Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 25 of 199
Found at i:7304155 original size:7 final size:7
Alignment explanation
Indices: 7304143--7304176 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
7304133 TAATAAGGTA
*
7304143 TTTATAG
1 TTTATAT
7304150 TTTATAT
1 TTTATAT
7304157 TTTATAT
1 TTTATAT
7304164 TTTATAT
1 TTTATAT
7304171 TTTATA
1 TTTATA
7304177 GTTATTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
TTTATAT
Found at i:7304162 original size:14 final size:14
Alignment explanation
Indices: 7304143--7304179 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7304133 TAATAAGGTA
7304143 TTTATAGTTTATAT
1 TTTATAGTTTATAT
*
7304157 TTTATATTTTATAT
1 TTTATAGTTTATAT
7304171 TTTATAGTT
1 TTTATAGTT
7304180 ATTGTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
TTTATAGTTTATAT
Found at i:7306871 original size:41 final size:40
Alignment explanation
Indices: 7306791--7306926 Score: 136
Period size: 41 Copynumber: 3.5 Consensus size: 40
7306781 ACCAGTTTGG
* *
7306791 CACCCAGTGCCTCATTGGAT-AATTTGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGATAAATCTGAAGTA-TAAATTGA
*
7306831 CACCCAGTGCCTCATCGAATAAATCTGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGATAAATCTGAAGT-ATAAATTGA
* * * * * *
7306872 CACCTAATGTCTCATCGGTTAAA-CCGAAG--TAAATTGG
1 CACCCAGTGCCTCATCGGATAAATCTGAAGTATAAATTGA
*
7306909 CACCCAGTGCCTTATCGG
1 CACCCAGTGCCTCATCGG
7306927 CTCGAAGTCG
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 21 0.26
40 23 0.29
41 35 0.44
42 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAAATCTGAAGTATAAATTGA
Found at i:7307806 original size:25 final size:25
Alignment explanation
Indices: 7307778--7307834 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
7307768 TCTTTCTCTT
7307778 TTTCTTTTTA-TTTCTTTCCTTTCTG
1 TTTCTTTTTACTTTCTTT-CTTTCTG
* *
7307803 TTTCGTTTTACTTTCTTTCTTTCTT
1 TTTCTTTTTACTTTCTTTCTTTCTG
7307828 TTTCTTT
1 TTTCTTT
7307835 ATTTCATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.74
Consensus pattern (25 bp):
TTTCTTTTTACTTTCTTTCTTTCTG
Found at i:7314295 original size:17 final size:18
Alignment explanation
Indices: 7314273--7314307 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7314263 AATATAATAG
7314273 GCACAATTAAAT-TTTAA
1 GCACAATTAAATATTTAA
*
7314290 GCACAATTGAATATTTAA
1 GCACAATTAAATATTTAA
7314308 AACCCCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (18 bp):
GCACAATTAAATATTTAA
Found at i:7314684 original size:40 final size:41
Alignment explanation
Indices: 7314629--7314738 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 41
7314619 ACTAGTTTGG
* * *
7314629 CACCCAGTGCCTCATCGGAT-AATTCGAAGTAGTAAATTGA
1 CACCCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGA
*
7314669 CACCCAATGTCTCATCGAATAAATCCGAAGTAGTAAATTGA
1 CACCCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGA
* *
7314710 CACCC-A-GTCTCATCGGTTAAA-CTGAAGTA
1 CACCCAATGTCTCATCGGATAAATCCGAAGTA
7314739 AATTGGCAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 7 0.11
39 13 0.21
40 18 0.29
41 24 0.39
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
CACCCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGA
Found at i:7314914 original size:2 final size:2
Alignment explanation
Indices: 7314897--7314944 Score: 73
Period size: 2 Copynumber: 24.5 Consensus size: 2
7314887 TTTGCACATC
7314897 TA TA TA T- TCA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7314938 TA TA TA T
1 TA TA TA T
7314945 CAATTCAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.05
2 40 0.93
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7316362 original size:15 final size:15
Alignment explanation
Indices: 7316342--7316376 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7316332 GAATCTAAAC
*
7316342 TGTGTTAATAAATAT
1 TGTGTTAACAAATAT
7316357 TGTGTTAACAAATAT
1 TGTGTTAACAAATAT
7316372 TGTGT
1 TGTGT
7316377 GTGAATTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (15 bp):
TGTGTTAACAAATAT
Found at i:7316606 original size:14 final size:14
Alignment explanation
Indices: 7316589--7316618 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7316579 AAAAAAAAAA
*
7316589 AATTTTTTAATTTT
1 AATTTTTAAATTTT
7316603 AATTTTTAAATTTT
1 AATTTTTAAATTTT
7316617 AA
1 AA
7316619 AANNNNNNNN
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTTTAAATTTT
Found at i:7318246 original size:22 final size:21
Alignment explanation
Indices: 7318221--7318266 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
7318211 GAAATAGACT
*
7318221 CTTTAAATTTATCATTTTATCC
1 CTTTAAATTTACCATTTT-TCC
7318243 CTTTAAATTTACCATTTTTCC
1 CTTTAAATTTACCATTTTTCC
7318264 CTT
1 CTT
7318267 CAAAAAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (21 bp):
CTTTAAATTTACCATTTTTCC
Found at i:7326175 original size:41 final size:41
Alignment explanation
Indices: 7326124--7326205 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
7326114 GTCTCATGTT
*
7326124 TACATTACTTACATATTATAATATATTTTATATAGTTTGTA
1 TACATTACTTACATATTATAATATATTTTATATAATTTGTA
7326165 TACATTACTTACATATTATAATATATTTTATATAATTTGTA
1 TACATTACTTACATATTATAATATATTTTATATAATTTGTA
7326206 ATAATGATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (41 bp):
TACATTACTTACATATTATAATATATTTTATATAATTTGTA
Found at i:7327532 original size:2 final size:2
Alignment explanation
Indices: 7327525--7327549 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7327515 TTATAAGCAA
7327525 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7327550 GAAGTCTTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7334419 original size:12 final size:12
Alignment explanation
Indices: 7334402--7334426 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7334392 GGTGTGCATT
7334402 CGGTTAACCGAC
1 CGGTTAACCGAC
7334414 CGGTTAACCGAC
1 CGGTTAACCGAC
7334426 C
1 C
7334427 CGAATTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:7334600 original size:9 final size:9
Alignment explanation
Indices: 7334586--7334660 Score: 116
Period size: 9 Copynumber: 8.4 Consensus size: 9
7334576 TGGTTAAAAA
7334586 TTAACCGAT
1 TTAACCGAT
*
7334595 TTAACCTAT
1 TTAACCGAT
7334604 TTAACCGA-
1 TTAACCGAT
7334612 TTAACCGAT
1 TTAACCGAT
*
7334621 TTAACCGAC
1 TTAACCGAT
7334630 TTAACCGAT
1 TTAACCGAT
*
7334639 TTAACCGAC
1 TTAACCGAT
7334648 TTAACCGAT
1 TTAACCGAT
7334657 TTAA
1 TTAA
7334661 ATCACTATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
8 8 0.14
9 51 0.86
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (9 bp):
TTAACCGAT
Found at i:7334619 original size:26 final size:26
Alignment explanation
Indices: 7334585--7334660 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
7334575 TTGGTTAAAA
*
7334585 ATTAACCGATTTAACCTATTTAACCG
1 ATTAACCGATTTAACCGATTTAACCG
*
7334611 ATTAACCGATTTAACCGACTTAACCG
1 ATTAACCGATTTAACCGATTTAACCG
*
7334637 ATTTAACCGACTTAACCGATTTAA
1 A-TTAACCGATTTAACCGATTTAA
7334661 ATCACTATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.56
27 20 0.44
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.32
Consensus pattern (26 bp):
ATTAACCGATTTAACCGATTTAACCG
Found at i:7334715 original size:37 final size:37
Alignment explanation
Indices: 7334660--7334769 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
7334650 AACCGATTTA
* * *
7334660 AATCACTATATAATTAAAAAAATTACACAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
7334697 AATCACTACATAACTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
7334734 AATCACTACATAATTAAAAATATTACATAAGTCTTT
1 AATCACTACATAATTAAAAATATTACATAAGTCTTT
7334770 AACACATAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.34
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:7334725 original size:17 final size:17
Alignment explanation
Indices: 7334703--7334763 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
7334693 TTTGAATCAC
7334703 TACATAACTAAAAATAT
1 TACATAACTAAAAATAT
*** *
7334720 TACATAAGTCTTTGAATCAC
1 TACATAA--CTAAAAAT-AT
*
7334740 TACATAATTAAAAATAT
1 TACATAACTAAAAATAT
7334757 TACATAA
1 TACATAA
7334764 GTCTTTAACA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAACTAAAAATAT
Found at i:7334745 original size:20 final size:20
Alignment explanation
Indices: 7334683--7334746 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
7334673 TTAAAAAAAT
*
7334683 TACACAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
*** *
7334703 TACATAA--CTAAAAAT-AT
1 TACATAAGTCTTTGAATCAC
7334720 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
7334740 TACATAA
1 TACATAA
7334747 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 5 0.16
20 14 0.44
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:7335025 original size:7 final size:7
Alignment explanation
Indices: 7335013--7335057 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
7335003 GTACAGAAGA
7335013 AAACATG
1 AAACATG
7335020 AAACATG
1 AAACATG
* **
7335027 CAGTATG
1 AAACATG
7335034 AAACATG
1 AAACATG
7335041 AAAACATG
1 -AAACATG
7335049 AAACATG
1 AAACATG
7335056 AA
1 AA
7335058 TTATTCTTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.56, C:0.13, G:0.16, T:0.16
Consensus pattern (7 bp):
AAACATG
Found at i:7339510 original size:3 final size:3
Alignment explanation
Indices: 7339502--7339535 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7339492 ATAGCAACTG
7339502 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7339536 AGTTATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7354328 original size:125 final size:126
Alignment explanation
Indices: 7354145--7354651 Score: 641
Period size: 124 Copynumber: 4.1 Consensus size: 126
7354135 TAAGGCCAAG
*
7354145 CAAGAACTACTGTAGAAAAA-A-AGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* ** * * * * *
7354208 ATCTTGGTTAAAACGTTTTTGACACTATTTTTTCAAAACCGTCTTATCAAAATTACTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
*
7354269 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAG-TTTTTTCAGTAATTTTGTTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* **
7354333 ATCCTACTTAAAGCATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATT-TTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
* * * * *
7354393 -AGGAACTACTGTAGAAAAAGAGCATTCACGTGGGAGCTTTTTTCAATAACTTTGCTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
7354457 ATCCTACTTGAAGCGTTTTTGACATTATTTTTTTAGAATCATCTTCTCAAAATTATTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
** * ** * * *
7354518 TTAGAAACTACTGTAGAAAAATAGCGTTTACGTGGGAGCTTTTTTCAGTACTTTTGCTGACATTA
1 CAAG-AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
* * * * *
7354583 CATCCTGCTTGAATCGTTTTTGTCACTA-TTTTTCAGAACCATTTTCTCAAAATTATTTTTT
65 CATCCTACTTAAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
7354644 CAA-AACTA
1 CAAGAACTA
7354652 TTTTATCAAA
Statistics
Matches: 334, Mismatches: 43, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
123 33 0.10
124 101 0.30
125 79 0.24
126 45 0.13
127 76 0.23
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (126 bp):
CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCCTACTTAAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
Found at i:7354645 original size:28 final size:28
Alignment explanation
Indices: 7354611--7354676 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
7354601 TTTGTCACTA
*
7354611 TTTTTCAGAACCATTTTCTCAAAATTAT
1 TTTTTCAGAACCATTTTATCAAAATTAT
* *
7354639 TTTTTCAAAACTATTTTATCAAAATTAT
1 TTTTTCAGAACCATTTTATCAAAATTAT
7354667 TTTTTCAGAA
1 TTTTTCAGAA
7354677 ACTACTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTTTCAGAACCATTTTATCAAAATTAT
Found at i:7354646 original size:14 final size:14
Alignment explanation
Indices: 7354623--7354673 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
7354613 TTTCAGAACC
*
7354623 ATTTTCTCAAAATT
1 ATTTTTTCAAAATT
*
7354637 ATTTTTTCAAAACT
1 ATTTTTTCAAAATT
*
7354651 ATTTTATCAAAATT
1 ATTTTTTCAAAATT
7354665 ATTTTTTCA
1 ATTTTTTCA
7354674 GAAACTACTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTTTTCAAAATT
Found at i:7354861 original size:32 final size:33
Alignment explanation
Indices: 7354768--7354865 Score: 101
Period size: 32 Copynumber: 3.0 Consensus size: 33
7354758 CCTAAACAAA
* * * *
7354768 AATTTATTTTTAAAAAGCCCCAAACCCTAATTT
1 AATTAATTTTAAAAAAACCCTAAACCCTAATTT
***
7354801 AATTAATTTTCCTAAAACCCTAAA-CCTAATTT
1 AATTAATTTTAAAAAAACCCTAAACCCTAATTT
**
7354833 AATTAA-TTTAAAAAAATTCTAAACCCTAATTT
1 AATTAATTTTAAAAAAACCCTAAACCCTAATTT
7354865 A
1 A
7354866 TTTTTTAAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
31 12 0.23
32 23 0.43
33 18 0.34
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (33 bp):
AATTAATTTTAAAAAAACCCTAAACCCTAATTT
Found at i:7356994 original size:28 final size:26
Alignment explanation
Indices: 7356940--7357008 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 26
7356930 TACCTTGAAC
*
7356940 CTCAATCCCAAAACTCTAAACACTAAA
1 CTCAATCCC-AAACCCTAAACACTAAA
**
7356967 TCTACAATCCCAAACCCTAAACTTTAAA
1 -CT-CAATCCCAAACCCTAAACACTAAA
7356995 CTCAAATCCCAAAC
1 CTC-AATCCCAAAC
7357009 TTGTAGCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.03
27 12 0.33
28 16 0.44
29 7 0.19
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (26 bp):
CTCAATCCCAAACCCTAAACACTAAA
Found at i:7365522 original size:125 final size:125
Alignment explanation
Indices: 7365256--7365667 Score: 709
Period size: 125 Copynumber: 3.3 Consensus size: 125
7365246 ATTTATTAAG
* *
7365256 GAAATCGCTCCCACGTGGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
7365321 GTTTTTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
*
7365380 GAAATCGCTCCTACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
7365445 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAAGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* * * *
7365505 AAAATCGCTCCCACGTGGACGCGCTTTTTCTATAGTAGGTCCTGAAAAAATAATTTCAAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
7365570 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATTAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
*
7365630 GAAATCGCTCCCACGTGGACGCGCTTTTGCTAGAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
7365668 CATGTTTGGG
Statistics
Matches: 271, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
124 80 0.30
125 191 0.70
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
Found at i:7366644 original size:14 final size:14
Alignment explanation
Indices: 7366625--7366654 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7366615 GATGATGCGT
7366625 TGGATCATAAACCA
1 TGGATCATAAACCA
*
7366639 TGGATCCTAAACCA
1 TGGATCATAAACCA
7366653 TG
1 TG
7366655 ATATGTATTC
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:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (14 bp):
TGGATCATAAACCA
Found at i:7368205 original size:11 final size:11
Alignment explanation
Indices: 7368189--7368245 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
7368179 TCTTTTAAAT
7368189 AGGAATTTGAG
1 AGGAATTTGAG
7368200 AGGAATTTGAG
1 AGGAATTTGAG
7368211 AGGAATTTGAG
1 AGGAATTTGAG
7368222 A-GAATATT-AG
1 AGGAAT-TTGAG
*
7368232 AGAGAAATTGAG
1 AG-GAATTTGAG
7368244 AG
1 AG
7368246 AAAGGATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
10 7 0.17
11 27 0.66
12 7 0.17
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:7370703 original size:104 final size:101
Alignment explanation
Indices: 7370500--7370759 Score: 389
Period size: 104 Copynumber: 2.6 Consensus size: 101
7370490 TTTGTTAGTA
* * * *
7370500 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATAAATATAAATTTTTATG-TTGTTTTTAATT
1 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGT-AATTTTTTTGTTTTTTTTTAATT
7370564 TATTTTAAAGTCATTTTGTTAGTAATTATTATAAATT
65 TATTTTAAAGTCATTTTGTTAGTAATTATTATAAATT
* *
7370601 ATTTGTTTAGTTTAAAGTTTTTTGTGATTTGTTATGAATGTAATTTTTGTTGTTTTTTTTTAAAA
1 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAATTTTT-TTGTTTTTTTTT--AA
*
7370666 TTTATTTTAAAGTTATTTTGTTAGTAATTATTATAAATT
63 TTTATTTTAAAGTCATTTTGTTAGTAATTATTATAAATT
* *
7370705 ATTTGTTTAGTTTAATGCTTATTATGATTTGTTATGAATGT-ATTTTTTTGTTTTT
1 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAATTTTTTTGTTTTT
7370760 GATTTATTTG
Statistics
Matches: 144, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
100 7 0.05
101 39 0.27
102 15 0.10
103 6 0.04
104 77 0.53
ACGTcount: A:0.27, C:0.01, G:0.12, T:0.60
Consensus pattern (101 bp):
ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAATTTTTTTGTTTTTTTTTAATTT
ATTTTAAAGTCATTTTGTTAGTAATTATTATAAATT
Found at i:7371019 original size:14 final size:14
Alignment explanation
Indices: 7370984--7371060 Score: 61
Period size: 14 Copynumber: 5.5 Consensus size: 14
7370974 TGAGATATTT
7370984 TTTATTGTAATTATA
1 TTTATTGT-ATTATA
7370999 TTATTATTGTATTATA
1 -T-TTATTGTATTATA
*
7371015 TTTATCGTA-T-TA
1 TTTATTGTATTATA
*
7371027 TTTATTGTATAATA
1 TTTATTGTATTATA
* *
7371041 TTAATT-TTTTATA
1 TTTATTGTATTATA
*
7371054 ATTATTG
1 TTTATTG
7371061 AAAACGAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
12 10 0.20
13 10 0.20
14 14 0.29
15 1 0.02
16 7 0.14
17 7 0.14
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTATTGTATTATA
Found at i:7371019 original size:17 final size:18
Alignment explanation
Indices: 7370978--7371019 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
7370968 AATTTATGAG
*
7370978 ATATTTTTTATTGTAATT
1 ATATTTATTATTGTAATT
7370996 ATA-TTATTATTGT-ATT
1 ATATTTATTATTGTAATT
7371012 ATATTTAT
1 ATATTTAT
7371020 CGTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATATTTATTATTGTAATT
Found at i:7373490 original size:21 final size:21
Alignment explanation
Indices: 7373466--7373511 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
7373456 TGAGAGATCA
* *
7373466 CACATGGGCGTGTGGGATGGT
1 CACATGGGCGTGTAGGATGGC
7373487 CACATGGGCGTGTAGGATGGC
1 CACATGGGCGTGTAGGATGGC
7373508 CACA
1 CACA
7373512 CGACCATGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.41, T:0.20
Consensus pattern (21 bp):
CACATGGGCGTGTAGGATGGC
Found at i:7376921 original size:24 final size:24
Alignment explanation
Indices: 7376889--7376941 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
7376879 AAAAAAATTC
*
7376889 TTTTGCTACTCTTGAATCTTAAAA
1 TTTTACTACTCTTGAATCTTAAAA
*
7376913 TTTTACTACTTTTGAATCTTAAAA
1 TTTTACTACTCTTGAATCTTAAAA
7376937 TTTTA
1 TTTTA
7376942 TCTGCACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (24 bp):
TTTTACTACTCTTGAATCTTAAAA
Found at i:7377856 original size:16 final size:16
Alignment explanation
Indices: 7377835--7377887 Score: 106
Period size: 16 Copynumber: 3.3 Consensus size: 16
7377825 TTGGTTCGCT
7377835 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
7377851 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
7377867 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
7377883 GTAAT
1 GTAAT
7377888 AGCAATTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.38, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:7377962 original size:44 final size:45
Alignment explanation
Indices: 7377869--7377963 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
7377859 ATAGAGGCGT
* *
7377869 AATGGAATAGAGGCGTAATAGCAATTCAATTATTTGGTTGGATGT
1 AATGGAATAGAGGCGTAATAGCAATTCAATTATTTGGTTGAATGG
* *
7377914 AATGGAATAGAGGCGTAATAG-TATTC-TTGTATTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGCAATTCAAT-TATTTGGTTGAATGG
7377958 AATGGA
1 AATGGA
7377964 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGCAATTCAATTATTTGGTTGAATGG
Found at i:7378306 original size:117 final size:117
Alignment explanation
Indices: 7378100--7378391 Score: 489
Period size: 117 Copynumber: 2.5 Consensus size: 117
7378090 TTAATCATAT
7378100 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTT-ATAAAATTCTTAATAAT
7378165 CAATATTCTTATATGAATTTACTAAAATC-ATATATGATACTATAAAATATAA
65 CAATATTCTTATATGAATTTACTAAAATCAATATATGATACTATAAAATATAA
*
7378217 TTTAACATAATTATTATTAAATATATTTTAATTAAGATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTT-ATAAAATTCTTAATAAT
7378282 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
65 CAATATTCTTATATGAATTTACTAAAATC--AATATATGATACTATAAAATATAA
* * *
7378337 TTTGAA-ATAATAATTATTAAATATATTGTAATTAAAATATATGATTTATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAAAATT
7378392 TAAAATAATT
Statistics
Matches: 165, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
117 92 0.56
119 8 0.05
120 63 0.38
121 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (117 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCAATATATGATACTATAAAATATAA
Found at i:7378330 original size:61 final size:60
Alignment explanation
Indices: 7378148--7378332 Score: 170
Period size: 61 Copynumber: 3.1 Consensus size: 60
7378138 ATATAATTTG
7378148 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATC--ATATATGATACT
1 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAAATATATGATACT
* * * * * ** * * *
7378206 ATAAAA-T-ATAATTTAA-C-ATAATTATTAT-TAAATATATTTTAATTAAGATATATAAT-TT
1 ATAAAATTCTTAA--TAATCAAT-ATTCTTATATGAATTTACTAAAATCAA-ATATATGATACT
7378264 AATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCA-AATATATGATACT
7378326 ATAAAAT
1 ATAAAAT
7378333 ATAATTTGAA
Statistics
Matches: 93, Mismatches: 20, Indels: 25
0.67 0.14 0.18
Matches are distributed among these distances:
56 15 0.16
57 9 0.10
58 10 0.11
59 17 0.18
60 9 0.10
61 31 0.33
62 2 0.02
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (60 bp):
ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAAATATATGATACT
Found at i:7378380 original size:59 final size:57
Alignment explanation
Indices: 7378100--7378390 Score: 146
Period size: 59 Copynumber: 4.9 Consensus size: 57
7378090 TTAATCATAT
* * * * *
7378100 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAAT-T-C
1 TTTAA-ATAATAATTATTAAATATATTATAATTAAAATATATGATCT-ATAAAATATAA
* * * * *
7378157 TTAATAATCAAT-ATTCTTATATGA-ATT-TACTAAAATCATATATGATACTATAAAATATAA
1 TTTA-AAT-AATAATTATTAAAT-ATATTATAATTAAA--ATATATGAT-CTATAAAATATAA
* * * * * *
7378217 TTTAACATAATTATTATTAAATATATTTTAATTAAGATATATAATTTAATAAAAT-T-C
1 TTTAA-ATAATAATTATTAAATATATTATAATTAAAATATATGATCT-ATAAAATATAA
* * * * * * * *
7378274 TTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
1 TTTA-AAT-AATA--ATTAT-TAAATATATTATAATTAAAATATATGAT-CTATAAAATATAA
* *
7378337 TTTGAAATAATAATTATTAAATATATTGTAATTAAAATATATGATTTATAAAAT
1 TTT-AAATAATAATTATTAAATATATTATAATTAAAATATATGATCTATAAAAT
7378391 TTAAAATAAT
Statistics
Matches: 171, Mismatches: 41, Indels: 43
0.67 0.16 0.17
Matches are distributed among these distances:
56 6 0.04
57 21 0.12
58 34 0.20
59 43 0.25
60 24 0.14
61 31 0.18
62 6 0.04
63 5 0.03
64 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (57 bp):
TTTAAATAATAATTATTAAATATATTATAATTAAAATATATGATCTATAAAATATAA
Found at i:7378445 original size:47 final size:46
Alignment explanation
Indices: 7378374--7378613 Score: 155
Period size: 47 Copynumber: 5.3 Consensus size: 46
7378364 GTAATTAAAA
*
7378374 TATATG-ATTTATAAAATTTAAAATAATTATTACTAATAAATTTTCT
1 TATATGAATTTATATAATTTAAAATAATTATTA-TAATAAATTTTCT
* * *
7378420 TATATGAATTTCTATAATTTAAAATAATTA--ATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * * *
7378465 TA-AT-AATAATATATGATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
* * *
7378511 TATATGAATTTGTATAATTTAAAATAATTA--ATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * * *
7378556 TA-AT-AATGATATATAATTTCATAA-AATTCTTAATAATAAATATTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
7378602 TATATGAATTTA
1 TATATGAATTTA
7378614 CTAAAATCAT
Statistics
Matches: 146, Mismatches: 26, Indels: 43
0.68 0.12 0.20
Matches are distributed among these distances:
43 6 0.04
44 44 0.30
45 17 0.12
46 18 0.12
47 55 0.38
48 6 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATTATAATAAATTTTCT
Found at i:7378454 original size:91 final size:88
Alignment explanation
Indices: 7378359--7378612 Score: 266
Period size: 91 Copynumber: 2.8 Consensus size: 88
7378349 ATTATTAAAT
* * *
7378359 ATATTGTAATTAAAATATATGATTTATAAAATTT-AAAATAATTATTACTAATAAATTTTCTTAT
1 ATATT-TAATTAAAATATATGA-TTATATAATTTCATAA-AATTCTTA-TAATAAATTTTCTTAT
7378423 ATGAATTTCTATAATTTAAAATAATTA
62 ATGAATTTCTATAATTTAAAATAATTA
* * *
7378450 ATATTAAATATAATTTAATA-AT-AATATATGATTTCATAAAATTCTTGATAATAAATTTTCTTA
1 ATATTTAAT-TAA---AATATATGATTATATAATTTCATAAAATTCTT-ATAATAAATTTTCTTA
*
7378513 TATGAATTTGTATAATTTAAAATAATTA
61 TATGAATTTCTATAATTTAAAATAATTA
* *
7378541 ATATTAAATATAATTTAATA-ATGA-TATATAATTTCATAAAATTCTTAATAATAAATATTCTTA
1 ATATTTAAT-TAA---AATATATGATTATATAATTTCATAAAATTCTT-ATAATAAATTTTCTTA
7378604 TATGAATTT
61 TATGAATTT
7378613 ACTAAAATCA
Statistics
Matches: 146, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
90 3 0.02
91 131 0.90
92 6 0.04
93 2 0.01
94 4 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (88 bp):
ATATTTAATTAAAATATATGATTATATAATTTCATAAAATTCTTATAATAAATTTTCTTATATGA
ATTTCTATAATTTAAAATAATTA
Found at i:7378483 original size:18 final size:17
Alignment explanation
Indices: 7378439--7378488 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 17
7378429 TTCTATAATT
*
7378439 TAAA-ATAA-TTAATAT
1 TAAATATAATTTAATAA
7378454 TAAATATAATTTAATAA
1 TAAATATAATTTAATAA
* *
7378471 TAATATATGATTTCATAA
1 TAA-ATATAATTTAATAA
7378489 AATTCTTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 4 0.14
16 4 0.14
17 9 0.31
18 12 0.41
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAATATAATTTAATAA
Found at i:7378488 original size:26 final size:26
Alignment explanation
Indices: 7378419--7378488 Score: 63
Period size: 26 Copynumber: 2.6 Consensus size: 26
7378409 ATAAATTTTC
7378419 TTATATGAATTTCTATAATTTAAAATAA
1 TTATATG-ATTTC-ATAATTTAAAATAA
* **
7378447 TTAATATTAAAT-ATAATTTAATAATAA
1 TT-ATATGATTTCATAATTTAA-AATAA
7378474 -TATATGATTTCATAA
1 TTATATGATTTCATAA
7378489 AATTCTTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
25 6 0.18
26 14 0.42
27 5 0.15
28 4 0.12
29 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (26 bp):
TTATATGATTTCATAATTTAAAATAA
Found at i:7378571 original size:44 final size:43
Alignment explanation
Indices: 7378432--7378574 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 43
7378422 TATGAATTTC
7378432 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
* ** * * * * *
7378476 TATGATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTG
1 TAT-AATT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
7378523 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
7378567 TATAATTT
1 TATAATTT
7378575 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 30 0.41
45 8 0.11
46 8 0.11
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:7381877 original size:100 final size:100
Alignment explanation
Indices: 7381754--7381981 Score: 456
Period size: 100 Copynumber: 2.3 Consensus size: 100
7381744 ACATTAACAT
7381754 TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAATTTAACATTAACAAACCACATTTTT
1 TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAATTTAACATTAACAAACCACATTTTT
7381819 CTTTAAACAATTTTTAAAAGCACTTTCAATCATAA
66 CTTTAAACAATTTTTAAAAGCACTTTCAATCATAA
7381854 TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAATTTAACATTAACAAACCACATTTTT
1 TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAATTTAACATTAACAAACCACATTTTT
7381919 CTTTAAACAATTTTTAAAAGCACTTTCAATCATAA
66 CTTTAAACAATTTTTAAAAGCACTTTCAATCATAA
7381954 TAACAATGAATATTTGTTTTTTAATCAA
1 TAACAATGAATATTTGTTTTTTAATCAA
7381982 GTTGTTTACT
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 128 1.00
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (100 bp):
TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAATTTAACATTAACAAACCACATTTTT
CTTTAAACAATTTTTAAAAGCACTTTCAATCATAA
Found at i:7381907 original size:48 final size:48
Alignment explanation
Indices: 7381747--7381907 Score: 159
Period size: 48 Copynumber: 3.3 Consensus size: 48
7381737 AACTTTAACA
7381747 TTAACATTAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAAT
1 TTAACATTAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAAT
*** * * * *
7381795 TTAACATTAACAAACCACATTT-TTCTTT-A--AACAATTTTTAAAAGCACT
1 TTAACATTAACAATGAATATTTGTTTTTTAATCAACAA-TGTTACAA--A-T
7381843 TTCAATCATAATAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAAT
1 TT-AA-CAT--TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAAT
7381895 TTAACATTAACAA
1 TTAACATTAACAA
7381908 ACCACATTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
44 5 0.06
45 6 0.07
46 1 0.01
47 6 0.07
48 27 0.31
49 2 0.02
50 6 0.07
51 2 0.02
52 14 0.16
53 6 0.07
54 1 0.01
55 6 0.07
56 5 0.06
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (48 bp):
TTAACATTAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAAT
Found at i:7382136 original size:24 final size:26
Alignment explanation
Indices: 7382084--7382133 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
7382074 TATATGTAAT
7382084 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
7382111 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
7382134 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:7393515 original size:40 final size:40
Alignment explanation
Indices: 7393458--7393540 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
7393448 ATTCCACAGC
* *
7393458 ACTTCATTTATTCAGTATACATCCTCTGGTGT-CTAGTCAA
1 ACTTCATTTATTCAGTATACAACCTCTGGT-TCCAAGTCAA
* *
7393498 ACTTTATTTATTCAGTATACAACTTCTGGTTCCAAGTCAA
1 ACTTCATTTATTCAGTATACAACCTCTGGTTCCAAGTCAA
7393538 ACT
1 ACT
7393541 CATGCTGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.40
Consensus pattern (40 bp):
ACTTCATTTATTCAGTATACAACCTCTGGTTCCAAGTCAA
Found at i:7401110 original size:65 final size:65
Alignment explanation
Indices: 7401000--7401129 Score: 215
Period size: 65 Copynumber: 2.0 Consensus size: 65
7400990 AAACATTATA
* *
7401000 TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGTATCCCTATGTACATAGAATTAAACAG
1 TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
* * *
7401065 TCAAACGTCTCCCATACTAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
1 TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
7401130 CTACCAATAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.23
Consensus pattern (65 bp):
TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
Found at i:7409069 original size:3 final size:3
Alignment explanation
Indices: 7409061--7409104 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7409051 CATTTTAGTA
7409061 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7409105 AAGAGAACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7412440 original size:24 final size:25
Alignment explanation
Indices: 7412382--7412442 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
7412372 TTAAATGTTG
*
7412382 TATT-AATTATTTTTATTAAAATAA
1 TATTGAATTAATTTTATTAAAATAA
*
7412406 TATTTAA-TAATTTTATTAAAATAA
1 TATTGAATTAATTTTATTAAAATAA
7412430 TA-TGAATTAATTT
1 TATTGAATTAATTT
7412443 AAAATATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 3 0.09
24 28 0.85
25 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TATTGAATTAATTTTATTAAAATAA
Found at i:7412479 original size:19 final size:19
Alignment explanation
Indices: 7412421--7412471 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
7412411 AATAATTTTA
7412421 TTAAAATAATATGAA-TTAAT
1 TTAAAATAAT-T-AACTTAAT
*
7412441 TTAAAATATTTAACTTAAT
1 TTAAAATAATTAACTTAAT
7412460 TT-AAATAATTAA
1 TTAAAATAATTAA
7412472 TTATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.39
19 8 0.29
20 9 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TTAAAATAATTAACTTAAT
Found at i:7412578 original size:15 final size:16
Alignment explanation
Indices: 7412540--7412605 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
7412530 TGAATAATAT
7412540 TAAATA-TATTTTTAAA
1 TAAATATTA-TTTTAAA
7412556 TAAATATTATTTTAAA
1 TAAATATTATTTTAAA
* * *
7412572 T-AATATTGTAATTAAT
1 TAAATATTAT-TTTAAA
*
7412588 TAAATTTTATTTTAAA
1 TAAATATTATTTTAAA
7412604 TA
1 TA
7412606 TTAATTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
15 7 0.17
16 25 0.62
17 8 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TAAATATTATTTTAAA
Found at i:7414341 original size:25 final size:21
Alignment explanation
Indices: 7414297--7414339 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
7414287 TTTTAAAGAA
7414297 AACTTAGTTAATTTTTTATTT
1 AACTTAGTTAATTTTTTATTT
*
7414318 AACTTAGTTAATTTTTGATTT
1 AACTTAGTTAATTTTTTATTT
7414339 A
1 A
7414340 TTCGTTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (21 bp):
AACTTAGTTAATTTTTTATTT
Found at i:7415114 original size:45 final size:45
Alignment explanation
Indices: 7414964--7415114 Score: 121
Period size: 45 Copynumber: 3.4 Consensus size: 45
7414954 CTGCCAATGA
* * * * * * *
7414964 CTGTGGATAGA-AAAAAAAATCCCGCAGATAGAATTTGCGTCTGG
1 CTGTGGATACACAACAAATATCCTGCAGATAGAATCTGCCTCTAG
* * * * *
7415008 CTGTAGATGCACAA-AAA-AT-CTCGCAAATAAAATCTGTCTCTAG
1 CTGTGGATACACAACAAATATCCT-GCAGATAGAATCTGCCTCTAG
* * * *
7415051 CTGTGAAAACATAGCAAATATCCTGCAGATAGAATCTGCCTCTAG
1 CTGTGGATACACAACAAATATCCTGCAGATAGAATCTGCCTCTAG
7415096 CTGTGGATACACAACAAAT
1 CTGTGGATACACAACAAAT
7415115 TTGTAGATAA
Statistics
Matches: 79, Mismatches: 23, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
42 1 0.01
43 25 0.32
44 14 0.18
45 37 0.47
46 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (45 bp):
CTGTGGATACACAACAAATATCCTGCAGATAGAATCTGCCTCTAG
Found at i:7415216 original size:34 final size:33
Alignment explanation
Indices: 7415178--7415287 Score: 103
Period size: 34 Copynumber: 3.2 Consensus size: 33
7415168 GCAATGTGAC
*
7415178 ATGCTTATAGCAGATCAATTCGGTAGCAATTAAT
1 ATGCTTATAACAGATCAATT-GGTAGCAATTAAT
* * * *
7415212 ATGCTTATAACAAATCAATAAGATAACAATTAAT
1 ATGCTTATAACAGATCAAT-TGGTAGCAATTAAT
* * * * *
7415246 ATGTTTATAATAGTTTAATATGGTTGCAATTAAT
1 ATGCTTATAACAGATCAAT-TGGTAGCAATTAAT
7415280 ATGCTTAT
1 ATGCTTAT
7415288 CATAAATCAA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (33 bp):
ATGCTTATAACAGATCAATTGGTAGCAATTAAT
Found at i:7419832 original size:26 final size:25
Alignment explanation
Indices: 7419807--7419856 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7419797 CCAAGTAAGT
*
7419807 TACGAACTATGTTCGCCAGTCAAAG
1 TACGAACTAGGTTCGCCAGTCAAAG
* * *
7419832 TGCGAATTAGGTTCGCCGGTCAAAG
1 TACGAACTAGGTTCGCCAGTCAAAG
7419857 ATACAATCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (25 bp):
TACGAACTAGGTTCGCCAGTCAAAG
Found at i:7420490 original size:55 final size:55
Alignment explanation
Indices: 7420406--7420531 Score: 164
Period size: 55 Copynumber: 2.3 Consensus size: 55
7420396 AAAGCACAGA
* ** * *
7420406 TTTATGC-ATGCTCTCTGTTAAGTTCGCTTTGTGTGAGCTCTCTGTTTGGCTCTGT
1 TTTATGCGA-GCTCTCTGCTAAGTTCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
*
7420461 TTTATGCGAGCTCTTTGCTAAGTTCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
1 TTTATGCGAGCTCTCTGCTAAGTTCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
* *
7420516 TTTGTGTGAGCTCTCT
1 TTTATGCGAGCTCTCT
7420532 ATTTAGCTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 60 0.98
56 1 0.02
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.45
Consensus pattern (55 bp):
TTTATGCGAGCTCTCTGCTAAGTTCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
Found at i:7420526 original size:28 final size:28
Alignment explanation
Indices: 7420431--7420535 Score: 95
Period size: 28 Copynumber: 3.8 Consensus size: 28
7420421 TGTTAAGTTC
* *
7420431 GCTTTGTGTGAGCTCTCTGTTTGGCTCT
1 GCTTTGTGCGAGCTCTCTATTTGGCTCT
* * * ** ** *
7420459 GTTTTATGCGAGCTCTTTGCTAAGTTC-
1 GCTTTGTGCGAGCTCTCTATTTGGCTCT
*
7420486 GCTTTGTACGAGCTCTCTATTTGGCTCT
1 GCTTTGTGCGAGCTCTCTATTTGGCTCT
*
7420514 GCTTTGTGTGAGCTCTCTATTT
1 GCTTTGTGCGAGCTCTCTATTT
7420536 AGCTTTGCCT
Statistics
Matches: 57, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
27 18 0.32
28 39 0.68
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.46
Consensus pattern (28 bp):
GCTTTGTGCGAGCTCTCTATTTGGCTCT
Found at i:7420558 original size:17 final size:17
Alignment explanation
Indices: 7420536--7420587 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
7420526 CTCTCTATTT
7420536 AGCTTTGCCTTATTGCA
1 AGCTTTGCCTTATTGCA
*
7420553 AGCTTT--C-TATT--T
1 AGCTTTGCCTTATTGCA
*
7420565 ATCTTTGCCTTATTGCA
1 AGCTTTGCCTTATTGCA
7420582 AGCTTT
1 AGCTTT
7420588 CTATTTAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 5 0.19
14 5 0.19
15 5 0.19
17 11 0.42
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.48
Consensus pattern (17 bp):
AGCTTTGCCTTATTGCA
Found at i:7420570 original size:29 final size:29
Alignment explanation
Indices: 7420524--7420595 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
7420514 GCTTTGTGTG
*
7420524 AGCTCTCTATTTAGCTTTGCCTTATTGCA
1 AGCTTTCTATTTAGCTTTGCCTTATTGCA
*
7420553 AGCTTTCTATTTATCTTTGCCTTATTGCA
1 AGCTTTCTATTTAGCTTTGCCTTATTGCA
7420582 AGCTTTCTATTTAG
1 AGCTTTCTATTTAG
7420596 TGAGCTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.49
Consensus pattern (29 bp):
AGCTTTCTATTTAGCTTTGCCTTATTGCA
Found at i:7420734 original size:41 final size:42
Alignment explanation
Indices: 7420659--7420740 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 42
7420649 CATGTTAAGT
*
7420659 CTCACTCTGTGTGTTCCTTTGAGAGCATGAGCTTTTGTGAGC
1 CTCACTCTGTGTGCTCCTTTGAGAGCATGAGCTTTTGTGAGC
*
7420701 CTCACTCTGTGTGCTCC-TTGAGAGCATGGGCTTTTGTGAG
1 CTCACTCTGTGTGCTCCTTTGAGAGCATGAGCTTTTGTGAG
7420741 ACTTGTGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 22 0.58
42 16 0.42
ACGTcount: A:0.13, C:0.22, G:0.28, T:0.37
Consensus pattern (42 bp):
CTCACTCTGTGTGCTCCTTTGAGAGCATGAGCTTTTGTGAGC
Found at i:7422064 original size:17 final size:17
Alignment explanation
Indices: 7422042--7422075 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7422032 TGTGTTTTCC
7422042 GTTGCTTTGTTGAAGAT
1 GTTGCTTTGTTGAAGAT
7422059 GTTGCTTTGTTGAAGAT
1 GTTGCTTTGTTGAAGAT
7422076 TAACACTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.29, T:0.47
Consensus pattern (17 bp):
GTTGCTTTGTTGAAGAT
Found at i:7425946 original size:111 final size:111
Alignment explanation
Indices: 7425747--7425959 Score: 277
Period size: 111 Copynumber: 1.9 Consensus size: 111
7425737 TATTTCTCTA
* * * * *
7425747 TATTCGGTAAGGTAAGATTTTAGAAAATTTCAGTATTAATTATTTTACCATATATATTTAGTGTT
1 TATTCGGTAAGGTAAGATTTTAAAAAATATAAGTATTAATTATTTCACCATATATATTTAATGTT
** *
7425812 TATTTGGAAATATTTTTTTAAGAT-TTCTATAGTTATTATTTTCGTT
66 TATTTGGAAATATTTAATCAAGATATT-TATAGTTATTATTTTCGTT
* * * *
7425858 TATTTGGTAAGGTGAGGTTTTAAAAAATATAAGTATTAATTATTTCACTATATATATTTGAATGT
1 TATTCGGTAAGGTAAGATTTTAAAAAATATAAGTATTAATTATTTCACCATATATATTT-AATGT
*
7425923 TTATTTGGAAA-ATTTAATCAAGATATTTATTGTTATT
65 TTATTTGGAAATATTTAATCAAGATATTTATAGTTATT
7425960 TGTTTCTTAT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
111 70 0.80
112 17 0.20
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (111 bp):
TATTCGGTAAGGTAAGATTTTAAAAAATATAAGTATTAATTATTTCACCATATATATTTAATGTT
TATTTGGAAATATTTAATCAAGATATTTATAGTTATTATTTTCGTT
Found at i:7432550 original size:2 final size:2
Alignment explanation
Indices: 7432543--7432587 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
7432533 CATGAGATAA
7432543 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7432585 AT A
1 AT A
7432588 AGAGATCAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7436640 original size:21 final size:21
Alignment explanation
Indices: 7436615--7436664 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
7436605 CACTGTTTCT
* *
7436615 AATCTCACCATTACAGTATCC
1 AATCTCACCACTACAGTAACC
* *
7436636 AATCTCACTACTACAGTAACT
1 AATCTCACCACTACAGTAACC
7436657 AATCTCAC
1 AATCTCAC
7436665 AGCCACCGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.28
Consensus pattern (21 bp):
AATCTCACCACTACAGTAACC
Found at i:7447823 original size:111 final size:111
Alignment explanation
Indices: 7447618--7447828 Score: 280
Period size: 111 Copynumber: 1.9 Consensus size: 111
7447608 TATCTCCCTA
* * *
7447618 TATTTGATAAGGTAAGATTTTAGAAAATATCAGTATTAATTATTTCAACATATATATTTAGTGTT
1 TATTTGATAAGGTAAGATTTTAAAAAATATAAATATTAATTATTTCAACATATATATTTAGTGTT
** * *
7447683 TATTTGGAAATATTTTTTTAAGATTTTTATAGTTAGTATTTTCCTT
66 TATTTGGAAATATTTAATCAAGATATTTATAGTTAGTATTTTCCTT
* * * * * *
7447729 TATTTGGTAAGGTGAGGTTTTAAAAAATATAAATATTAATTTTTTTACCATATATATTTGAGTGT
1 TATTTGATAAGGTAAGATTTTAAAAAATATAAATATTAATTATTTCAACATATATATTT-AGTGT
*
7447794 TTATTTGGAAAT-TTTAATCATGATATTTATAGTTA
65 TTATTTGGAAATATTTAATCAAGATATTTATAGTTA
7447829 TTTGTTTCTT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
111 68 0.80
112 17 0.20
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (111 bp):
TATTTGATAAGGTAAGATTTTAAAAAATATAAATATTAATTATTTCAACATATATATTTAGTGTT
TATTTGGAAATATTTAATCAAGATATTTATAGTTAGTATTTTCCTT
Found at i:7451744 original size:37 final size:37
Alignment explanation
Indices: 7451666--7451745 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
7451656 CTATTAAGAT
*
7451666 TGTTAAACCGAAAGCATGAGAAGCATGCCACTATAAT
1 TGTTAAACCGAAAGCATGAGAAGCATGCCACTATAAC
* * * *
7451703 TGTTAAGCCGAAAGCATGATAATCATGCCATTGAT-AC
1 TGTTAAACCGAAAGCATGAGAAGCATGCCACT-ATAAC
7451740 TGTTAA
1 TGTTAA
7451746 TATTACTGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (37 bp):
TGTTAAACCGAAAGCATGAGAAGCATGCCACTATAAC
Found at i:7457941 original size:7 final size:7
Alignment explanation
Indices: 7457915--7457984 Score: 58
Period size: 7 Copynumber: 10.3 Consensus size: 7
7457905 TAGGAGCCAA
*
7457915 GAGAGTT
1 GAGAGAT
7457922 GAGAGA-
1 GAGAGAT
7457928 GAG-GAT
1 GAGAGAT
7457934 GAGAGAT
1 GAGAGAT
7457941 GAGAGAT
1 GAGAGAT
7457948 GAGAGGGAT
1 GAGA--GAT
*
7457957 GAGGGAT
1 GAGAGAT
*
7457964 GAGGGAT
1 GAGAGAT
7457971 GA-AG-T
1 GAGAGAT
*
7457976 GAGAAAT
1 GAGAGAT
7457983 GA
1 GA
7457985 CCTCTTATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.09
6 8 0.15
7 34 0.64
9 6 0.11
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.14
Consensus pattern (7 bp):
GAGAGAT
Found at i:7457948 original size:14 final size:14
Alignment explanation
Indices: 7457915--7457984 Score: 58
Period size: 12 Copynumber: 5.1 Consensus size: 14
7457905 TAGGAGCCAA
*
7457915 GAGAGTTGAGAGA-
1 GAGAGATGAGAGAT
7457928 GAG-GATGAGAGAT
1 GAGAGATGAGAGAT
7457941 GAGAGATGAGAGGGAT
1 GAGAGATGAGA--GAT
* *
7457957 GAGGGATGAGGGAT
1 GAGAGATGAGAGAT
*
7457971 GA-AG-TGAGAAAT
1 GAGAGATGAGAGAT
7457983 GA
1 GA
7457985 CCTCTTATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
12 16 0.34
13 7 0.15
14 12 0.26
16 12 0.26
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.14
Consensus pattern (14 bp):
GAGAGATGAGAGAT
Found at i:7457959 original size:16 final size:16
Alignment explanation
Indices: 7457924--7457966 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
7457914 AGAGAGTTGA
*
7457924 GAGAGAGGATGAGAGAT
1 GAGAGATGA-GAGAGAT
*
7457941 GAGAGATGAGAGGGAT
1 GAGAGATGAGAGAGAT
*
7457957 GAGGGATGAG
1 GAGAGATGAG
7457967 GGATGAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.12
Consensus pattern (16 bp):
GAGAGATGAGAGAGAT
Found at i:7457964 original size:23 final size:24
Alignment explanation
Indices: 7457924--7457972 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
7457914 AGAGAGTTGA
7457924 GAGAGAGGATGAGAGATGAGAGAT
1 GAGAGAGGATGAGAGATGAGAGAT
* *
7457948 GAGAG-GGATGAGGGATGAGGGAT
1 GAGAGAGGATGAGAGATGAGAGAT
7457971 GA
1 GA
7457973 AGTGAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.12
Consensus pattern (24 bp):
GAGAGAGGATGAGAGATGAGAGAT
Found at i:7471256 original size:25 final size:25
Alignment explanation
Indices: 7471195--7471258 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
7471185 ACTTACACGG
*
7471195 CGATG-GAGCAGAGGAGTGTCGACGA
1 CGATGAGA-CAGAGGAGTATCGACGA
*
7471220 CGATGAGGCAGAGGAGTATCGAC-A
1 CGATGAGACAGAGGAGTATCGACGA
7471244 TCGATGCA-ACAGAGG
1 -CGATG-AGACAGAGG
7471259 TGACAGTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 1 0.03
25 30 0.91
26 2 0.06
ACGTcount: A:0.31, C:0.17, G:0.39, T:0.12
Consensus pattern (25 bp):
CGATGAGACAGAGGAGTATCGACGA
Found at i:7471559 original size:41 final size:40
Alignment explanation
Indices: 7471438--7471573 Score: 184
Period size: 39 Copynumber: 3.4 Consensus size: 40
7471428 TAAAATGATA
*
7471438 TTTTGTGGCATTTTTCTCATAGTGCCGTTAATGCTTGACC
1 TTTTGTGGCATTTTTCTCATAGTGCCGCTAATGCTTGACC
*
7471478 TTTTCT-GCATTTTTCTCATAGTGCCGCTAATGCTTGACC
1 TTTTGTGGCATTTTTCTCATAGTGCCGCTAATGCTTGACC
** * *
7471517 TTTTGTGGCATTTTTCTCATAAACGTCGCTACTGCTTGACC
1 TTTTGTGGCATTTTTCTCAT-AGTGCCGCTAATGCTTGACC
* *
7471558 TTTTGCGGCGTTTTTC
1 TTTTGTGGCATTTTTC
7471574 CATTAGCGCC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.44
40 18 0.21
41 30 0.35
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (40 bp):
TTTTGTGGCATTTTTCTCATAGTGCCGCTAATGCTTGACC
Found at i:7478710 original size:130 final size:132
Alignment explanation
Indices: 7478470--7478828 Score: 530
Period size: 130 Copynumber: 2.7 Consensus size: 132
7478460 AATTGGTAAT
7478470 TTCAACCTACTCCACTGTAACT--TCAGGGAGATAAGG-CTGGTGGCTTAAATCTGCTTCCCTAC
1 TTCAACCTACTCCAC--T-ACTGCTCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTAC
* * * *
7478532 TACCTCGGGAAGATAAGACTCACCGTCTTTGATCTGCTGCACTTCTGCTTAGGGAGACAAGATAT
62 TACCTCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATAT
7478597 ACAATC
127 ACAATC
* *
7478603 TTCAACCTACTCCACTACTGCTC-GGGAGATAGGACTGGTGGCTTAAATATGCTT-CCTACTATC
1 TTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
* * * *
7478666 TCGGGAATATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
66 TCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATATACAA
7478731 TC
131 TC
* *
7478733 TTCAACCTACTCCACTACTGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
*
7478798 TTGGGAAGATAAGATTCGCCGTCTTTGATCT
66 TCGGGAAGATAAGATTCGCCGTCTTTGATCT
7478829 ATTCCACTGC
Statistics
Matches: 204, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
130 96 0.47
131 55 0.27
132 38 0.19
133 15 0.07
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (132 bp):
TTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
TCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATATACAA
TC
Found at i:7479200 original size:44 final size:44
Alignment explanation
Indices: 7479089--7479213 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 44
7479079 GATTCGCTAT
* * * *
7479089 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTCT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGTCG
* * * * * * *
7479133 CTTCAATCCGCTCTACTATAACTTCAGGGAGATAGGATTATTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGTCG
* *
7479177 CTTTAATCTGCTCCACTACAACTTTAGAGG-GATAAGA
1 CTTCAATCTGCTCCACTACAACTTCAG-GGAGATAAGA
7479214 TTTGCCATCT
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
44 61 0.97
45 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAGTCG
Found at i:7479348 original size:44 final size:44
Alignment explanation
Indices: 7479285--7479589 Score: 244
Period size: 44 Copynumber: 6.9 Consensus size: 44
7479275 AGACTTGTTA
** *
7479285 CTTTAATCCCCTCCACTGCAACTTTAGGGAGATAGGATTATTGG
1 CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATTATTGG
* * *
7479329 CTTTAATCAACTTCACTGCAACTTTAGTGAGATAAGA-T-TTGCCAT
1 CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATTATTG---G
* ** * * *
7479374 CTTTATTCTGC-CCTACTGCAACTTCAGGGGGATAAGACTTGCTT--
1 CTTTAATCAACTCC-ACTGCAACTTTAGGGAGATAAGA-TT-ATTGG
* * ** * * **
7479418 TTTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGATT-TGTAA
1 CTTT-AATCAACTCCACTGCAACTTTAGGGAGATAAGATTAT-TGG
** * *
7479463 CTTTAATCCGCTCCACTTCAACTTTAGGGAGATAGGATTATTGG
1 CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATTATTGG
* *
7479507 CTTTAATCAACTCCACTGCAACTTCAGGGAGATAGGATTATTGG
1 CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATTATTGG
* *
7479551 CTTTAATCTACTCCACTACAACTTTAGGGAGATAAGATT
1 CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATT
7479590 CGCCATCTTC
Statistics
Matches: 214, Mismatches: 33, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
42 4 0.02
43 2 0.01
44 144 0.67
45 59 0.28
46 2 0.01
47 1 0.00
49 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (44 bp):
CTTTAATCAACTCCACTGCAACTTTAGGGAGATAAGATTATTGG
Found at i:7479394 original size:45 final size:45
Alignment explanation
Indices: 7479342--7479625 Score: 154
Period size: 44 Copynumber: 6.3 Consensus size: 45
7479332 TAATCAACTT
* * *
7479342 CACTGCAACTTTAGTGAGATAAGATTTGCCATCTTT-ATTCTGC-C
1 CACTGCAACTTCAGGGAGATAAGATTTG-CATCTTTCAGTCTGCTC
* * * *
7479386 CTACTGCAACTTCAGGGGGATAAGACTTGCTTTTTTCAGTCTGCTC
1 C-ACTGCAACTTCAGGGAGATAAGATTTGCATCTTTCAGTCTGCTC
* * * * *
7479432 CACTACAACTTCAGGGAGATAAGATTTGTAACTTT-AATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGCATCTTTCAGTCTGCTC
* * * * * **
7479476 CACTTCAACTTTAGGGAGATAGGATTATTG--GCTTT-AATCAACTC
1 CACTGCAACTTCAGGGAGATAAGA-T-TTGCATCTTTCAGTCTGCTC
* * * *
7479520 CACTGCAACTTCAGGGAGATAGGATTATTG--GCTTT-AATCTACTC
1 CACTGCAACTTCAGGGAGATAAGA-T-TTGCATCTTTCAGTCTGCTC
* * * * ***
7479564 CACTACAACTTTAGGGAGATAAGATTCGCCATCTTCTTCAATCCATTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-CATC-T-TTCAGTCTGCTC
7479612 CACTGCAACTTCAG
1 CACTGCAACTTCAG
7479626 TGGTATAGGA
Statistics
Matches: 195, Mismatches: 34, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
42 2 0.01
43 1 0.01
44 107 0.55
45 58 0.30
46 6 0.03
47 2 0.01
48 19 0.10
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (45 bp):
CACTGCAACTTCAGGGAGATAAGATTTGCATCTTTCAGTCTGCTC
Found at i:7484221 original size:19 final size:19
Alignment explanation
Indices: 7484197--7484240 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7484187 GTGAAAATCC
*
7484197 AATGCATATG-ATGCAATG
1 AATGCAGATGCATGCAATG
*
7484215 TAATGCAGATGCATGGAATG
1 -AATGCAGATGCATGCAATG
7484235 AATGCA
1 AATGCA
7484241 AAAAGAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (19 bp):
AATGCAGATGCATGCAATG
Found at i:7486920 original size:23 final size:22
Alignment explanation
Indices: 7486892--7486934 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7486882 ATTAAATTTA
7486892 TAAGATTACAAAATCATATCTTC
1 TAAGATTAC-AAATCATATCTTC
* *
7486915 TAAGATTGCATATCATATCT
1 TAAGATTACAAATCATATCT
7486935 AAGATTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAGATTACAAATCATATCTTC
Found at i:7488873 original size:30 final size:30
Alignment explanation
Indices: 7488806--7488873 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
7488796 AAACTACACC
*
7488806 AACAGTCACTCAACTTTGATAAAATAACAA
1 AACAGTCACTAAACTTTGATAAAATAACAA
*
7488836 AATAGTCACTAAACTTTAGA-AAAATAACAA
1 AACAGTCACTAAACTTT-GATAAAATAACAA
*
7488866 ACCAGTCA
1 AACAGTCA
7488874 AGTTAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.22
Consensus pattern (30 bp):
AACAGTCACTAAACTTTGATAAAATAACAA
Found at i:7490653 original size:22 final size:22
Alignment explanation
Indices: 7490628--7490719 Score: 88
Period size: 22 Copynumber: 4.5 Consensus size: 22
7490618 AAGCATGTTA
*
7490628 GGCACTAAGCCTGAATAACATC
1 GGCACTAAGCCTGAATAACACC
*
7490650 GGCACTAAGCTTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
* *
7490672 AGCACTAAGCCT-ACT---A--
1 GGCACTAAGCCTGAATAACACC
*
7490688 GGCACTAAGACTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
*
7490710 GACACTAAGC
1 GGCACTAAGC
7490720 ATGCTAAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
16 10 0.19
17 2 0.04
18 1 0.02
20 1 0.02
21 2 0.04
22 38 0.70
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.16
Consensus pattern (22 bp):
GGCACTAAGCCTGAATAACACC
Found at i:7490703 original size:38 final size:37
Alignment explanation
Indices: 7490650--7490746 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 37
7490640 GAATAACATC
*
7490650 GGCACTAAGCTTGAATAACACC-AGCACTAAGCCTACTA
1 GGCACTAAGC-TGAATAACACCGA-CACTAAGCATACTA
*
7490688 GGCACTAAGACTGAATAACACCGACACTAAGCATGCTA
1 GGCACTAAG-CTGAATAACACCGACACTAAGCATACTA
* *
7490726 AGAACTAAGCCTGAATAACAC
1 GGCACTAAG-CTGAATAACAC
7490747 TATATGAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 50 0.96
39 2 0.04
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.16
Consensus pattern (37 bp):
GGCACTAAGCTGAATAACACCGACACTAAGCATACTA
Found at i:7493218 original size:48 final size:48
Alignment explanation
Indices: 7493149--7493240 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
7493139 CATGCTATGT
* * *
7493149 AATGCTACACTTAGTCTTCCACTATCTACACTCTTATCACTATTATAC
1 AATGCTAAACTTAGTCCTCCACTATCTACACTCTTATCAATATTATAC
*
7493197 AATGCTAAACTTGGTCCTCCACTATCTACACTCTTATCAATATT
1 AATGCTAAACTTAGTCCTCCACTATCTACACTCTTATCAATATT
7493241 TATCCCCTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.29, C:0.28, G:0.05, T:0.37
Consensus pattern (48 bp):
AATGCTAAACTTAGTCCTCCACTATCTACACTCTTATCAATATTATAC
Found at i:7496746 original size:20 final size:21
Alignment explanation
Indices: 7496700--7496764 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 21
7496690 GTAATGAAAT
7496700 AAAATATA-A-AAAATTCATA
1 AAAATATATATAAAATTCATA
7496719 AAAATATATATAAAA-TC-TA
1 AAAATATATATAAAATTCATA
*
7496738 AAAATTATATATGGAAATT-ATA
1 AAAA-TATATAT-AAAATTCATA
7496760 AAAAT
1 AAAAT
7496765 GAAATGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
19 14 0.36
20 10 0.26
21 8 0.21
22 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAATATATATAAAATTCATA
Found at i:7496761 original size:22 final size:20
Alignment explanation
Indices: 7496710--7496764 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
7496700 AAAATATAAA
7496710 AAATTCATAAAAA-TATATAT
1 AAATT-ATAAAAATTATATAT
* *
7496730 AAAATCTAAAAATTATATAT
1 AAATTATAAAAATTATATAT
7496750 GGAAATTATAAAAAT
1 --AAATTATAAAAAT
7496765 GAAATGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.21
20 11 0.39
22 11 0.39
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATTATAAAAATTATATAT
Found at i:7497842 original size:31 final size:31
Alignment explanation
Indices: 7497807--7497903 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
7497797 AAATGTTTAC
7497807 TAGTGACTAGTTTGTTATTTTTATAAAAGTT
1 TAGTGACTAGTTTGTTATTTTTATAAAAGTT
** *
7497838 TAGTGACTGAG-TTG-TAACTTT-TCAAAGTT
1 TAGTGACT-AGTTTGTTATTTTTATAAAAGTT
* * * *
7497867 TAGTGA-TTGTTTTGTTATTTTAACAAAAATT
1 TAGTGACTAG-TTTGTTATTTTTATAAAAGTT
7497898 TAGTGA
1 TAGTGA
7497904 TTTTTAGTGT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 16 0.31
30 9 0.18
31 22 0.43
32 2 0.04
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (31 bp):
TAGTGACTAGTTTGTTATTTTTATAAAAGTT
Found at i:7498999 original size:32 final size:34
Alignment explanation
Indices: 7498958--7499053 Score: 112
Period size: 32 Copynumber: 2.9 Consensus size: 34
7498948 TTTTTTGTCT
7498958 TTGTAATAAATTAATGTTAATTTTGTTAATTCT-A
1 TTGTAATAAATTAATGTTAATTTT-TTAATTCTCA
*
7498992 -T-TAATAAATTAATGTTATACTTTTTT--TTGTCA
1 TTGTAATAAATTAATGTTA-A-TTTTTTAATTCTCA
7499024 TTGTAATAAATTAATGTTAATTTTATTAAT
1 TTGTAATAAATTAATGTTAATTTT-TTAAT
7499054 AATTCTATTA
Statistics
Matches: 53, Mismatches: 1, Indels: 15
0.77 0.01 0.22
Matches are distributed among these distances:
31 3 0.06
32 21 0.40
33 8 0.15
34 20 0.38
35 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.54
Consensus pattern (34 bp):
TTGTAATAAATTAATGTTAATTTTTTAATTCTCA
Found at i:7499036 original size:34 final size:33
Alignment explanation
Indices: 7498939--7499042 Score: 117
Period size: 34 Copynumber: 3.1 Consensus size: 33
7498929 AGAAATTGTA
7498939 TTATACTTTTTTTTTGTCTTTGTAATAAATTAATG
1 TTATAC-TTTTTTTTGTC-TTGTAATAAATTAATG
*
7498974 TTA-A-TTTTGTTAAT-TCTAT-TAATAAATTAATG
1 TTATACTTTT-TT-TTGTCT-TGTAATAAATTAATG
7499006 TTATACTTTTTTTTGTCATTGTAATAAATTAATG
1 TTATACTTTTTTTTGTC-TTGTAATAAATTAATG
7499040 TTA
1 TTA
7499043 ATTTTATTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
32 22 0.37
33 11 0.19
34 23 0.39
35 3 0.05
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.57
Consensus pattern (33 bp):
TTATACTTTTTTTTGTCTTGTAATAAATTAATG
Found at i:7500147 original size:11 final size:12
Alignment explanation
Indices: 7500133--7500172 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
7500123 TATTTGGATT
7500133 TATTTTATTTT-
1 TATTTTATTTTA
7500144 TATTTTCATTTTA
1 TATTTT-ATTTTA
*
7500157 TTTTTTATTTTA
1 TATTTTATTTTA
7500169 TATT
1 TATT
7500173 AACGAACACG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.24
12 14 0.56
13 5 0.20
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TATTTTATTTTA
Found at i:7500156 original size:17 final size:18
Alignment explanation
Indices: 7500134--7500167 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7500124 ATTTGGATTT
7500134 ATTTTA-TTTTTATTTTC
1 ATTTTATTTTTTATTTTC
7500151 ATTTTATTTTTTATTTT
1 ATTTTATTTTTTATTTT
7500168 ATATTAACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
ATTTTATTTTTTATTTTC
Found at i:7502037 original size:51 final size:50
Alignment explanation
Indices: 7501899--7502099 Score: 226
Period size: 51 Copynumber: 4.0 Consensus size: 50
7501889 GTAAAAGTGA
* *
7501899 AAGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
1 AAGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
* * * *
7501949 AA-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG
1 AAGTAAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
* * * * *
7501999 ATAGT-TTCGATCACATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGA
1 A-AGTAAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
* * *
7502050 AAGGTAATGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACCG
1 AA-GTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
7502100 AACATCATTG
Statistics
Matches: 126, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
49 4 0.03
50 43 0.34
51 77 0.61
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
AAGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
Found at i:7502037 original size:101 final size:102
Alignment explanation
Indices: 7501908--7502092 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
7501898 AAAGTGATGG
* * * *
7501908 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACC-GAAAGATAATGGTCACATGTGTAGT
7501971 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* *
7502009 TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGAAAGGTAATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAAAGATAATGGTCACATGTGTAGTA
*
7502074 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
7502093 TGAACCGAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 5 0.07
101 37 0.49
102 33 0.44
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAAAGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:7505887 original size:25 final size:25
Alignment explanation
Indices: 7505816--7505898 Score: 96
Period size: 26 Copynumber: 3.3 Consensus size: 25
7505806 ACAACTCTTA
* *
7505816 TGAGCGTCCCGATAAATGGCTCTTTG
1 TGAGCTTCCC-ATTAATGGCTCTTTG
* *
7505842 TGAGCTTCCTAATTAAAGGCTCTTTG
1 TGAGCTTCC-CATTAATGGCTCTTTG
*
7505868 TGAGCTTCCCATTAATGGCTCTCTG
1 TGAGCTTCCCATTAATGGCTCTTTG
7505893 -GAGCTT
1 TGAGCTT
7505899 TCCGATACAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
24 6 0.12
25 13 0.27
26 30 0.61
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (25 bp):
TGAGCTTCCCATTAATGGCTCTTTG
Found at i:7505901 original size:25 final size:26
Alignment explanation
Indices: 7505830--7505898 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
7505820 CGTCCCGATA
7505830 AATGGCTCTTTGTGAGCTTCCTAATT
1 AATGGCTCTTTGTGAGCTTCCTAATT
* *
7505856 AAAGGCTCTTTGTGAGCTTCC-CATT
1 AATGGCTCTTTGTGAGCTTCCTAATT
*
7505881 AATGGCTCTCTG-GAGCTT
1 AATGGCTCTTTGTGAGCTT
7505899 TCCGATACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.15
25 13 0.33
26 20 0.51
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
AATGGCTCTTTGTGAGCTTCCTAATT
Found at i:7505983 original size:24 final size:25
Alignment explanation
Indices: 7505930--7505985 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
7505920 TTCCTAATAT
* * *
7505930 ATGGCTATCCGGAGCTTCCCGATTA
1 ATGGCTCTTCGGAGCTACCCGATTA
7505955 ATGGCTCTTCGGAGCTACCC-ATTA
1 ATGGCTCTTCGGAGCTACCCGATTA
*
7505979 TTGGCTC
1 ATGGCTC
7505986 GCATGAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (25 bp):
ATGGCTCTTCGGAGCTACCCGATTA
Found at i:7506018 original size:73 final size:71
Alignment explanation
Indices: 7505842--7506026 Score: 167
Period size: 73 Copynumber: 2.5 Consensus size: 71
7505832 TGGCTCTTTG
* * *
7505842 TGAGCTTCCTAATTAAAGGCTCTTTGTGAGCTTCCCATTAATGGCTCTCTGGAGCTTTCCGATAC
1 TGAGCTTCCTAATT-AAGGCTC-TTATGAGCTTCCCATTAATGGCTCTCTGGAGCTTACCCATAC
*
7505907 AACTCGCT
64 AACTCGCA
* * * ***
7505915 TGAACTTCCTAATATATGGCTATCCGGAGCTTCCCGATTAATGGCTCT-TCGGAGC-TACCCATT
1 TGAGCTTCCTAAT-TAAGGCTCTTATGAGCTTCCC-ATTAATGGCTCTCT-GGAGCTTACCCA-T
***
7505978 ATTGGCTCGCA
62 A-CAACTCGCA
*
7505989 TGAGCTTCCTAATTAAGGCTCTTATGAGCTTCCTATTA
1 TGAGCTTCCTAATTAAGGCTCTTATGAGCTTCCCATTA
7506027 TATATCCCGA
Statistics
Matches: 88, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
72 19 0.22
73 51 0.58
74 18 0.20
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (71 bp):
TGAGCTTCCTAATTAAGGCTCTTATGAGCTTCCCATTAATGGCTCTCTGGAGCTTACCCATACAA
CTCGCA
Found at i:7506068 original size:25 final size:24
Alignment explanation
Indices: 7506040--7506123 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 24
7506030 ATCCCGAATA
7506040 AGCTTCCCGTTACATGGCTCATATG
1 AGCTTCCCGTTA-ATGGCTCATATG
** * *
7506065 AGCTTCATGTTATATGGTTCGA-AAG
1 AGCTTCCCGTTA-ATGGCTC-ATATG
*
7506090 AGCTTCCCGTTAA-GTGCTCGTATG
1 AGCTTCCCGTTAATG-GCTCATATG
7506114 AGCATTCCCG
1 AGC-TTCCCG
7506124 AATCTGAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.02
24 9 0.20
25 34 0.76
26 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (24 bp):
AGCTTCCCGTTAATGGCTCATATG
Found at i:7513647 original size:30 final size:30
Alignment explanation
Indices: 7513611--7513679 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
7513601 ACCATACATT
7513611 TAGTTTTAGGACTTTGACTTTGAATTTGAC
1 TAGTTTTAGGACTTTGACTTTGAATTTGAC
*
7513641 TAGTTTTAGGACTTTGACTTTGACTTTGAC
1 TAGTTTTAGGACTTTGACTTTGAATTTGAC
7513671 TAGTGTTTA
1 TAGT-TTTA
7513680 TAAAATAGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (30 bp):
TAGTTTTAGGACTTTGACTTTGAATTTGAC
Found at i:7515059 original size:26 final size:26
Alignment explanation
Indices: 7514980--7515057 Score: 111
Period size: 26 Copynumber: 2.9 Consensus size: 26
7514970 TTGTTAAAAC
7514980 TCTTCTAAAAGAAAACTCAAGAGAAAT
1 TCTT-TAAAAGAAAACTCAAGAGAAAT
* *
7515007 TATTTAAAAGAAAACTTAAGAGAAAT
1 TCTTTAAAAGAAAACTCAAGAGAAAT
*
7515033 TCTTTAAAATAAAACTCAAAGAGAA
1 TCTTTAAAAGAAAACTC-AAGAGAA
7515058 TTTTATTAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
26 35 0.78
27 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.24
Consensus pattern (26 bp):
TCTTTAAAAGAAAACTCAAGAGAAAT
Found at i:7515066 original size:27 final size:26
Alignment explanation
Indices: 7514985--7515066 Score: 87
Period size: 26 Copynumber: 3.1 Consensus size: 26
7514975 AAAACTCTTC
*
7514985 TAAAAGAAAACTCAAGAGAA-ATTATT
1 TAAAAGAAAACTCAAGAGAATTTTA-T
* *
7515011 TAAAAGAAAACTTAAGAGAAATTCT-T
1 TAAAAGAAAACTCAAGAG-AATTTTAT
*
7515037 TAAAATAAAACTCAAAGAGAATTTTAT
1 TAAAAGAAAACTC-AAGAGAATTTTAT
7515064 TAA
1 TAA
7515067 CTCAAAGTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
26 34 0.74
27 11 0.24
28 1 0.02
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (26 bp):
TAAAAGAAAACTCAAGAGAATTTTAT
Found at i:7517911 original size:43 final size:42
Alignment explanation
Indices: 7517850--7518058 Score: 192
Period size: 43 Copynumber: 4.9 Consensus size: 42
7517840 TCTGATATGT
*
7517850 GATTTCTTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-A
* **
7517893 GATTTCGTGTAAGACCACGTCTGGAACGTTGGTGTCGATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-A
* * * * *
7517936 GGTTTACGTGTAAGAGCATGTCTGGGACATTGGCATC-ATATA
1 GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTA
* *
7517978 TGATTTCGTGTAAGACC-CTGCCTGGGACAG-TGGCATCAATAGTT-
1 -GATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT--TTA
* * *
7518022 GATTACATGTAAGACCACGTCTAGGACGTTGGCATCG
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCG
7518059 TACGAGCTTT
Statistics
Matches: 134, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
42 27 0.20
43 80 0.60
44 26 0.19
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTA
Found at i:7518003 original size:42 final size:42
Alignment explanation
Indices: 7517939--7518038 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
7517929 GATTTGAGGT
* * *
7517939 TTACGTGTAAGAGCATGTCTGGGACATTGGCATCATATA-TGA
1 TTACGTGTAAGACCATGCCTGGGACAGTGGCATCA-ATAGTGA
* *
7517981 TTTCGTGTAAGACCCTGCCTGGGACAGTGGCATCAATAGTTGA
1 TTACGTGTAAGACCATGCCTGGGACAGTGGCATCAATAG-TGA
*
7518024 TTACATGTAAGACCA
1 TTACGTGTAAGACCA
7518039 CGTCTAGGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.06
42 30 0.62
43 15 0.31
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TTACGTGTAAGACCATGCCTGGGACAGTGGCATCAATAGTGA
Found at i:7518922 original size:9 final size:9
Alignment explanation
Indices: 7518908--7518933 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7518898 CTGAGTATAT
7518908 ATGTTTGTG
1 ATGTTTGTG
7518917 ATGTTTGTG
1 ATGTTTGTG
7518926 ATGTTTGT
1 ATGTTTGT
7518934 TATATGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.31, T:0.58
Consensus pattern (9 bp):
ATGTTTGTG
Found at i:7524957 original size:27 final size:27
Alignment explanation
Indices: 7524743--7524955 Score: 273
Period size: 27 Copynumber: 7.9 Consensus size: 27
7524733 GGTATAACAA
* *
7524743 TCATTTTACCCTATAGGGATATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
**
7524770 TCATTTTACCCTATGGGGGTATTTCTT
1 TCATTTTACCCTATGGGGGTATTTCGG
* **
7524797 TCATTCTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
7524824 TTACTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
7524851 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
7524878 TCATTTTACCCTATGAAGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
7524905 TCATTCTACCCTATGGGGTTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
7524932 TCACTTTACCCTATGGAGGTATTT
1 TCATTTTACCCTATGGGGGTATTT
7524956 TGATCATAAC
Statistics
Matches: 161, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:7531522 original size:9 final size:9
Alignment explanation
Indices: 7531508--7531538 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7531498 GTTAAACGAA
7531508 TCGAGTTAT
1 TCGAGTTAT
*
7531517 TCGAGTTAA
1 TCGAGTTAT
7531526 TCGAGTTAT
1 TCGAGTTAT
7531535 TCGA
1 TCGA
7531539 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:7531609 original size:9 final size:9
Alignment explanation
Indices: 7531592--7531628 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7531582 TGAGTTTTCG
7531592 AATTCGAAT
1 AATTCGAAT
*
7531601 AACTCGAAT
1 AATTCGAAT
7531610 AATTCGAAT
1 AATTCGAAT
7531619 AATTCGAAT
1 AATTCGAAT
7531628 A
1 A
7531629 TCCAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7534090 original size:23 final size:24
Alignment explanation
Indices: 7534046--7534091 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
7534036 TTTCTCACAT
* **
7534046 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
7534070 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
7534092 AAACTCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:7534245 original size:3 final size:3
Alignment explanation
Indices: 7534237--7534360 Score: 221
Period size: 3 Copynumber: 41.3 Consensus size: 3
7534227 TCACTCATCT
7534237 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
7534285 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAG TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7534333 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7534361 TACCTCACAT
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 115 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7535079 original size:17 final size:17
Alignment explanation
Indices: 7535045--7535078 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7535035 GAATGGTCTC
*
7535045 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
7535062 TGTTTCTTTTATT-TTT
1 TGTTTCTTTTATTCTTT
7535078 T
1 T
7535079 TTATTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:7535135 original size:22 final size:24
Alignment explanation
Indices: 7535105--7535154 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
7535095 ATGTATTAGT
*
7535105 TAATAATAATAATAACAATATATTA
1 TAATAATCAT-ATAACAATATATTA
* *
7535130 TAATAATCATATAATAATATTTTA
1 TAATAATCATATAACAATATATTA
7535154 T
1 T
7535155 TCACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
TAATAATCATATAACAATATATTA
Found at i:7535489 original size:12 final size:12
Alignment explanation
Indices: 7535448--7535489 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
7535438 ATAATAATAA
*
7535448 AAATAATTACAAT
1 AAATAATT-TAAT
7535461 -AATAATTTAATT
1 AAATAATTTAA-T
7535473 AAATAATTTAAT
1 AAATAATTTAAT
7535485 AAATA
1 AAATA
7535490 TCTATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 2 0.08
12 14 0.54
13 10 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATAATTTAAT
Found at i:7537934 original size:83 final size:83
Alignment explanation
Indices: 7537833--7538129 Score: 242
Period size: 82 Copynumber: 3.5 Consensus size: 83
7537823 ATCAATTTTA
* * **
7537833 TTAAACGAC-AGAATTAAATCCTGAAACAAATTTATTTGA-TTAAGTCTTTGTTTGGAAACAAAA
1 TTAAACGGCGAGAA-TAAATCCTGAAACAAATTTATTTAATTTAAGTC-TAATTTGGAAACAAAA
* **
7537896 TTAGGATCGAATAAAATCTG
64 TCAAAATCGAATAAAATCTG
* * *
7537916 TTAAACGGCGAGAATAAAT-CTCGAAACAGA-TTATTCAATTTAATTCTAATTTGGAAACAAAAT
1 TTAAACGGCGAGAATAAATCCT-GAAACAAATTTATTTAATTTAAGTCTAATTTGGAAACAAAAT
7537979 CAAAATCGAATAAAATCTG
65 CAAAATCGAATAAAATCTG
* * * * ** * *
7537998 TTAAATGGCGAGAATAAATCCCGAAACAAATTTTATTTCATTTTAATTTCTCTTTTGGCAATAAA
1 TTAAACGGCGAGAATAAATCCTGAAACAAA-TTTATTT-AATTTAA-GTCTAATTTGGAAACAAA
* * *
7538063 ATAAAAATTGGAATAAAATATG
63 ATCAAAA-TCGAATAAAATCTG
* * * * ** *
7538085 TTAAATGGCGGGAAAAAATCCCGAAGTAGATTTTATTTAATTTAA
1 TTAAACGGCGAGAATAAATCCTGAAACA-AATTTATTTAATTTAA
7538130 TTACTCGTTT
Statistics
Matches: 176, Mismatches: 28, Indels: 17
0.80 0.13 0.08
Matches are distributed among these distances:
82 64 0.36
83 27 0.15
84 9 0.05
85 6 0.03
86 26 0.15
87 43 0.24
88 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.32
Consensus pattern (83 bp):
TTAAACGGCGAGAATAAATCCTGAAACAAATTTATTTAATTTAAGTCTAATTTGGAAACAAAATC
AAAATCGAATAAAATCTG
Found at i:7538094 original size:87 final size:86
Alignment explanation
Indices: 7537883--7538140 Score: 292
Period size: 82 Copynumber: 3.0 Consensus size: 86
7537873 TAAGTCTTTG
* ** * *
7537883 TTTGGAAACAAAATTAGGATCGAATAAAATCTGTTAAACGGCGAGAATAAATCTCGAAACAGA--
1 TTTGGAAACAAAATAAAAATCGAATAAAATCTGTTAAATGGCGAGAATAAATCCCGAAACAGATT
**
7537946 TTA-TTCAATTTAA-TTCTAA
66 TTATTTCAATTTAATTTCTCT
* *
7537965 TTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAATGGCGAGAATAAATCCCGAAACAAATT
1 TTTGGAAACAAAATAAAAATCGAATAAAATCTGTTAAATGGCGAGAATAAATCCCGAAACAGATT
*
7538030 TTATTTCATTTTAATTTCTCT
66 TTATTTCAATTTAATTTCTCT
* * * * * * **
7538051 TTTGGCAATAAAATAAAAATTGGAATAAAATATGTTAAATGGCGGGAAAAAATCCCGAAGTAGAT
1 TTTGGAAACAAAATAAAAA-TCGAATAAAATCTGTTAAATGGCGAGAATAAATCCCGAAACAGAT
*
7538116 TTTATTT-AATTTAATTACTCGT
65 TTTATTTCAATTTAATTTCTC-T
7538138 TTT
1 TTT
7538141 TATTTAATTT
Statistics
Matches: 149, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
82 57 0.38
84 3 0.02
85 9 0.06
86 31 0.21
87 49 0.33
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (86 bp):
TTTGGAAACAAAATAAAAATCGAATAAAATCTGTTAAATGGCGAGAATAAATCCCGAAACAGATT
TTATTTCAATTTAATTTCTCT
Found at i:7538144 original size:23 final size:23
Alignment explanation
Indices: 7538115--7538163 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
7538105 CCGAAGTAGA
7538115 TTTTATTTAA-TTTAATTACTCGT
1 TTTTATTTAATTTTAA-TACTCGT
7538138 TTTTATTTAATTTTAATACTCGT
1 TTTTATTTAATTTTAATACTCGT
7538161 TTT
1 TTT
7538164 AGAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTATTTAATTTTAATACTCGT
Found at i:7538171 original size:110 final size:109
Alignment explanation
Indices: 7538028--7538239 Score: 266
Period size: 110 Copynumber: 1.9 Consensus size: 109
7538018 CCGAAACAAA
* * * * * *
7538028 TTTTATTTCATTTTAATTTCTCTTTTGGCAATAAAATAAAAATTGGAATAAAATATGTTAAATGG
1 TTTTATTTAATTTTAATTACTCTTTTAGAAATAAAATAAAAATTGGAATAAAACATGTT-AACGG
**
7538093 CGGGAAA-AAATCCCGAAGTAGATTTTATTTAATTTAATTACTCGT
65 C-GGAAATAAATCCCGAAACAGATTTTATTTAATTTAATTACTCGT
* * *
7538138 TTTTATTTAATTTTAA-TACTCGTTTTAGAAATAAAATCAAAATTGGAATAATACATGTTGACGG
1 TTTTATTTAATTTTAATTACTC-TTTTAGAAATAAAATAAAAATTGGAATAAAACATGTTAACGG
* *
7538202 CTGAAATAAATCTCGAAACAGATTTTATTTAATTTAAT
65 CGGAAATAAATCCCGAAACAGATTTTATTTAATTTAAT
7538240 GTTAATTTTG
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
108 4 0.05
109 36 0.41
110 47 0.54
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.41
Consensus pattern (109 bp):
TTTTATTTAATTTTAATTACTCTTTTAGAAATAAAATAAAAATTGGAATAAAACATGTTAACGGC
GGAAATAAATCCCGAAACAGATTTTATTTAATTTAATTACTCGT
Found at i:7538274 original size:38 final size:39
Alignment explanation
Indices: 7538223--7538298 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
7538213 CTCGAAACAG
*
7538223 ATTTTATTTAA-TTTAAT-GTTAATTTTGGAAATAAAATA
1 ATTTTATTTAATTTTAATACTT-ATTTTGGAAATAAAATA
*
7538261 ATTTTATTTAATTTTAATACTTGTTTTGGAAATAAAAT
1 ATTTTATTTAATTTTAATACTTATTTTGGAAATAAAAT
7538299 TAAAATTGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 11 0.32
39 21 0.62
40 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.51
Consensus pattern (39 bp):
ATTTTATTTAATTTTAATACTTATTTTGGAAATAAAATA
Found at i:7538355 original size:87 final size:86
Alignment explanation
Indices: 7538261--7538538 Score: 301
Period size: 87 Copynumber: 3.2 Consensus size: 86
7538251 AAATAAAATA
* * *
7538261 ATTTTATTTAATTTTAATACTTGTTTTGGAAATAAAATTAAAATTGGAATAAAATCTGTTAAACG
1 ATTTTATTTAATTTTAATACTCGTTTTGGAAATAAAATAAAAAATGGAATAAAATC-GTTAAACG
* * * *
7538326 GTAGGGATAAATCACAAAATAT
65 GTAGGAATAAATCTCAAAACAG
* * *
7538348 ATTTTATTTAATTTAAATACTCGTTTTGGAAATAAAATAAAAAATGGAATAAAAATCATTGAACG
1 ATTTTATTTAATTTTAATACTCGTTTTGGAAATAAAATAAAAAATGGAAT-AAAATCGTTAAACG
**
7538413 GT-GAGAATAAATCTTGAAACAG
65 GTAG-GAATAAATCTCAAAACAG
* * * * *
7538435 ATTTTATTT-ATCTTTAATTCTCG-TTTAGAAATAAAATCAGAAGTGGAATAAAATCCGTTAAAC
1 ATTTTATTTAAT-TTTAATACTCGTTTTGGAAATAAAATAAAAAATGGAATAAAAT-CGTTAAAC
* * *
7538498 TGCAGGAATAAATCTCGAAACAG
64 GGTAGGAATAAATCTCAAAACAG
*
7538521 ATTTTATTTAACTTTAAT
1 ATTTTATTTAATTTTAAT
7538539 TTTTATTTTC
Statistics
Matches: 161, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
85 5 0.03
86 64 0.40
87 86 0.53
88 6 0.04
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (86 bp):
ATTTTATTTAATTTTAATACTCGTTTTGGAAATAAAATAAAAAATGGAATAAAATCGTTAAACGG
TAGGAATAAATCTCAAAACAG
Found at i:7541755 original size:183 final size:184
Alignment explanation
Indices: 7541439--7541773 Score: 464
Period size: 183 Copynumber: 1.8 Consensus size: 184
7541429 AGAATTCAGA
* * *
7541439 ACACCCAATGGACAAACACTAAACCTGAGCCCCAAAAACATGCCCAGTTTTCTATGTTCCCTAGG
1 ACACCCAATAGACAAACACTAAACCTGAGCCCCAAAAACAAGCCCAGTTTTCTATGCTCCCTAGG
* * * * *
7541504 TTTATGCACATGGAAACACATCATCCCATTAACCCGATATTTTACCAAGCTCTTCCTCACGACCC
66 TTTATACACATGAAAACACATCACCCCATTAACCCAATATTTTACCAAACTCTTCCTCACGACCC
*
7541569 TACAAAAGTCA-TTCCTATACAAACATGCCACAGAAATTACCAAACTCTTCCTC
131 TACAAAACTCATTTCCTATACAAACATGCCACAGAAATTACCAAACTCTTCCTC
* *
7541622 ACACCCAATAGACAAGCACTAAA-CTCGAG-CCCAAAAACAAGCGCAGTTTTCTATGCTCCCTAG
1 ACACCCAATAGACAAACACTAAACCT-GAGCCCCAAAAACAAGCCCAGTTTTCTATGCTCCCTAG
* * * *
7541685 GTTTGA-ACACTTGAAATACACTTTACCCCATTAACCCAATATTTTACCAAATTCTTCCTCAC-A
65 GTTT-ATACACATGAAA-ACACATCACCCCATTAACCCAATATTTTACCAAACTCTTCCTCACGA
7541748 CCCCTACAAAACTCATTTCCTATACA
128 -CCCTACAAAACTCATTTCCTATACA
7541774 GAGACCCCAT
Statistics
Matches: 132, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
182 45 0.34
183 77 0.58
184 10 0.08
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.25
Consensus pattern (184 bp):
ACACCCAATAGACAAACACTAAACCTGAGCCCCAAAAACAAGCCCAGTTTTCTATGCTCCCTAGG
TTTATACACATGAAAACACATCACCCCATTAACCCAATATTTTACCAAACTCTTCCTCACGACCC
TACAAAACTCATTTCCTATACAAACATGCCACAGAAATTACCAAACTCTTCCTC
Found at i:7544421 original size:20 final size:20
Alignment explanation
Indices: 7544385--7544451 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
7544375 TTATAAAATA
* *
7544385 TTTAAAGTTATAGCAAATTT
1 TTTAAAGATATATCAAATTT
* * **
7544405 TTTAAGGATGTATCAAAAAT
1 TTTAAAGATATATCAAATTT
*
7544425 TTTAAAGTTATATCAAATTT
1 TTTAAAGATATATCAAATTT
7544445 TCTTAAA
1 T-TTAAA
7544452 CTTTTACTTA
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
20 30 0.86
21 5 0.14
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (20 bp):
TTTAAAGATATATCAAATTT
Found at i:7544567 original size:21 final size:20
Alignment explanation
Indices: 7544550--7544592 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7544540 ATACTAAATG
7544550 GTTTACCAAAATTTCTAAAA
1 GTTTACCAAAATTTCTAAAA
* *
7544570 GTTTACTAGAATTTCT-AAA
1 GTTTACCAAAATTTCTAAAA
7544589 GTTT
1 GTTT
7544593 TTCTTAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (20 bp):
GTTTACCAAAATTTCTAAAA
Done.