
*
54849368 AATGTTTAATGATAGTTAT
1 AATGATTAATGATAGTTAT
54849387 ACAAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (20 bp):
AATGATTAATGATAGTTATG
Found at i:54850315 original size:31 final size:31
Alignment explanation
Indices: 54850266--54850324 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
54850256 ATAAGTTTGG
54850266 AAAGTAAGTAATAATTGAT-AAGTTTATATGC
1 AAAGTAAGTAATAATTGATGAA-TTTATATGC
*
54850297 AAAGTAAGTGAA-AGTTGATGAATTTATA
1 AAAGTAAGT-AATAATTGATGAATTTATA
54850325 CATGATACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.34
Consensus pattern (31 bp):
AAAGTAAGTAATAATTGATGAATTTATATGC
Found at i:54853816 original size:15 final size:16
Alignment explanation
Indices: 54853789--54853818 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
54853779 AGATATTCCA
54853789 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
54853805 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
54853819 GGTAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:54860425 original size:6 final size:6
Alignment explanation
Indices: 54860416--54860449 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
54860406 GTTTAAAGAC
*
54860416 TTTTTA TTTTTTA TTTTTA TTTTTA TCTTTA TTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTT
54860450 ATCTTCTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:54862971 original size:12 final size:13
Alignment explanation
Indices: 54862935--54862972 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
54862925 AAATATTTGA
54862935 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
54862948 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
54862962 CTTG-TCTTAAT
1 CTTGTTCTTAAT
54862973 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:54863865 original size:8 final size:8
Alignment explanation
Indices: 54863852--54863890 Score: 78
Period size: 8 Copynumber: 4.9 Consensus size: 8
54863842 ATTAGGGATT
54863852 AAATTATG
1 AAATTATG
54863860 AAATTATG
1 AAATTATG
54863868 AAATTATG
1 AAATTATG
54863876 AAATTATG
1 AAATTATG
54863884 AAATTAT
1 AAATTAT
54863891 ATGGTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (8 bp):
AAATTATG
Found at i:54864343 original size:40 final size:40
Alignment explanation
Indices: 54864299--54864385 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
54864289 TGATGACATA
54864299 TCGGCTAAATATGGCACTTAGTATGCGATTCG-GTATAGCT
1 TCGGCTAAATATGGCACTTAGTATGCGATTCGAG-ATAGCT
* * * *
54864339 TCGGCTAAATGTGGCGCTTAGTGTGCGATTTGAGATAGCT
1 TCGGCTAAATATGGCACTTAGTATGCGATTCGAGATAGCT
*
54864379 TCAGCTA
1 TCGGCTA
54864386 TGTACAACAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (40 bp):
TCGGCTAAATATGGCACTTAGTATGCGATTCGAGATAGCT
Found at i:54864495 original size:28 final size:28
Alignment explanation
Indices: 54864436--54864495 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
54864426 AATGTATGAT
* * * *
54864436 ATATTGAGAATGGAACTTAGTTTGCGAG
1 ATATTGAGAATGGAACTTAGTGTACAAA
54864464 ATATTGAGAAT-GACACTTAGTGTACAAA
1 ATATTGAGAATGGA-ACTTAGTGTACAAA
54864492 ATAT
1 ATAT
54864496 CGAATGATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (28 bp):
ATATTGAGAATGGAACTTAGTGTACAAA
Found at i:54869133 original size:50 final size:50
Alignment explanation
Indices: 54869064--54869273 Score: 307
Period size: 50 Copynumber: 4.2 Consensus size: 50
54869054 TAAATGACCA
* * * *
54869064 TGTATATTCGGCCACATAGGTATGTATAGATGTGGTGTTATATTTGACCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
54869114 TGTATATTCGGCCACATAGGTA--TATATATGTGATGTTATATTTGATGT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
54869162 TGAATATTCGGCCACATAGGTATATACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
54869212 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGGTCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
54869262 TGTGTATTCGGC
1 TGTATATTCGGC
54869274 GAAATGAGTG
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
48 43 0.29
50 103 0.71
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:54878936 original size:324 final size:324
Alignment explanation
Indices: 54878347--54878994 Score: 1296
Period size: 324 Copynumber: 2.0 Consensus size: 324
54878337 GCTCAGATTC
54878347 GGAGATTCATCGGAGTCCGCTTCACAGTATCCATCTATCACTTGGTACCTATGAACTTTGGTATT
1 GGAGATTCATCGGAGTCCGCTTCACAGTATCCATCTATCACTTGGTACCTATGAACTTTGGTATT
54878412 TTAAGTATATGGCATGTATAGGGACTTGATCTTTTTGGAATATATCCTTTGGCCATTTGTGTTGT
66 TTAAGTATATGGCATGTATAGGGACTTGATCTTTTTGGAATATATCCTTTGGCCATTTGTGTTGT
54878477 CTTGTAAATATTAGGTTTGGCATGTAAATATATAGCCATGTGAGTTGGCTTATAATGGTGAATTT
131 CTTGTAAATATTAGGTTTGGCATGTAAATATATAGCCATGTGAGTTGGCTTATAATGGTGAATTT
54878542 GATGATGTATATAAGTGTGTAAATAACCTTTGTTTGAGTTTAGTAATTGCCTTATAAATGTTAGT
196 GATGATGTATATAAGTGTGTAAATAACCTTTGTTTGAGTTTAGTAATTGCCTTATAAATGTTAGT
54878607 TATGATGGTATTTGGTGCTTGTTGAAAATGGATATGGTGAATATCAAATGGTTGATGAATTGGT
261 TATGATGGTATTTGGTGCTTGTTGAAAATGGATATGGTGAATATCAAATGGTTGATGAATTGGT
54878671 GGAGATTCATCGGAGTCCGCTTCACAGTATCCATCTATCACTTGGTACCTATGAACTTTGGTATT
1 GGAGATTCATCGGAGTCCGCTTCACAGTATCCATCTATCACTTGGTACCTATGAACTTTGGTATT
54878736 TTAAGTATATGGCATGTATAGGGACTTGATCTTTTTGGAATATATCCTTTGGCCATTTGTGTTGT
66 TTAAGTATATGGCATGTATAGGGACTTGATCTTTTTGGAATATATCCTTTGGCCATTTGTGTTGT
54878801 CTTGTAAATATTAGGTTTGGCATGTAAATATATAGCCATGTGAGTTGGCTTATAATGGTGAATTT
131 CTTGTAAATATTAGGTTTGGCATGTAAATATATAGCCATGTGAGTTGGCTTATAATGGTGAATTT
54878866 GATGATGTATATAAGTGTGTAAATAACCTTTGTTTGAGTTTAGTAATTGCCTTATAAATGTTAGT
196 GATGATGTATATAAGTGTGTAAATAACCTTTGTTTGAGTTTAGTAATTGCCTTATAAATGTTAGT
54878931 TATGATGGTATTTGGTGCTTGTTGAAAATGGATATGGTGAATATCAAATGGTTGATGAATTGGT
261 TATGATGGTATTTGGTGCTTGTTGAAAATGGATATGGTGAATATCAAATGGTTGATGAATTGGT
54878995 AATTAGTTTG
Statistics
Matches: 324, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
324 324 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (324 bp):
GGAGATTCATCGGAGTCCGCTTCACAGTATCCATCTATCACTTGGTACCTATGAACTTTGGTATT
TTAAGTATATGGCATGTATAGGGACTTGATCTTTTTGGAATATATCCTTTGGCCATTTGTGTTGT
CTTGTAAATATTAGGTTTGGCATGTAAATATATAGCCATGTGAGTTGGCTTATAATGGTGAATTT
GATGATGTATATAAGTGTGTAAATAACCTTTGTTTGAGTTTAGTAATTGCCTTATAAATGTTAGT
TATGATGGTATTTGGTGCTTGTTGAAAATGGATATGGTGAATATCAAATGGTTGATGAATTGGT
Found at i:54884410 original size:39 final size:39
Alignment explanation
Indices: 54884246--54884428 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
54884236 TTGAATGCTG
* * * * * * *
54884246 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
54884286 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
54884326 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
54884366 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
54884405 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
54884429 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:54884448 original size:79 final size:80
Alignment explanation
Indices: 54884282--54884463 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
54884272 GCTAAGTGAA
* * * *
54884282 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
54884346 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
54884362 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
54884426 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
54884441 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
54884464 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:54890383 original size:21 final size:20
Alignment explanation
Indices: 54890359--54890398 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
54890349 CATGTATTTT
*
54890359 AATGATTGATGATAGATTATG
1 AATGATTAATGATAG-TTATG
*
54890380 AATGTTTAATGATAGTTAT
1 AATGATTAATGATAGTTAT
54890399 ACAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTAATGATAGTTATG
Found at i:54898359 original size:10 final size:10
Alignment explanation
Indices: 54898344--54898380 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
54898334 CAATGATTAA
*
54898344 TTAAAATTTT
1 TTAAAAATTT
54898354 TTAAAAATTT
1 TTAAAAATTT
54898364 TTAAAAATTT
1 TTAAAAATTT
54898374 TTAAAAA
1 TTAAAAA
54898381 ATTATAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TTAAAAATTT
Found at i:54898362 original size:11 final size:11
Alignment explanation
Indices: 54898346--54898383 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
54898336 ATGATTAATT
54898346 AAAATTTTTTA
1 AAAATTTTTTA
54898357 AAAA-TTTTTA
1 AAAATTTTTTA
*
54898367 AAAATTTTTAA
1 AAAATTTTTTA
54898378 AAAATT
1 AAAATT
54898384 ATAATGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATTTTTTA
Found at i:54901989 original size:172 final size:173
Alignment explanation
Indices: 54901769--54902087 Score: 453
Period size: 172 Copynumber: 1.8 Consensus size: 173
54901759 TTAAGGATCA
** * * *
54901769 TACAAATTTAAATGAAATTGTAAGGATAAGTAAATATATATTATATGAATCTTGGATTTAATTTA
1 TACAAATTTAAATGAAATTGTAAGGATAAAAAAACATATATTATATGAATCTTAGATTGAATTTA
* * * * *
54901834 AATGATTCATTCACTCA-ATTTAAAATCTAAGACTCTAATAAGGTAAACAATGTTAGTTAACATT
66 AATGATTCATTCACTCATATTTAAAATATAAGACTCCAAAAAGGCAAACAATGTTACTTAACATT
*
54901898 TCGATTATAAGTTAACTGAATGCCACAACCTCATTATTGATAG
131 TCAATTATAAGTTAACTGAATGCCACAACCTCATTATTGATAG
*
54901941 TACAAATTTTAAT-AAAGTTGTAAGGATAAAAAAACATATATTATATGAATCTTAGATTGAATTT
1 TACAAATTTAAATGAAA-TTGTAAGGATAAAAAAACATATATTATATGAATCTTAGATTGAATTT
* * * ***
54902005 AAATGATTCATTCGCTCATTTTTAAAATATAAGACTCCAAAAAGGCAAATAATGTTACTTAGTTT
65 AAATGATTCATTCACTCATATTTAAAATATAAGACTCCAAAAAGGCAAACAATGTTACTTAACAT
54902070 TTCAATTATAAGTTAACT
130 TTCAATTATAAGTTAACT
54902088 CAATAATAAG
Statistics
Matches: 127, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
171 3 0.02
172 71 0.56
173 53 0.42
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (173 bp):
TACAAATTTAAATGAAATTGTAAGGATAAAAAAACATATATTATATGAATCTTAGATTGAATTTA
AATGATTCATTCACTCATATTTAAAATATAAGACTCCAAAAAGGCAAACAATGTTACTTAACATT
TCAATTATAAGTTAACTGAATGCCACAACCTCATTATTGATAG
Found at i:54902122 original size:172 final size:172
Alignment explanation
Indices: 54901769--54902133 Score: 450
Period size: 172 Copynumber: 2.1 Consensus size: 172
54901759 TTAAGGATCA
* ** * * *
54901769 TACAAATTTAAATGAAATTGTAAGGATAAGTAAATATATATTATATGAATCTTGGATTTAATTTA
1 TACAAATTTTAATGAAATTGTAAGGATAAAAAAACATATATTATATGAATCTTAGATTGAATTTA
* * * * *
54901834 AATGATTCATTCACTCAATTTAAAATCTAAGACTCTAATAAGGTAAACAATGTTAGTTAACATTT
66 AATGATTCATTCACTCAATTTAAAATATAAGACTCCAAAAAGGCAAACAATGTTACTTAACATTT
* * **
54901899 CGATTATAAGTTAACTGAATGCCACAACCTCATTATTGATAG
131 CAATTATAAGTTAACTCAATAACACAACCTCATTATTGATAG
54901941 TACAAATTTTAAT-AAAGTTGTAAGGATAAAAAAACATATATTATATGAATCTTAGATTGAATTT
1 TACAAATTTTAATGAAA-TTGTAAGGATAAAAAAACATATATTATATGAATCTTAGATTGAATTT
* * * ***
54902005 AAATGATTCATTCGCTCATTTTTAAAATATAAGACTCCAAAAAGGCAAATAATGTTACTTAGTTT
65 AAATGATTCATTCACTCA-ATTTAAAATATAAGACTCCAAAAAGGCAAACAATGTTACTTAACAT
* *
54902070 TTCAATTATAAGTTAACTCAATAATA-AGACCTCATTGATT-ATGG
129 TTCAATTATAAGTTAACTCAATAACACA-ACCTCATT-ATTGATAG
54902114 TA-AAATTTTAATGAATATTG
1 TACAAATTTTAATGAA-ATTG
54902134 AATCAAGTTT
Statistics
Matches: 164, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
171 3 0.02
172 82 0.50
173 75 0.46
174 4 0.02
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (172 bp):
TACAAATTTTAATGAAATTGTAAGGATAAAAAAACATATATTATATGAATCTTAGATTGAATTTA
AATGATTCATTCACTCAATTTAAAATATAAGACTCCAAAAAGGCAAACAATGTTACTTAACATTT
CAATTATAAGTTAACTCAATAACACAACCTCATTATTGATAG
Found at i:54909893 original size:41 final size:41
Alignment explanation
Indices: 54909837--54909915 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
54909827 GTTTGCAATA
* *
54909837 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
1 AAACGCCGCAAAAAACTGAACAATAGCGGCGCTTTTGGTCC
* *
54909878 AAACGTCGCTAAAAACTGAACAATAGCGGCGCTTTTGG
1 AAACGCCGCAAAAAACTGAACAATAGCGGCGCTTTTGG
54909916 AAAAACGCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (41 bp):
AAACGCCGCAAAAAACTGAACAATAGCGGCGCTTTTGGTCC
Found at i:54910018 original size:41 final size:41
Alignment explanation
Indices: 54909901--54910047 Score: 188
Period size: 41 Copynumber: 3.6 Consensus size: 41
54909891 AACTGAACAA
*
54909901 TAGCGGCGCTTTTGGAAAAACGCCACTATAGATCGAGG-TT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
** * ** *
54909941 TAATGGCGTTTTTCCAAAAGCGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* *
54909982 TAGCGGCGCTTTTAGAAAAACGCCGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* *
54910023 TAGTGGCACTTTTGGAAAAACGCCG
1 TAGCGGCGCTTTTGGAAAAACGCCG
54910048 TAAAAAAGTA
Statistics
Matches: 89, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 31 0.35
41 58 0.65
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
Found at i:54916349 original size:31 final size:30
Alignment explanation
Indices: 54916309--54916367 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 30
54916299 TATTTTTATA
54916309 TTTAATCT-AATTTTTATTATTTATTTTAGT
1 TTTAATCTAAATTTTTATT-TTTATTTTAGT
54916339 TTTAATTCTAAATTTTTATTTTTATTTTA
1 TTTAA-TCTAAATTTTTATTTTTATTTTA
54916368 ATATTTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 5 0.19
31 12 0.44
32 10 0.37
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (30 bp):
TTTAATCTAAATTTTTATTTTTATTTTAGT
Done.