Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 166 of 211
Found at i:51703019 original size:19 final size:19
Alignment explanation
Indices: 51702995--51703048 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
51702985 AATTTTTGAG
51702995 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51703014 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
51703033 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
51703049 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:51703074 original size:22 final size:22
Alignment explanation
Indices: 51703008--51703071 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 22
51702998 ATGCAATCTT
*
51703008 AGATATGATATGCAATCTT---
1 AGATATGATATGTAATCTTAGA
51703027 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
51703049 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
51703072 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.46
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:51703081 original size:22 final size:23
Alignment explanation
Indices: 51703037--51703081 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
51703027 AGATATGATA
*
51703037 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
51703060 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
51703082 GTAGATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:51703621 original size:3 final size:3
Alignment explanation
Indices: 51703613--51703661 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
51703603 TGTTAATGTA
51703613 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT CA-T ATGT AATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T -ATT ATT ATT
51703659 ATT
1 ATT
51703662 TTAGCTATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 3 0.07
3 34 0.83
4 2 0.05
5 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:51704259 original size:19 final size:20
Alignment explanation
Indices: 51704218--51704259 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
51704208 ATTTCTAGGC
* *
51704218 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
51704238 CATTGT-ATATTTAATATAG
1 CATTGTAATATTTAATATAG
51704257 CAT
1 CAT
51704260 CACATCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:51709806 original size:19 final size:18
Alignment explanation
Indices: 51709764--51709817 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
51709754 AGGCACGAGC
*
51709764 GCATCCTGGCACACAAAG
1 GCATCCTGGCACATAAAG
*
51709782 GTCATCCTGGCACATGAAG
1 G-CATCCTGGCACATAAAG
*
51709801 TGCATCCTGACACATAA
1 -GCATCCTGGCACATAA
51709818 GCGTATAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 1 0.03
19 28 0.93
20 1 0.03
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (18 bp):
GCATCCTGGCACATAAAG
Found at i:51710369 original size:12 final size:12
Alignment explanation
Indices: 51710352--51710380 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
51710342 TTTATCTTGA
51710352 TAAATATAATAT
1 TAAATATAATAT
51710364 TAAATATAATAT
1 TAAATATAATAT
51710376 TAAAT
1 TAAAT
51710381 CTTATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATATAATAT
Found at i:51715716 original size:24 final size:24
Alignment explanation
Indices: 51715689--51715741 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
51715679 TTTTTAGAAG
* *
51715689 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
51715713 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
51715737 ATTTA
1 ATTTA
51715742 ACTTTGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:51715751 original size:24 final size:24
Alignment explanation
Indices: 51715696--51715752 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
51715686 AAGATTTAGT
* * *
51715696 ATTTATGAGTATAATATATTTAGC
1 ATTTATTAGCATAATATATTTAAC
51715720 ATTTATTAGCATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
51715744 -TTTGATTAG
1 ATTT-ATTAG
51715753 AATTAGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:51718000 original size:34 final size:35
Alignment explanation
Indices: 51717945--51718011 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
51717935 CAAACACCAG
*
51717945 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
51717980 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
51718012 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:51720568 original size:24 final size:24
Alignment explanation
Indices: 51720534--51720585 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
51720524 ATTTTAGAAG
* *
51720534 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
* *
51720558 ATTTAGCATTTGTTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
51720582 ATTT
1 ATTT
51720586 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:51729901 original size:27 final size:27
Alignment explanation
Indices: 51729870--51730203 Score: 447
Period size: 27 Copynumber: 12.4 Consensus size: 27
51729860 TTAATAGATG
* *
51729870 AAAATGACTAAAATACCCTCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
*
51729897 AAAATAACTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
** * *
51729924 AAAATGACCAAAATACCCCTATAGAGT
1 AAAATGACTGAAATACCCCCATAGGGT
51729951 AAAATGA-TCGAAATACCCCCATAGGGT
1 AAAATGACT-GAAATACCCCCATAGGGT
*
51729978 AAAATGACTAAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
** **
51730005 AAAATGACCAAAATACTTCCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
51730032 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
* ** *
51730059 AAAATAACCAAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
* *
51730086 AAAATGACCGAAATACCCTCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
51730113 AAAATGA-TCGAAATACCCCCATAGGGT
1 AAAATGACT-GAAATACCCCCATAGGGT
*
51730140 AAAATGACTGAAATACCCCCATAGGAT
1 AAAATGACTGAAATACCCCCATAGGGT
**
51730167 AAAATGACTGAAATACCCTTATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
51730194 AAAATGACTG
1 AAAATGACTG
51730204 TTATAGCCTT
Statistics
Matches: 269, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
27 267 0.99
28 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCCATAGGGT
Found at i:51730461 original size:26 final size:27
Alignment explanation
Indices: 51730432--51730491 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
51730422 AACTTTGCTA
51730432 CGATATTGA-TACTGGCAGCTCTACTG
1 CGATATTGATTACTGGCAGCTCTACTG
* *
51730458 CGATGTT-ATTACTGGCAGCTTTACTG
1 CGATATTGATTACTGGCAGCTCTACTG
*
51730484 CAATATTG
1 CGATATTG
51730492 GTGTGTTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (27 bp):
CGATATTGATTACTGGCAGCTCTACTG
Found at i:51730631 original size:28 final size:28
Alignment explanation
Indices: 51730591--51730683 Score: 143
Period size: 28 Copynumber: 3.4 Consensus size: 28
51730581 TTGCACTGCG
*
51730591 CTGTTACTATATTGAGCTAAGGCCCACA
1 CTGTTACTATATTGGGCTAAGGCCCACA
*
51730619 CTGTTATTATATTGGGCTAAGGCCCACA
1 CTGTTACTATATTGGGCTAAGGCCCACA
* *
51730647 CTGTTACTGTATTGGGCTAGGGCCCACA
1 CTGTTACTATATTGGGCTAAGGCCCACA
51730675 CTG-TACTAT
1 CTGTTACTAT
51730684 CACTGAATAG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 5 0.08
28 54 0.92
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (28 bp):
CTGTTACTATATTGGGCTAAGGCCCACA
Found at i:51732413 original size:14 final size:15
Alignment explanation
Indices: 51732394--51732425 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
51732384 TTTGTAATAA
51732394 AAATTTT-AAAACTT
1 AAATTTTAAAAACTT
51732408 AAATTTTAAAAACTT
1 AAATTTTAAAAACTT
51732423 AAA
1 AAA
51732426 AATTTGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTTTAAAAACTT
Found at i:51732440 original size:18 final size:19
Alignment explanation
Indices: 51732417--51732457 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
51732407 TAAATTTTAA
51732417 AAAC-TTAAAAATTTGGAG
1 AAACTTTAAAAATTTGGAG
* *
51732435 AAACTTTGAAACTTTGGAG
1 AAACTTTAAAAATTTGGAG
51732454 AAAC
1 AAAC
51732458 AAGTTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (19 bp):
AAACTTTAAAAATTTGGAG
Found at i:51735651 original size:18 final size:18
Alignment explanation
Indices: 51735588--51735655 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 18
51735578 AGTATAATAT
51735588 AAAAAGAAAGAAAGAAAG
1 AAAAAGAAAGAAAGAAAG
* *
51735606 AAACAGAAAAGCCAAACGGATTAG
1 AAAAAG-AAAG--AAA--GA-AAG
51735630 -AAAAGAAAGAAAGAAAG
1 AAAAAGAAAGAAAGAAAG
51735647 AAAAAGAAA
1 AAAAAGAAA
51735656 AGGGAGAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
17 2 0.05
18 15 0.38
19 4 0.10
20 3 0.08
21 3 0.08
22 4 0.10
23 6 0.15
24 2 0.05
ACGTcount: A:0.71, C:0.06, G:0.21, T:0.03
Consensus pattern (18 bp):
AAAAAGAAAGAAAGAAAG
Found at i:51735980 original size:18 final size:19
Alignment explanation
Indices: 51735951--51735986 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
51735941 ATGAAATTTT
*
51735951 TGAAAGTTAGGGATTTAAG
1 TGAAAGTTAGGGAGTTAAG
51735970 TGAAA-TTAGGGAGTTAA
1 TGAAAGTTAGGGAGTTAA
51735987 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (19 bp):
TGAAAGTTAGGGAGTTAAG
Found at i:51742463 original size:16 final size:16
Alignment explanation
Indices: 51742442--51742473 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
51742432 GGTTTGATGA
51742442 GTGATGAATGATGGAG
1 GTGATGAATGATGGAG
51742458 GTGATGAATGATGGAG
1 GTGATGAATGATGGAG
51742474 AAGGTTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.25
Consensus pattern (16 bp):
GTGATGAATGATGGAG
Found at i:51742839 original size:29 final size:30
Alignment explanation
Indices: 51742782--51742839 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
51742772 TCTTTTGAAG
*
51742782 ATATTTACAAAAAGAGACATCTAATTTTTA
1 ATATTTACAAAAAGAGACATCTAAATTTTA
*
51742812 ATATTTATAAAAAGAGTA-A-CTAAATTTT
1 ATATTTACAAAAAGAG-ACATCTAAATTTT
51742840 GAAAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 16 0.64
31 1 0.04
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (30 bp):
ATATTTACAAAAAGAGACATCTAAATTTTA
Found at i:51751334 original size:7 final size:7
Alignment explanation
Indices: 51751322--51751372 Score: 102
Period size: 7 Copynumber: 7.3 Consensus size: 7
51751312 GTATATGTAT
51751322 TATATAA
1 TATATAA
51751329 TATATAA
1 TATATAA
51751336 TATATAA
1 TATATAA
51751343 TATATAA
1 TATATAA
51751350 TATATAA
1 TATATAA
51751357 TATATAA
1 TATATAA
51751364 TATATAA
1 TATATAA
51751371 TA
1 TA
51751373 AATGAAATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:51753590 original size:30 final size:30
Alignment explanation
Indices: 51753555--51753613 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
51753545 CACGGGGTAT
* *
51753555 GTCACACACGAGCGACACAAATGGGCATGG
1 GTCACACACGAGCAACACAAATGGACATGG
* *
51753585 GTCACACACGGGCAACACACATGGACATG
1 GTCACACACGAGCAACACAAATGGACATG
51753614 TGACCCATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.29, G:0.27, T:0.10
Consensus pattern (30 bp):
GTCACACACGAGCAACACAAATGGACATGG
Found at i:51756812 original size:39 final size:39
Alignment explanation
Indices: 51756769--51756849 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
51756759 AATAAAATAA
51756769 AGAGTTGTATGACTTAATTGATGGATTGATATTGATTTG
1 AGAGTTGTATGACTTAATTGATGGATTGATATTGATTTG
51756808 AGAGTTGTATGACTTAATTGATGGATTGATATTGATTTG
1 AGAGTTGTATGACTTAATTGATGGATTGATATTGATTTG
51756847 AGA
1 AGA
51756850 ATGATGAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (39 bp):
AGAGTTGTATGACTTAATTGATGGATTGATATTGATTTG
Found at i:51756958 original size:42 final size:42
Alignment explanation
Indices: 51756907--51757066 Score: 144
Period size: 42 Copynumber: 3.8 Consensus size: 42
51756897 CTTTGGTTTG
* *
51756907 TCCGCTGATGCACTTACGTGGCAATATAATTGCTTTGGA-ATA
1 TCCGATGATGCACTTACGTGCCAATATAATTGCTTT-GATATA
* * * *
51756949 TCCGATGATGCACTTATGTGCCAGTATATTTGCTTCGATATA
1 TCCGATGATGCACTTACGTGCCAATATAATTGCTTTGATATA
* ** * * * *
51756991 T-TGATGATGTGCTTACGTGCCATTATATTTTCTTTGATACA
1 TCCGATGATGCACTTACGTGCCAATATAATTGCTTTGATATA
* * * *
51757032 TCTGATGATGCACTTAGGTGCCAACATGATTGCTT
1 TCCGATGATGCACTTACGTGCCAATATAATTGCTT
51757067 CGGTTTATCC
Statistics
Matches: 94, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
41 35 0.37
42 59 0.63
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (42 bp):
TCCGATGATGCACTTACGTGCCAATATAATTGCTTTGATATA
Found at i:51759627 original size:27 final size:27
Alignment explanation
Indices: 51759587--51759640 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
51759577 AAGGCAATTC
**
51759587 GTGAAGTTCATTTACGTCATTGCCTTA
1 GTGAAGTTCATTTACACCATTGCCTTA
*
51759614 GTGAAGTTCTTTTACACCATTGCCTTA
1 GTGAAGTTCATTTACACCATTGCCTTA
51759641 ATGTGAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (27 bp):
GTGAAGTTCATTTACACCATTGCCTTA
Found at i:51763054 original size:97 final size:98
Alignment explanation
Indices: 51762942--51763372 Score: 412
Period size: 97 Copynumber: 4.4 Consensus size: 98
51762932 TCGCATATCA
51762942 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATC-TCAAGCCGATGCCATGTCC
1 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATCGTCAAGCCGATGCCATGTCC
**
51763006 CAAACATGGTCTTACACT-GACTCTCCTCTGTGT
66 CAAACATGGTCTTACACTAG-CTCTCCTCTGTCC
* * * * * *
51763039 GTGCCGATGCCATGTCTCAGACATGGTCTTACACTGACACTCATC-TCGAGCTGATGCCATGTCA
1 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATCGTCAAGCCGATGCCATGTCC
* * * * *
51763103 TAGAA-ATGGCCTAAGACT-GAATCTCCTCTGTCC
66 CA-AACATGGTCTTACACTAG-CTCTCCTCTGTCC
* * * *
51763136 GTGCCGATGCCATGTCCCAAACATAGTCTTACACTAGCACTCCTCGGTCTATGCCGATGCCATGT
1 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATC-GTC-AAGCCGATGCCATGT
* * * *
51763201 CCTAGACATGGTCTTACACTAGCACTCATC--T-C
64 CCCAAACATGGTCTTACACTAGCTCTCCTCTGTCC
* * * * * * * *
51763233 GAGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCCATGCTGATGCCATGT
1 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATC-GT-CAAGCCGATGCCATGT
* * *
51763298 CCCAGACATGGTCTTACACTAGCAT-TCCTCGGTCT
64 CCCAAACATGGTCTTACACTAGC-TCTCCTCTGTCC
* * *
51763333 GTGCCGATTCCATATCCCAAACACGGTCTTACACTGGCAC
1 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCAC
51763373 ACTCACTACC
Statistics
Matches: 272, Mismatches: 51, Indels: 19
0.80 0.15 0.06
Matches are distributed among these distances:
97 201 0.74
98 4 0.01
99 4 0.01
100 62 0.23
101 1 0.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (98 bp):
GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATCGTCAAGCCGATGCCATGTCC
CAAACATGGTCTTACACTAGCTCTCCTCTGTCC
Found at i:51763066 original size:50 final size:49
Alignment explanation
Indices: 51762942--51763368 Score: 379
Period size: 50 Copynumber: 8.7 Consensus size: 49
51762932 TCGCATATCA
* * *
51762942 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATC-T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCC
** * * **
51762989 AAGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCCTCTGTGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-GTCC
* *
51763039 GTGCCGATGCCATGTCTCAGACATGGTCTTACACTGACACTCATC-T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCC
* * ** * * * *
51763086 GAGCTGATGCCATGTCATAGAAATGGCCTAAGACTGA-ATCTCCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACA-CTCCTC-GTCC
* * *
51763136 GTGCCGATGCCATGTCCCAAACATAGTCTTACACT-AGCACTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTC-GTCC
* * *
51763186 ATGCCGATGCCATGTCCTAGACATGGTCTTACACT-AGCACTCATC-T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCGTCC
* * *
51763233 GAGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-GTCC
* * * *
51763283 ATGCTGATGCCATGTCCCAGACATGGTCTTACACT-AGCATTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTC-GTCC
* * * *
51763333 GTGCCGATTCCATATCCCAAACACGGTCTTACACTG
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
51763369 GCACACTCAC
Statistics
Matches: 305, Mismatches: 60, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
46 1 0.00
47 111 0.36
48 3 0.01
49 5 0.02
50 184 0.60
51 1 0.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (49 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCC
Found at i:51763269 original size:147 final size:146
Alignment explanation
Indices: 51762944--51763368 Score: 520
Period size: 147 Copynumber: 2.9 Consensus size: 146
51762934 GCATATCAGT
* * * *
51762944 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCA-CTCATC--T-CAAGCCGATGCCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAATCTCCTCTGTCCATGCCGATGCCATGTC
* * *
51763005 CCAAACATGGTCTTACACT-GACTCTCCTCTGTGTGTGCCGATGCCATGT-CTCAGACATGGTCT
65 CCAAACATGGTCTTACACTAG-CACTCCTCGGTCTGTGCCGATGCCATGTCCT-AGACATGGTCT
51763068 TACACTGACACTCATCTCGA
128 TACACTG-CACTCATCTCGA
* ** * * * * *
51763088 GCTGATGCCATGTCATAGAAATGGCCTAAGACTGAATCTCCTCTGTCCGTGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAATCTCCTCTGTCCATGCCGATGCCATGTCC
* *
51763153 CAAACATAGTCTTACACTAGCACTCCTCGGTCTATGCCGATGCCATGTCCTAGACATGGTCTTAC
66 CAAACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATGTCCTAGACATGGTCTTAC
51763218 ACTAGCACTCATCTCGA
131 ACT-GCACTCATCTCGA
* * *
51763235 GCCGATGTCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCCATGCTGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAATCTCCTCTGTCCATGCCGATGCCATGTCC
* * * * * * *
51763300 CAGACATGGTCTTACACTAGCATTCCTCGGTCTGTGCCGATTCCATATCCCAAACACGGTCTTAC
66 CAAACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATGTCCTAGACATGGTCTTAC
51763365 ACTG
131 ACTG
51763369 GCACACTCAC
Statistics
Matches: 237, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
143 2 0.01
144 30 0.13
146 2 0.01
147 199 0.84
148 4 0.02
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (146 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGAATCTCCTCTGTCCATGCCGATGCCATGTCC
CAAACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATGTCCTAGACATGGTCTTAC
ACTGCACTCATCTCGA
Found at i:51768873 original size:16 final size:16
Alignment explanation
Indices: 51768829--51768875 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
51768819 AAAATAATAC
*
51768829 CTATTTAA-AAATTTT
1 CTATTTAATATATTTT
*
51768844 CTATGTAGAT-TATTTT
1 CTATTTA-ATATATTTT
51768860 CTATTTAATATATTTT
1 CTATTTAATATATTTT
51768876 TGCAATGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (16 bp):
CTATTTAATATATTTT
Found at i:51775771 original size:56 final size:56
Alignment explanation
Indices: 51775618--51775774 Score: 260
Period size: 56 Copynumber: 2.8 Consensus size: 56
51775608 AGTACTTATG
* * * * *
51775618 TAGGAACCAAAATGCTAAGAGATAATATCTCATAATAATATCCTATAATATCCCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATTCTATAACATCCCAT
51775674 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATTCTATAACATCCCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATTCTATAACATCCCAT
*
51775730 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATTCTA
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATTCTA
51775775 ACACCCCCTC
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 95 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (56 bp):
TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATTCTATAACATCCCAT
Found at i:51787554 original size:7 final size:7
Alignment explanation
Indices: 51787542--51787567 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51787532 ATGCAATGGA
51787542 TCCTATG
1 TCCTATG
51787549 TCCTATG
1 TCCTATG
51787556 TCCTATG
1 TCCTATG
51787563 TCCTA
1 TCCTA
51787568 AGTAGTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.12, T:0.42
Consensus pattern (7 bp):
TCCTATG
Found at i:51790990 original size:25 final size:26
Alignment explanation
Indices: 51790934--51790991 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
51790924 AGCCCTCTTA
* *
51790934 AGCTTC-CTGTTATATGGTTCTTGTG
1 AGCTTCTCTGTTATATGGTTATTGCG
51790959 AGCTTCTC-GTTATATGGTTATTGCG
1 AGCTTCTCTGTTATATGGTTATTGCG
51790984 AGCTTCTC
1 AGCTTCTC
51790992 AATAATAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.45
Consensus pattern (26 bp):
AGCTTCTCTGTTATATGGTTATTGCG
Found at i:51791108 original size:26 final size:27
Alignment explanation
Indices: 51791079--51791151 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 27
51791069 CCTGTTATAT
51791079 GGCTCTTCGTGAGCTTTC-CGATTAAA
1 GGCTCTTCGTGAGCTTTCTCGATTAAA
* * *
51791105 GGCTCTTTGTGAGC-TTCTTGATTAAT
1 GGCTCTTCGTGAGCTTTCTCGATTAAA
51791131 GGCTCTTCG-GAGC-TTCTCGAT
1 GGCTCTTCGTGAGCTTTCTCGAT
51791152 ATGGCTCGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 14 0.34
26 27 0.66
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (27 bp):
GGCTCTTCGTGAGCTTTCTCGATTAAA
Found at i:51791240 original size:48 final size:49
Alignment explanation
Indices: 51791188--51791305 Score: 132
Period size: 48 Copynumber: 2.4 Consensus size: 49
51791178 TGGCTATCCG
* * * *
51791188 GAGCTTCCCATTAATGGCTCTTCGGAGCTACCTGTTAT-TAACTCGCAT
1 GAGCTTCCCATTAATGGCTCTTAGGAGCTACCCGTTATACAACCCGCAT
* * *
51791236 GAGCTTCCCAATT-ATGGCTCTTATGAGCTTCCCGTTATACAACCCGGAT
1 GAGCTTCCC-ATTAATGGCTCTTAGGAGCTACCCGTTATACAACCCGCAT
*
51791285 AAGCTTCCCATTATATGGCTC
1 GAGCTTCCCATTA-ATGGCTC
51791306 ACATGAGCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
48 33 0.57
49 18 0.31
50 7 0.12
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (49 bp):
GAGCTTCCCATTAATGGCTCTTAGGAGCTACCCGTTATACAACCCGCAT
Found at i:51791314 original size:25 final size:25
Alignment explanation
Indices: 51791233--51791317 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 25
51791223 TATTAACTCG
* *
51791233 CATGAGCTTCCCAAT-TATGGCTCT
1 CATGAGCTTCCCATTATATGGCTCA
* * *** * *
51791257 TATGAGCTTCCCGTTATACAACCCG
1 CATGAGCTTCCCATTATATGGCTCA
* *
51791282 GATAAGCTTCCCATTATATGGCTCA
1 CATGAGCTTCCCATTATATGGCTCA
51791307 CATGAGCTTCC
1 CATGAGCTTCC
51791318 TGTTAAATGG
Statistics
Matches: 42, Mismatches: 18, Indels: 1
0.69 0.30 0.02
Matches are distributed among these distances:
24 12 0.29
25 30 0.71
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (25 bp):
CATGAGCTTCCCATTATATGGCTCA
Found at i:51795203 original size:42 final size:42
Alignment explanation
Indices: 51795139--51795236 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
51795129 GTGGTTATAA
* * * *
51795139 CACACACCCATGTGCTCACCCGTGTAACTCACTGATTTAGTT
1 CACACGCCCGTGTGCTCACCCGTATAACTCACTGACTTAGTT
* * * *
51795181 CACACGCTCGTGTGCT-ATCCCGTATGACTCATTGACTTGGTT
1 CACACGCCCGTGTGCTCA-CCCGTATAACTCACTGACTTAGTT
51795223 CACACGCCCGTGTG
1 CACACGCCCGTGTG
51795237 GGTTGCCCGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (42 bp):
CACACGCCCGTGTGCTCACCCGTATAACTCACTGACTTAGTT
Found at i:51801439 original size:32 final size:32
Alignment explanation
Indices: 51801368--51801442 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
51801358 GAAAGATGCA
*
51801368 ATTATTCTAAATACAACCTATTCCAAACAATG
1 ATTATTCTAAATACAACCTATTCCAAACAATC
* *
51801400 ATCATTCTAAATATAA-CTATTCCTGAAACAA-C
1 ATTATTCTAAATACAACCTATTCC--AAACAATC
51801432 ATTATTCTAAA
1 ATTATTCTAAA
51801443 CAAAAGTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 7 0.19
32 24 0.65
33 6 0.16
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (32 bp):
ATTATTCTAAATACAACCTATTCCAAACAATC
Found at i:51801591 original size:16 final size:16
Alignment explanation
Indices: 51801542--51801603 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
51801532 TGTTTTGAGC
*
51801542 ATAACTATTCTAGA-A
1 ATAACTATTCTAAACA
* * *
51801557 ATAGCTATCCTTGAACA
1 ATAACTATTC-TAAACA
* *
51801574 ATAATTGTTCTAAACA
1 ATAACTATTCTAAACA
51801590 ATAACTATTCTAAA
1 ATAACTATTCTAAA
51801604 TAAGATTTGT
Statistics
Matches: 34, Mismatches: 11, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
15 8 0.24
16 19 0.56
17 7 0.21
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (16 bp):
ATAACTATTCTAAACA
Found at i:51802221 original size:28 final size:28
Alignment explanation
Indices: 51802187--51802242 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
51802177 TTATTTATGT
51802187 TATAAAATTAAAAGAAATATAGAATGGA
1 TATAAAATTAAAAGAAATATAGAATGGA
*
51802215 TATAAAATTAAAAGAAGTATAGAATGGA
1 TATAAAATTAAAAGAAATATAGAATGGA
51802243 CAAAAGGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (28 bp):
TATAAAATTAAAAGAAATATAGAATGGA
Found at i:51808036 original size:181 final size:181
Alignment explanation
Indices: 51807732--51808101 Score: 704
Period size: 181 Copynumber: 2.0 Consensus size: 181
51807722 ATTTGTGTTC
51807732 CATTATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGG
1 CATTATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGG
*
51807797 TGTTCATAATAACTGAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGGA
66 TGTTCATAATAACTGAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCA
51807862 CTGAGACACATTATTGTCTCCATTTTGTATTTGCTAAACTTGTTTCTTTAA
131 CTGAGACACATTATTGTCTCCATTTTGTATTTGCTAAACTTGTTTCTTTAA
51807913 CATTATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGG
1 CATTATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGG
* *
51807978 TGTTCATAATAACTTAATATCGAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCA
66 TGTTCATAATAACTGAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCA
*
51808043 CTGAGACACATTATTGTCTCCATTTTGTATTTTCTAAACTTGTTTCTTTAA
131 CTGAGACACATTATTGTCTCCATTTTGTATTTGCTAAACTTGTTTCTTTAA
51808094 CATTATAT
1 CATTATAT
51808102 GAGATATGTG
Statistics
Matches: 185, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
181 185 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (181 bp):
CATTATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGG
TGTTCATAATAACTGAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCA
CTGAGACACATTATTGTCTCCATTTTGTATTTGCTAAACTTGTTTCTTTAA
Found at i:51809320 original size:3 final size:3
Alignment explanation
Indices: 51809312--51809336 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51809302 TAGCTAGCGA
51809312 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
51809337 CCCTTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:51810652 original size:70 final size:69
Alignment explanation
Indices: 51810535--51810677 Score: 241
Period size: 70 Copynumber: 2.1 Consensus size: 69
51810525 CATCCAATGC
* * *
51810535 ATTAGTTTTACAAAAAGATATCATATTATAATTGAAGGGTTAGGAGTGTTTAAATTTAGATTCTA
1 ATTAGTTTTACAAAAAGATATCATATTATAATAGAAGGGTTAAGAGTGCTTAAATTTAGATTC-A
51810600 ACTTG
65 ACTTG
*
51810605 ATTAGTTTTACAAAAAGATATTATATTATAATAGAAGGGTTAAGAGTGCTTAAATTTAGATTCAA
1 ATTAGTTTTACAAAAAGATATCATATTATAATAGAAGGGTTAAGAGTGCTTAAATTTAGATTCAA
51810670 CTTG
66 CTTG
51810674 ATTA
1 ATTA
51810678 ATAATCAGGT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
69 10 0.14
70 59 0.86
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (69 bp):
ATTAGTTTTACAAAAAGATATCATATTATAATAGAAGGGTTAAGAGTGCTTAAATTTAGATTCAA
CTTG
Found at i:51811422 original size:24 final size:24
Alignment explanation
Indices: 51811395--51811444 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
51811385 TTTGCCGCCT
*
51811395 CCATGCTTTCCGTGCTTAAATTTC
1 CCATGCTTCCCGTGCTTAAATTTC
*
51811419 CCATGCTTCCCGTGCTTGAATTTC
1 CCATGCTTCCCGTGCTTAAATTTC
51811443 CC
1 CC
51811445 CCCATGATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.34, G:0.14, T:0.38
Consensus pattern (24 bp):
CCATGCTTCCCGTGCTTAAATTTC
Found at i:51811464 original size:21 final size:22
Alignment explanation
Indices: 51811431--51811489 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
51811421 ATGCTTCCCG
*
51811431 TGCTTGAATTTCCCC-CCATGA
1 TGCTTGAACTTCCCCACCATGA
*
51811452 TGCTTAAACTTCCCACCACCATGA
1 TGCTTGAACTT-CC-CCACCATGA
*
51811476 TGTTTGAACTTCCC
1 TGCTTGAACTTCCC
51811490 ATGATGACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 9 0.29
22 3 0.10
23 4 0.13
24 15 0.48
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (22 bp):
TGCTTGAACTTCCCCACCATGA
Found at i:51811521 original size:9 final size:9
Alignment explanation
Indices: 51811509--51811560 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
51811499 ATGATCAAAC
51811509 CCATGAGCA
1 CCATGAGCA
*
51811518 CCATAAGCA
1 CCATGAGCA
51811527 CCATGAGCA
1 CCATGAGCA
*
51811536 CCATAAGCA
1 CCATGAGCA
51811545 CCATGAGCA
1 CCATGAGCA
51811554 CCATGAG
1 CCATGAG
51811561 ACACGTGGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.37, C:0.33, G:0.19, T:0.12
Consensus pattern (9 bp):
CCATGAGCA
Found at i:51811530 original size:18 final size:18
Alignment explanation
Indices: 51811509--51811557 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
51811499 ATGATCAAAC
51811509 CCATGAGCACCATAAGCA
1 CCATGAGCACCATAAGCA
51811527 CCATGAGCACCATAAGCA
1 CCATGAGCACCATAAGCA
51811545 CCATGAGCACCAT
1 CCATGAGCACCAT
51811558 GAGACACGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.37, C:0.35, G:0.16, T:0.12
Consensus pattern (18 bp):
CCATGAGCACCATAAGCA
Found at i:51811833 original size:30 final size:32
Alignment explanation
Indices: 51811799--51811860 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
51811789 GGGGTATCCT
*
51811799 CCTTGAGGAGGGTA-G-CCAGCTGGTGGATAG
1 CCTTGAGGAGGGTACGCCCAGCCGGTGGATAG
*
51811829 CCTTGAGGGGGGTACGCTCCAGCCGGTGGATA
1 CCTTGAGGAGGGTACGC-CCAGCCGGTGGATA
51811861 TCCGCCAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 13 0.48
31 1 0.04
33 13 0.48
ACGTcount: A:0.18, C:0.21, G:0.42, T:0.19
Consensus pattern (32 bp):
CCTTGAGGAGGGTACGCCCAGCCGGTGGATAG
Found at i:51814456 original size:56 final size:56
Alignment explanation
Indices: 51814367--51814482 Score: 171
Period size: 56 Copynumber: 2.1 Consensus size: 56
51814357 TTACTAAAAA
*
51814367 AAATAAGAAGAGATTTTGATGATCAAAACGAAAGTGACCTAAAACTTGGGATGACCG
1 AAATAAGAAGAGATTTTAATGATCAAAACGAAAGTGACCTAAAACTT-GGATGACCG
* * * *
51814424 AAAT-AGAAGAGATTTTAATGATTAAAATGAAAGTGACCTAACACTTGGATGACTG
1 AAATAAGAAGAGATTTTAATGATCAAAACGAAAGTGACCTAAAACTTGGATGACCG
51814479 AAAT
1 AAAT
51814483 GAAAGTGTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 12 0.22
56 38 0.70
57 4 0.07
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (56 bp):
AAATAAGAAGAGATTTTAATGATCAAAACGAAAGTGACCTAAAACTTGGATGACCG
Found at i:51814700 original size:69 final size:69
Alignment explanation
Indices: 51814618--51814756 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
51814608 GCTTGGATAA
*
51814618 CTAAAATGAAAACGACTTAAAAGTTGAGTGACCAATTGGGACAATTTACCCTCGCTTAAATGACA
1 CTAAAATGAAAACGACTTAAAAGTTGAGTAACCAATTGGGACAATTTACCCTCGCTTAAATGACA
51814683 TCCC
66 TCCC
51814687 CTAAAATGAAAACGACTTAAAAGTTGAGTAACCAATTGGGACAATTTACCCTCGCTTAAATGACA
1 CTAAAATGAAAACGACTTAAAAGTTGAGTAACCAATTGGGACAATTTACCCTCGCTTAAATGACA
51814752 TCCC
66 TCCC
51814756 C
1 C
51814757 AAATATCAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.24
Consensus pattern (69 bp):
CTAAAATGAAAACGACTTAAAAGTTGAGTAACCAATTGGGACAATTTACCCTCGCTTAAATGACA
TCCC
Found at i:51814877 original size:22 final size:22
Alignment explanation
Indices: 51814852--51814897 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
51814842 CCTCTGCAGA
51814852 TTTATGTATTCATATTATTCTC
1 TTTATGTATTCATATTATTCTC
*
51814874 TTTATGTCTTCATATTATTCTC
1 TTTATGTATTCATATTATTCTC
51814896 TT
1 TT
51814898 ACATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTATGTATTCATATTATTCTC
Found at i:51821462 original size:42 final size:41
Alignment explanation
Indices: 51821373--51821482 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 41
51821363 AGGTTGTACA
* * *
51821373 GAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAAT
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGAAT
* *
51821414 GAAAGCTCATAAGAGCTTAACGGAAACCCATAATGGTT-AAGCT
1 G-AAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGAA--T
* *
51821457 GAAGCTCAAAAGAGCTGAACGGAAAC
1 GAAGCTCATAAGAGCTAAACGGAAAC
51821483 TGAATAGGGT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 3 0.05
42 54 0.92
43 2 0.03
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (41 bp):
GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGAAT
Found at i:51821512 original size:42 final size:42
Alignment explanation
Indices: 51821379--51821512 Score: 110
Period size: 42 Copynumber: 3.2 Consensus size: 42
51821369 TACAGAAGCA
* * * * * *
51821379 CATAAGTGCTAAACAGAAACCCATAAGGGTTGAA-TGAAAGCT
1 CATAAGAGCTGAACGGAAACCAATAAGGGTTAAACT-AAAACT
* * * * * *
51821421 CATAAGAGCTTAACGGAAACCCATAATGGTTAAGCTGAAGCT
1 CATAAGAGCTGAACGGAAACCAATAAGGGTTAAACTAAAACT
* *
51821463 CAAAAGAGCTGAACGGAAACTGAAT-AGGGTTAAACTAAAACT
1 CATAAGAGCTGAACGGAAAC-CAATAAGGGTTAAACTAAAACT
51821505 CATAAGAG
1 CATAAGAG
51821513 TTAACTGAAG
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 71 0.96
43 3 0.04
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (42 bp):
CATAAGAGCTGAACGGAAACCAATAAGGGTTAAACTAAAACT
Found at i:51821515 original size:21 final size:21
Alignment explanation
Indices: 51821491--51821537 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
51821481 ACTGAATAGG
51821491 GTTAAACTAAAACTCATAAGA
1 GTTAAACTAAAACTCATAAGA
* *
51821512 GTT-AACTGAAGCTCATAAGA
1 GTTAAACTAAAACTCATAAGA
*
51821532 GCTAAA
1 GTTAAA
51821538 TAGAAAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (21 bp):
GTTAAACTAAAACTCATAAGA
Found at i:51821526 original size:20 final size:20
Alignment explanation
Indices: 51821394--51821532 Score: 77
Period size: 21 Copynumber: 6.7 Consensus size: 20
51821384 GTGCTAAACA
* *
51821394 GAAACCCATAAGGGTTGAA-T
1 GAAACTCATAAGAGTT-AACT
*
51821414 GAAAGCTCATAAGAGCTTAACG
1 GAAA-CTCATAAGAG-TTAACT
*
51821436 GAAACCCATAATG-GTTAAGCT
1 GAAACTCATAA-GAGTTAA-CT
* * * *
51821457 GAAGCTCAAAAGAGCTGAACG
1 GAAACTCATAAGAG-TTAACT
* *
51821478 GAAACTGA-ATAGGGTTAAACT
1 GAAACTCATA-AGAGTT-AACT
*
51821499 AAAACTCATAAGAGTTAACT
1 GAAACTCATAAGAGTTAACT
*
51821519 GAAGCTCATAAGAG
1 GAAACTCATAAGAG
51821533 CTAAATAGAA
Statistics
Matches: 89, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
20 27 0.30
21 51 0.57
22 11 0.12
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.19
Consensus pattern (20 bp):
GAAACTCATAAGAGTTAACT
Found at i:51823285 original size:40 final size:42
Alignment explanation
Indices: 51823241--51823320 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
51823231 TTAAAAATCT
51823241 AAAGTTAA-A-ATATATTATAATATTATA-ATAATATTATTTA
1 AAAGTTAAGATATATATTAT-ATATTATATATAATATTATTTA
*
51823281 AAAGTTAAGTATATATATTATATATTATATATTATATTAT
1 AAAGTTAAG-ATATATATTATATATTATATATAATATTAT
51823321 ATTATATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
40 8 0.23
42 9 0.26
43 18 0.51
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (42 bp):
AAAGTTAAGATATATATTATATATTATATATAATATTATTTA
Found at i:51823302 original size:5 final size:5
Alignment explanation
Indices: 51823290--51823332 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
51823280 AAAAGTTAAG
51823290 TATA- TATAT TATA- TAT-T ATATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATAT TATAT
51823333 AATAAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 7 0.20
5 27 0.77
6 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:51823302 original size:7 final size:7
Alignment explanation
Indices: 51823292--51823333 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
51823282 AAGTTAAGTA
51823292 TATATAT
1 TATATAT
51823299 TATATAT
1 TATATAT
51823306 TATATAT
1 TATATAT
51823313 TATAT-T
1 TATATAT
51823319 ATATTATAT
1 -TA-TATAT
51823328 TATATA
1 TATATA
51823334 ATAAAAGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 1 0.03
7 25 0.78
8 5 0.16
9 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATATAT
Found at i:51824364 original size:22 final size:22
Alignment explanation
Indices: 51824307--51824371 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
51824297 CTCTGATTAC
* *
51824307 TAGCACGTTAGTGCTCTCC-ATT
1 TAGCACTTTAGTGCTC-CCTATA
*
51824329 TAGTACATTT-GTGCTCCCTATA
1 TAGCAC-TTTAGTGCTCCCTATA
*
51824351 TAGCACTTTAGTGCTCTCTAT
1 TAGCACTTTAGTGCTCCCTAT
51824372 TCATTAGTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 5 0.14
22 28 0.80
23 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (22 bp):
TAGCACTTTAGTGCTCCCTATA
Found at i:51827711 original size:5 final size:5
Alignment explanation
Indices: 51827699--51827731 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
51827689 AAAAGTTAAG
51827699 TATA- TATAT TATA- TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
51827732 AATAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:51828738 original size:22 final size:22
Alignment explanation
Indices: 51828712--51828761 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
51828702 CTAGCAAGTC
*
51828712 AGTGCTCTCCGTTTAGCACATTT
1 AGTGCTCTCCGTATAGCAC-TTT
*
51828735 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCCGTATAGCACTTT
51828756 AGTGCT
1 AGTGCT
51828762 ATTTGTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (22 bp):
AGTGCTCTCCGTATAGCACTTT
Found at i:51835201 original size:12 final size:14
Alignment explanation
Indices: 51835184--51835217 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
51835174 ATAATGGTCA
51835184 TATGTGTA-G-TAC
1 TATGTGTAGGCTAC
51835196 TATGTGTAGGCTAC
1 TATGTGTAGGCTAC
51835210 TATGTGTA
1 TATGTGTA
51835218 CCGGAAGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 1 0.05
14 11 0.55
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (14 bp):
TATGTGTAGGCTAC
Found at i:51835211 original size:51 final size:50
Alignment explanation
Indices: 51835131--51835328 Score: 193
Period size: 51 Copynumber: 3.9 Consensus size: 50
51835121 TGCCTATAAA
* * *
51835131 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AATAGATAATGGT
1 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGAA-AGAT-ATGGT
** * * * *
51835182 CATATGTGTAGTACTATGTGTAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACC-GAAAGATATGGT
* * * *
51835233 TACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACC-GAAAGATATGGT
* * * *
51835283 CACGTGTGTAGTACTATGTGAAGGCTAGTACGTGTATCGAATGATA
1 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGAAAGATA
51835329 ATAATTACAC
Statistics
Matches: 121, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 74 0.61
52 2 0.02
53 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGAAAGATATGGT
Found at i:51838090 original size:42 final size:42
Alignment explanation
Indices: 51838035--51838122 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
51838025 GCAGCCCAAA
* * *
51838035 GGTTGCACAGAAGCAT-ATAAGTGCTAAACAGAAACTGATAAG
1 GGTTGAACAGAAGC-TCATAAGAGCTAAACAGAAACTCATAAG
* * * *
51838077 GGTTGAACGGAAGCTCATAAGAGCTGAGCGGAAACTCATAAG
1 GGTTGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAG
51838119 GGTT
1 GGTT
51838123 AAGGTGAAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (42 bp):
GGTTGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAG
Found at i:51838096 original size:21 final size:21
Alignment explanation
Indices: 51838072--51838148 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
51838062 ACAGAAACTG
*
51838072 ATAAGGGTTGAACGGAAGCTC
1 ATAAGAGTTGAACGGAAGCTC
* * *
51838093 ATAAGAGCTGAGCGGAAACTC
1 ATAAGAGTTGAACGGAAGCTC
* *
51838114 ATAAGGGTT-AAGGTGAAGCTC
1 ATAAGAGTTGAACG-GAAGCTC
*
51838135 AAAAGAGTTGAACG
1 ATAAGAGTTGAACG
51838149 AAAACCTAAT
Statistics
Matches: 42, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
20 2 0.05
21 37 0.88
22 3 0.07
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.18
Consensus pattern (21 bp):
ATAAGAGTTGAACGGAAGCTC
Found at i:51838163 original size:42 final size:42
Alignment explanation
Indices: 51838066--51838166 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
51838056 TGCTAAACAG
* * * * *
51838066 AAACTGATAAGGGTTGAACG-GAAGCTCATAAGAGCTGAGCGG
1 AAACTAATAAGGGTT-AAGGTGAAGCTCAAAAGAGCTGAACGA
* *
51838108 AAACTCATAAGGGTTAAGGTGAAGCTCAAAAGAGTTGAACGA
1 AAACTAATAAGGGTTAAGGTGAAGCTCAAAAGAGCTGAACGA
51838150 AAACCTAAT-AGGGTTAA
1 AAA-CTAATAAGGGTTAA
51838167 ACTGAAACTC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.06
42 43 0.86
43 4 0.08
ACGTcount: A:0.41, C:0.13, G:0.28, T:0.19
Consensus pattern (42 bp):
AAACTAATAAGGGTTAAGGTGAAGCTCAAAAGAGCTGAACGA
Found at i:51841126 original size:28 final size:27
Alignment explanation
Indices: 51841094--51841153 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
51841084 CGAATCCCTA
51841094 TTGTGAACATGTCAAGAAATGGAAGCCT
1 TTGTGAACATGTC-AGAAATGGAAGCCT
** *
51841122 TTGTG-ATGTGTCTGAAATGGAAGCCT
1 TTGTGAACATGTCAGAAATGGAAGCCT
51841148 TTGTGA
1 TTGTGA
51841154 CATTCTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 18 0.64
27 5 0.18
28 5 0.18
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (27 bp):
TTGTGAACATGTCAGAAATGGAAGCCT
Found at i:51844966 original size:36 final size:36
Alignment explanation
Indices: 51844919--51845000 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
51844909 TAAATAGCTA
* * *
51844919 GCTGATTTAATATCGCAGTTGATATCGTTAAGGTTT
1 GCTGATTTAATATCACAGCTGATATCATTAAGGTTT
51844955 GCTGATTTAATATCACAGCTGATATCATTAAGGTTT
1 GCTGATTTAATATCACAGCTGATATCATTAAGGTTT
*
51844991 GTTGATTTAA
1 GCTGATTTAA
51845001 GATTACAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (36 bp):
GCTGATTTAATATCACAGCTGATATCATTAAGGTTT
Found at i:51845172 original size:13 final size:13
Alignment explanation
Indices: 51845154--51845182 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
51845144 AGTTAATTTG
51845154 ATTTAATATCGCT
1 ATTTAATATCGCT
51845167 ATTTAATATCGCT
1 ATTTAATATCGCT
51845180 ATT
1 ATT
51845183 CTAAACAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (13 bp):
ATTTAATATCGCT
Found at i:51845248 original size:108 final size:108
Alignment explanation
Indices: 51845059--51845271 Score: 327
Period size: 108 Copynumber: 2.0 Consensus size: 108
51845049 GAGTTAGTTG
*
51845059 ATTTAATATCGCTACTCTAAACAACTCGCTGATTTAATATCGCAGCTAATATCGTTAAGATTCGC
1 ATTTAATATCGCTACTCTAAACAACTCGCTGATTTAAGATCGCAGCTAATATCGTTAAGATTCGC
*
51845124 TGATTTAAGATCACAACATAAGTTAATTTGATTTAATATCGCT
66 TGATTTAAGATCACAACATAAGTTAATTCGATTTAATATCGCT
* * * * * *
51845167 ATTTAATATCGCTATTCTAAACAACTTGTTGATTTAAGATCGCAGCTGATATTGTTAAGGTTCGC
1 ATTTAATATCGCTACTCTAAACAACTCGCTGATTTAAGATCGCAGCTAATATCGTTAAGATTCGC
* * *
51845232 TGATTTAAGATTACAACCTAAGTTCATTCGATTTAATATC
66 TGATTTAAGATCACAACATAAGTTAATTCGATTTAATATC
51845272 ATGAACAATC
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 94 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (108 bp):
ATTTAATATCGCTACTCTAAACAACTCGCTGATTTAAGATCGCAGCTAATATCGTTAAGATTCGC
TGATTTAAGATCACAACATAAGTTAATTCGATTTAATATCGCT
Found at i:51845333 original size:131 final size:132
Alignment explanation
Indices: 51845167--51845806 Score: 734
Period size: 131 Copynumber: 4.9 Consensus size: 132
51845157 TAATATCGCT
* * *
51845167 ATTTAATATCGCTATTCTAAACAACTT-GTTGATTTAAGATCGCAGCTGATATTGTTAAGGTTCG
1 ATTTAATATCGCTACTCTAAACAACTTCGTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCG
*
51845231 CTGATTTAAGATTACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGC
66 CTGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGC
51845296 TA
131 TA
* * *** * *
51845298 ATTTAATATCACTACTCTAAAC-ATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTTG
1 ATTTAATATCGCTACTCTAAACAACTTCGTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCG
* * * *
51845362 TTGATTTAAGATCGCAACATAAGTTCATTTGATTTAATATCATGAACAATCTTATCTAAGTTAGC
66 CTGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGC
51845427 TA
131 TA
* * *** * **
51845429 ATTTTATATCGCTACTCTAAAC-ATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTTT
1 ATTTAATATCGCTACTCTAAACAACTTCGTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCG
* * * * * *
51845493 TTTATTTAAGATCGCAACATAAGTTCATTTGATTTAATATCATGAACAATCTTATCTGAGTTAGC
66 CTGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGC
*
51845558 TG
131 TA
* ** * * ** * *
51845560 ATTTAATATCGCTACTCTAAACGAC-TCACTAATTTAAGATCGCAACTGATATCGTTAAGGTTCA
1 ATTTAATATCGCTACTCTAAACAACTTCGTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCG
* * * *
51845624 CTGATTTAAGATTGCAACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATTTGAGTTATC
66 CTGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGC
*
51845689 TT
131 TA
* * * * * * * *
51845691 ATTTAGTATCACTATTCTAACCAACTT-GCTAATTTAATATTGCAGTTGATATCGTTAAGGTTCG
1 ATTTAATATCGCTACTCTAAACAACTTCGTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCG
* * *
51845755 CT-ATTTTAAGATTACAACCTAATTTCATTCCATTTAATATCATGAACAATCT
66 CTGA-TTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCT
51845807 CATTTGTGTT
Statistics
Matches: 446, Mismatches: 59, Indels: 8
0.87 0.12 0.02
Matches are distributed among these distances:
130 4 0.01
131 440 0.99
132 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (132 bp):
ATTTAATATCGCTACTCTAAACAACTTCGTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCG
CTGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGC
TA
Found at i:51845382 original size:239 final size:239
Alignment explanation
Indices: 51844957--51845402 Score: 649
Period size: 239 Copynumber: 1.9 Consensus size: 239
51844947 TAAGGTTTGC
* * *
51844957 TGATTTAATATCACAGCTGATATCATTAAGGTTTGTTGATTTAAGATTACAACCTAAGTTCATTC
1 TGATTTAAGATCACAGCTGATATCATTAAGGTTCGCTGATTTAAGATTACAACCTAAGTTCATTC
* * * *
51845022 AATCTAATATCATGAACAATCTTATCTGAGTTAGTTGATTTAATATCGCTACTCTAAACAACTCG
66 AATCTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCACTACTCTAAACAACTCG
*
51845087 CTGATTTAATATCGCAGCTAATATCGTTAAGATTCGCTGATTTAAGATCACAACATAAGTTAATT
131 CTGATTTAATATCACAGCTAATATCGTTAAGATTCGCTGATTTAAGATCACAACATAAGTTAATT
51845152 TGATTTAATATCGCTATTTAATATCGCTATTCTAAACAACTTGT
196 TGATTTAATATCGCTATTTAATATCGCTATTCTAAACAACTTGT
* **
51845196 TGATTTAAGATCGCAGCTGATATTGTTAAGGTTCGCTGATTTAAGATTACAACCTAAGTTCATTC
1 TGATTTAAGATCACAGCTGATATCATTAAGGTTCGCTGATTTAAGATTACAACCTAAGTTCATTC
* * **
51845261 GATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCACTACTCTAAACATTTCG
66 AATCTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCACTACTCTAAACAACTCG
* ** * * * * * * * * *
51845326 TTGATTTAATATCATTGTTGATATTGTTAGGGTTTGTTGATTTAAGATCGCAACATAAGTTCATT
131 CTGATTTAATATCACAGCTAATATCGTTAAGATTCGCTGATTTAAGATCACAACATAAGTTAATT
51845391 TGATTTAATATC
196 TGATTTAATATC
51845403 ATGAACAATC
Statistics
Matches: 180, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
239 180 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (239 bp):
TGATTTAAGATCACAGCTGATATCATTAAGGTTCGCTGATTTAAGATTACAACCTAAGTTCATTC
AATCTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCACTACTCTAAACAACTCG
CTGATTTAATATCACAGCTAATATCGTTAAGATTCGCTGATTTAAGATCACAACATAAGTTAATT
TGATTTAATATCGCTATTTAATATCGCTATTCTAAACAACTTGT
Found at i:51845440 original size:64 final size:64
Alignment explanation
Indices: 51845245--51845571 Score: 189
Period size: 64 Copynumber: 5.0 Consensus size: 64
51845235 TTTAAGATTA
* * *
51845245 CAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCA
1 CAACATAAGTTCATTTGATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCG
* * * * *** * * * * * *
51845309 CTACTCTAAACATTTC-GTTGATTTAATATCATTG-TTGATATTGT-TAGGGTTTGTTGATTTAA
1 C-A-AC-ATA-AGTTCATTTGATTTAATATCA-TGAACAATCTTATCTA-AGTTAGCTAATTTAA
*
51845371 GATCG
60 TATCG
*
51845376 CAACATAAGTTCATTTGATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTTATATCG
1 CAACATAAGTTCATTTGATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCG
* * * * *** * * * *** *
51845440 CTACTCTAAACATTTC-GTTGATTTAATATCATTG-TTGATATTGT-TAGGGTTTTTTTATTTAA
1 C-A-AC-ATA-AGTTCATTTGATTTAATATCA-TGAACAATCTTATCTA-AGTTAGCTAATTTAA
*
51845502 GATCG
60 TATCG
* *
51845507 CAACATAAGTTCATTTGATTTAATATCATGAACAATCTTATCTGAGTTAGCTGATTTAATATCG
1 CAACATAAGTTCATTTGATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCG
51845571 C
1 C
51845572 TACTCTAAAC
Statistics
Matches: 181, Mismatches: 64, Indels: 36
0.64 0.23 0.13
Matches are distributed among these distances:
63 12 0.07
64 73 0.40
65 7 0.04
66 8 0.04
67 69 0.38
68 12 0.07
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (64 bp):
CAACATAAGTTCATTTGATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCG
Found at i:51845469 original size:67 final size:67
Alignment explanation
Indices: 51845261--51845471 Score: 209
Period size: 67 Copynumber: 3.2 Consensus size: 67
51845251 AAGTTCATTC
*
51845261 GATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCACTACTCTAAACATTTCG
1 GATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCGCTACTCTAAACATTTCG
51845326 TT
66 TT
*** * * * * * * * * * *
51845328 GATTTAATATCATTG-TTGATATTGT-TAGGGTTTGTTGATTTAAGATCGC-A-AC-ATA-AGTT
1 GATTTAATATCA-TGAACAATCTTATCTA-AGTTAGCTAATTTAATATCGCTACTCTAAACATTT
*
51845387 CATTT
64 C-GTT
*
51845392 GATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTTATATCGCTACTCTAAACATTTCG
1 GATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCGCTACTCTAAACATTTCG
51845457 TT
66 TT
51845459 GATTTAATATCAT
1 GATTTAATATCAT
51845472 TGTTGATATT
Statistics
Matches: 105, Mismatches: 30, Indels: 18
0.69 0.20 0.12
Matches are distributed among these distances:
63 6 0.06
64 36 0.34
65 4 0.04
66 4 0.04
67 49 0.47
68 6 0.06
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (67 bp):
GATTTAATATCATGAACAATCTTATCTAAGTTAGCTAATTTAATATCGCTACTCTAAACATTTCG
TT
Found at i:51845507 original size:67 final size:67
Alignment explanation
Indices: 51845296--51845507 Score: 184
Period size: 67 Copynumber: 3.2 Consensus size: 67
51845286 CTAAGTTAGC
* *
51845296 TAATTTAATATCACTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTT
1 TAATTTAAGATCGCTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTT
51845361 GT
66 GT
* * * * * *** * * *
51845363 TGATTTAAGATCGC-A-AC-ATA-AGTTCATTTGATTTAATATCA-TGAACAATCTTATCTA-AG
1 TAATTTAAGATCGCTACTCTAAACATTTC-GTTGATTTAATATCATTG-TTGATATTGT-TAGGG
* *
51845422 TTAGC
63 TTTGT
* *
51845427 TAATTTTATATCGCTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTT
1 TAATTTAAGATCGCTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTT
*
51845492 TT
66 GT
*
51845494 TTATTTAAGATCGC
1 TAATTTAAGATCGC
51845508 AACATAAGTT
Statistics
Matches: 102, Mismatches: 34, Indels: 18
0.66 0.22 0.12
Matches are distributed among these distances:
63 6 0.06
64 36 0.35
65 4 0.04
66 4 0.04
67 46 0.45
68 6 0.06
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (67 bp):
TAATTTAAGATCGCTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTT
GT
Found at i:51858978 original size:2 final size:2
Alignment explanation
Indices: 51858971--51859019 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
51858961 TAGGGCAAGT
51858971 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
51859013 GA GA GA G
1 GA GA GA G
51859020 TGGTAGAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:51859996 original size:30 final size:30
Alignment explanation
Indices: 51859937--51860023 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 30
51859927 TCATGAACAT
*
51859937 TTATAACAATTATTATAAATTAATTAAAAA
1 TTATAACAATTATTATAAATTAATAAAAAA
*
51859967 TTATAA-AATT-TTATCAAATTTATAAAAAA
1 TTATAACAATTATTAT-AAATTAATAAAAAA
* * *
51859996 --ATAA-ATTTATTAAAAACT-ATAAAAAA
1 TTATAACAATTATTATAAATTAATAAAAAA
51860022 TT
1 TT
51860024 TAATAATGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
26 8 0.17
27 11 0.23
28 7 0.15
29 16 0.33
30 6 0.12
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (30 bp):
TTATAACAATTATTATAAATTAATAAAAAA
Found at i:51860491 original size:23 final size:23
Alignment explanation
Indices: 51860452--51860495 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
51860442 TAATTTCTAA
51860452 TAATTATTATAGATTTTATTTTTT
1 TAATTATTATAGATTTT-TTTTTT
*
51860476 TAATT-TTATA-AGTTTTTTTT
1 TAATTATTATAGATTTTTTTTT
51860496 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 5 0.26
24 5 0.26
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (23 bp):
TAATTATTATAGATTTTTTTTTT
Found at i:51860503 original size:12 final size:12
Alignment explanation
Indices: 51860479--51860511 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
51860469 ATTTTTTTAA
*
51860479 TTTTATAAGTTT
1 TTTTATAATTTT
51860491 TTTT-TAATTTT
1 TTTTATAATTTT
51860502 TTTTATAATT
1 TTTTATAATT
51860512 CTAAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:51860626 original size:18 final size:17
Alignment explanation
Indices: 51860600--51860639 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
51860590 TTTAAAATAA
*
51860600 TTTTAAAATATTCTTTAT
1 TTTTTAAAT-TTCTTTAT
*
51860618 TTTTTAAATTTTTTTAT
1 TTTTTAAATTTCTTTAT
51860635 TTTTT
1 TTTTT
51860640 CTAATGTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTAAATTTCTTTAT
Found at i:51862263 original size:15 final size:15
Alignment explanation
Indices: 51862243--51862274 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51862233 CATTTCACTA
*
51862243 TTATGCCTTTTGTAT
1 TTATGCCTTTTATAT
51862258 TTATGCCTTTTATAT
1 TTATGCCTTTTATAT
51862273 TT
1 TT
51862275 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.62
Consensus pattern (15 bp):
TTATGCCTTTTATAT
Found at i:51862805 original size:202 final size:202
Alignment explanation
Indices: 51862450--51862858 Score: 674
Period size: 202 Copynumber: 2.0 Consensus size: 202
51862440 GCATTTGATT
*
51862450 TAAATACTAATAAGAATTATAATGTCATCTACAAATCCAATTGAGGAGATGACTAGTCTTGGCTA
1 TAAATACTAATAAGAATTATAATGTCATCTACAAACCCAATTGAGGAGATGACTAGTCTTGGCTA
* * *
51862515 TCGGAGCAGTTGTTTCAATGAGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGACT
66 CCAGAGCAGTTGTTTCAACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGACT
* *
51862580 GGACTCACGATGAATTAATTCTGAATCCGTTTGTGAATTAATTCACTTGTGATGTTCATGGTATG
131 GGACTCACAATGAATTAATTCTGAATCCATTTGTGAATTAATTCACTTGTGATGTTCATGGTATG
51862645 ATTTATC
196 ATTTATC
* * * * * * *
51862652 TAAATATTGATAAGAATTATTATGTCGTTTACAAACCCAATTGGGGAGATGGCTAGTCTTGGCTA
1 TAAATACTAATAAGAATTATAATGTCATCTACAAACCCAATTGAGGAGATGACTAGTCTTGGCTA
* *
51862717 CCAGAGCAGTTGTTTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGATT
66 CCAGAGCAGTTGTTTCAACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGACT
*
51862782 GGACTCACAATGAATTAATTCTGAATCCATTTGTGAATTAATTCACTTGTGATGTTCATGGTGTG
131 GGACTCACAATGAATTAATTCTGAATCCATTTGTGAATTAATTCACTTGTGATGTTCATGGTATG
51862847 ATTTATC
196 ATTTATC
51862854 TAAAT
1 TAAAT
51862859 CCTGAGTTCA
Statistics
Matches: 191, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
202 191 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (202 bp):
TAAATACTAATAAGAATTATAATGTCATCTACAAACCCAATTGAGGAGATGACTAGTCTTGGCTA
CCAGAGCAGTTGTTTCAACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGACT
GGACTCACAATGAATTAATTCTGAATCCATTTGTGAATTAATTCACTTGTGATGTTCATGGTATG
ATTTATC
Found at i:51863662 original size:9 final size:9
Alignment explanation
Indices: 51863648--51863678 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
51863638 GATCAAGTAA
51863648 AATTAAATT
1 AATTAAATT
51863657 AATTAAATT
1 AATTAAATT
51863666 AATTAAAATT
1 AATT-AAATT
51863676 AAT
1 AAT
51863679 ATGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:51870477 original size:6 final size:6
Alignment explanation
Indices: 51870468--51870504 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
51870458 TTGGTGGATA
51870468 GTGCTG GTGCTG GTGCTG GTGCTG GTGCTG GTG-TG GT
1 GTGCTG GTGCTG GTGCTG GTGCTG GTGCTG GTGCTG GT
51870505 TGGGGTCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.00, C:0.14, G:0.51, T:0.35
Consensus pattern (6 bp):
GTGCTG
Found at i:51870627 original size:10 final size:10
Alignment explanation
Indices: 51870600--51870639 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
51870590 TATATTGTAG
*
51870600 GAGGGAGGGA
1 GAGGGAGAGA
*
51870610 GAGCGAGAGA
1 GAGGGAGAGA
51870620 GAGGGAGAGA
1 GAGGGAGAGA
*
51870630 GAGAGAGAGA
1 GAGGGAGAGA
51870640 AACAAGAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.40, C:0.03, G:0.57, T:0.00
Consensus pattern (10 bp):
GAGGGAGAGA
Found at i:51874320 original size:29 final size:28
Alignment explanation
Indices: 51874266--51874323 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
51874256 GTTATGAATC
51874266 TTTTTATTTTTTATAAATTTAGAATTTAG
1 TTTTTATTTTTTAT-AATTTAGAATTTAG
*
51874295 TTTTTATATTTTTAT-TTTTAGAAATTTAG
1 TTTTTAT-TTTTTATAATTTAG-AATTTAG
51874324 ACTCTTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.19
29 14 0.54
30 7 0.27
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (28 bp):
TTTTTATTTTTTATAATTTAGAATTTAG
Found at i:51874738 original size:27 final size:29
Alignment explanation
Indices: 51874694--51874747 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 29
51874684 ACACCACCTA
*
51874694 TTAAAAAATATTTTTAATATAAATAAATT
1 TTAAAAAATATTTATAATATAAATAAATT
* *
51874723 TTAAAAAA-A-TTATAATTTAATTAAA
1 TTAAAAAATATTTATAATATAAATAAA
51874748 AGAGATGTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 13 0.59
28 1 0.05
29 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAAAAAATATTTATAATATAAATAAATT
Found at i:51889146 original size:51 final size:51
Alignment explanation
Indices: 51889091--51889305 Score: 324
Period size: 51 Copynumber: 4.2 Consensus size: 51
51889081 GCTAAGCCAC
* * *
51889091 CACTTACCGCTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* *
51889142 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAC
1 CACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* *
51889193 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* *
51889244 CACTTGCCACTAT-TCACTGATCAGATAAGTGTATCTGAAGCTACTACTTAT
1 CACTTGCCACT-TGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
*
51889295 CACTTGTCACT
1 CACTTGCCACT
51889306 GATCAGAAGT
Statistics
Matches: 151, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
51 150 0.99
52 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (51 bp):
CACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
Found at i:51892676 original size:19 final size:19
Alignment explanation
Indices: 51892662--51892701 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
51892652 AAAGAATGGT
51892662 GCCTGAACTAAAGAAAGTA
1 GCCTGAACTAAAGAAAGTA
*
51892681 GCCTGAACTAATGAAAGTA
1 GCCTGAACTAAAGAAAGTA
51892700 GC
1 GC
51892702 AAACGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (19 bp):
GCCTGAACTAAAGAAAGTA
Found at i:51897576 original size:30 final size:30
Alignment explanation
Indices: 51897532--51897668 Score: 98
Period size: 30 Copynumber: 4.6 Consensus size: 30
51897522 CACCACCAGT
* * *
51897532 ACATACTACCTGATAAATATAAACATCGGC
1 ACATAGTACTTGATAAATATAAACACCGGC
** * * *
51897562 ACATAGTGTTTGATATACTATGAAA-ATCGGT
1 ACATAGTACTTGATA-AATAT-AAACACCGGC
* **
51897593 ACAAAGTACTTGAT-AATATAGTCACCGGC
1 ACATAGTACTTGATAAATATAAACACCGGC
* **
51897622 ACATAGTACCTGATAAATATAAACACCTAC
1 ACATAGTACTTGATAAATATAAACACCGGC
**
51897652 ACATAGTGTTTGATAAA
1 ACATAGTACTTGATAAA
51897669 CCCTAATCAC
Statistics
Matches: 80, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
28 1 0.01
29 20 0.25
30 36 0.45
31 20 0.25
32 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.28
Consensus pattern (30 bp):
ACATAGTACTTGATAAATATAAACACCGGC
Found at i:51906114 original size:11 final size:12
Alignment explanation
Indices: 51906097--51906129 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
51906087 ATCATTAATA
51906097 AATAAACGAGTC
1 AATAAACGAGTC
*
51906109 -ATAAACAAGTC
1 AATAAACGAGTC
51906120 AATAAACGAG
1 AATAAACGAG
51906130 CTTGTTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:51911027 original size:40 final size:41
Alignment explanation
Indices: 51910953--51911078 Score: 155
Period size: 41 Copynumber: 3.1 Consensus size: 41
51910943 GCTAACCGAA
* * * ** *
51910953 AAACACCGCAAAAGGTAAAGCATTAACAACGTTTTT-GCAT
1 AAACACCGTAAAAGGTAAAGCAATAGCGGCGTTTTTCCCAT
* *
51910993 AAACACCGTAAAAGGTAAAGCAATAGCGGTGTTTTTCTCAT
1 AAACACCGTAAAAGGTAAAGCAATAGCGGCGTTTTTCCCAT
* *
51911034 AAACATCGTAAAAGGTAAAACAATAGCGGCGTTTTTCCCAT
1 AAACACCGTAAAAGGTAAAGCAATAGCGGCGTTTTTCCCAT
51911075 AAAC
1 AAAC
51911079 GCCGCAAATA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 30 0.41
41 44 0.59
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (41 bp):
AAACACCGTAAAAGGTAAAGCAATAGCGGCGTTTTTCCCAT
Found at i:51911315 original size:23 final size:24
Alignment explanation
Indices: 51911285--51911336 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
51911275 ATCTTTCAAA
*
51911285 TCTTCGCTCAAATTTAT-TTGTTC
1 TCTTCGCTCAAATTTATCTCGTTC
*
51911308 TCTTCGCTCAAATTTCTCTCGTTC
1 TCTTCGCTCAAATTTATCTCGTTC
51911332 TCTTC
1 TCTTC
51911337 ATTCAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.13, C:0.29, G:0.08, T:0.50
Consensus pattern (24 bp):
TCTTCGCTCAAATTTATCTCGTTC
Found at i:51914520 original size:9 final size:9
Alignment explanation
Indices: 51914506--51914537 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
51914496 TATATCATAT
51914506 CATAACTTA
1 CATAACTTA
*
51914515 CGTAACTTA
1 CATAACTTA
51914524 CATAACTTA
1 CATAACTTA
51914533 CATAA
1 CATAA
51914538 TACATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31
Consensus pattern (9 bp):
CATAACTTA
Found at i:51914544 original size:34 final size:34
Alignment explanation
Indices: 51914470--51914544 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
51914460 AAAACTTTGG
* *
51914470 ATCATAACTTACATAATACATAAATATATATCAT
1 ATCATAACTTACATAATACATAAATATACATAAT
* *
51914504 ATCATAACTTACGTAACTTACATAACT-TACATAAT
1 ATCATAACTTACATAA--TACATAAATATACATAAT
51914539 A-CATAA
1 ATCATAA
51914545 ATATATATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 20 0.57
35 7 0.20
36 8 0.23
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.33
Consensus pattern (34 bp):
ATCATAACTTACATAATACATAAATATACATAAT
Found at i:51914569 original size:27 final size:27
Alignment explanation
Indices: 51914486--51914578 Score: 95
Period size: 27 Copynumber: 3.5 Consensus size: 27
51914476 ACTTACATAA
*
51914486 TACATAAATATATATCATATCATAACT
1 TACATAAATATATATAATATCATAACT
* * *
51914513 TACGTAACT-TACATAACT-TACATAA--
1 TACATAAATATATATAA-TAT-CATAACT
*
51914538 TACATAAATATATATTATATCATAACT
1 TACATAAATATATATAATATCATAACT
51914565 TACATAAATATATA
1 TACATAAATATATA
51914579 AAAATCACAG
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
25 13 0.25
26 12 0.23
27 27 0.52
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (27 bp):
TACATAAATATATATAATATCATAACT
Found at i:51919926 original size:43 final size:43
Alignment explanation
Indices: 51919798--51919928 Score: 181
Period size: 43 Copynumber: 3.0 Consensus size: 43
51919788 TTAACATGAC
* * * * *
51919798 CTTTAGCGGCGTTTTTGGGAAAAGCATCGCTAAAGGTCATGTA
1 CTTTAGCGGCGTTTGTGGGGAAAGCGTCACTAAAGGTCATGTT
* *
51919841 CTTTAGTGGCGTTTGTAGGGAAAGCGTCACTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCGTCACTAAAGGTCATGTT
* *
51919884 CTTTAACGGCGTTTGTGGGGAAAGCGCCACTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCGTCACTAAAGGTCATGTT
51919927 CT
1 CT
51919929 ATTGCGTTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGGAAAGCGTCACTAAAGGTCATGTT
Found at i:51920613 original size:2 final size:2
Alignment explanation
Indices: 51920606--51920638 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
51920596 CATTCGCTGC
*
51920606 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51920639 CCATCAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:51943116 original size:31 final size:31
Alignment explanation
Indices: 51943078--51943139 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
51943068 ATACATTTAG
51943078 GTTTAACTGTTAGCAT-TAATTGTTTTGTTAA
1 GTTTAACTGTTAGCATGT-ATTGTTTTGTTAA
*
51943109 GTTTAACTGTTAGTATGTATTGTTTTGTTAA
1 GTTTAACTGTTAGCATGTATTGTTTTGTTAA
51943140 ATTTGTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.53
Consensus pattern (31 bp):
GTTTAACTGTTAGCATGTATTGTTTTGTTAA
Found at i:51943302 original size:7 final size:7
Alignment explanation
Indices: 51943290--51943315 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51943280 AAATAAAGGG
51943290 TTAAATT
1 TTAAATT
51943297 TTAAATT
1 TTAAATT
51943304 TTAAATT
1 TTAAATT
51943311 TTAAA
1 TTAAA
51943316 AAATATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:51948263 original size:15 final size:17
Alignment explanation
Indices: 51948239--51948280 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
51948229 AAATATTTAA
*
51948239 AAATATTAAATGAA-TT
1 AAATATTAAATAAACTT
51948255 AAA-ATTAAATAAACTT
1 AAATATTAAATAAACTT
51948271 AAATATTAAA
1 AAATATTAAA
51948281 ATATTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 9 0.39
16 8 0.35
17 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATATTAAATAAACTT
Found at i:51950629 original size:37 final size:38
Alignment explanation
Indices: 51950580--51950679 Score: 100
Period size: 36 Copynumber: 2.7 Consensus size: 38
51950570 ATTTAATTAT
* *
51950580 TTTTTTTA-AATTTTAAAAATATTTAAAAAATTATA-A
1 TTTTTTAATAATTTTAAAAATATTTAAAAAATAATATA
* ***
51950616 TTTTTTAATAATTTTAATAAT-TTTAATTTATAATATA
1 TTTTTTAATAATTTTAAAAATATTTAAAAAATAATATA
* *
51950653 TTTTTTAAT-TTTTTAAAAATAATTAAA
1 TTTTTTAATAATTTTAAAAATATTTAAA
51950680 TATTGGCGTG
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
36 26 0.51
37 25 0.49
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (38 bp):
TTTTTTAATAATTTTAAAAATATTTAAAAAATAATATA
Found at i:51950642 original size:9 final size:9
Alignment explanation
Indices: 51950618--51950642 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
51950608 AATTATAATT
51950618 TTTTAATAA
1 TTTTAATAA
51950627 TTTTAATAA
1 TTTTAATAA
51950636 TTTTAAT
1 TTTTAAT
51950643 TTATAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTAATAA
Found at i:51950644 original size:15 final size:17
Alignment explanation
Indices: 51950624--51950656 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
51950614 AATTTTTTAA
51950624 TAATTT-TAATA-ATTT
1 TAATTTATAATATATTT
51950639 TAATTTATAATATATTT
1 TAATTTATAATATATTT
51950656 T
1 T
51950657 TTAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTTATAATATATTT
Found at i:51953962 original size:10 final size:10
Alignment explanation
Indices: 51953947--51953976 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
51953937 GACCAAATCA
51953947 TTGTAAAGTT
1 TTGTAAAGTT
51953957 TTGTAAAGTT
1 TTGTAAAGTT
*
51953967 TTGAAAAGTT
1 TTGTAAAGTT
51953977 AGACTTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (10 bp):
TTGTAAAGTT
Found at i:51960486 original size:41 final size:41
Alignment explanation
Indices: 51960429--51960508 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
51960419 AAATATTTTG
*
51960429 CTAGCATGGGTTTGTATTAGAAATGGTTAATTTGCATGAGT
1 CTAGCATGGGTTTGTATTAAAAATGGTTAATTTGCATGAGT
*
51960470 CTAGCATGTGTTTGTATTAAAAATGGTTAATTTGCATGA
1 CTAGCATGGGTTTGTATTAAAAATGGTTAATTTGCATGA
51960509 TTTGGACTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (41 bp):
CTAGCATGGGTTTGTATTAAAAATGGTTAATTTGCATGAGT
Found at i:51962869 original size:33 final size:33
Alignment explanation
Indices: 51962843--51962945 Score: 161
Period size: 33 Copynumber: 3.1 Consensus size: 33
51962833 ATCCCTCCAA
51962843 CACACCAATGCTCATAAGAGCTAATCCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAT
* *
51962876 CACACCAATGCTCATAAGAGCTAAACAAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAT
* * *
51962909 CACACCAATGCTCATAAAAGTTAAACCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAT
51962942 CACA
1 CACA
51962946 ACAAACAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.44, C:0.32, G:0.08, T:0.17
Consensus pattern (33 bp):
CACACCAATGCTCATAAGAGCTAATCCAACCAT
Found at i:51966088 original size:41 final size:42
Alignment explanation
Indices: 51966043--51966154 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 42
51966033 ATGTGATATT
**
51966043 GTGTAAGACCATGTCTGGGACATCGGCATCG-TATATG-TTTC
1 GTGTAAGACCATGTCTGGGACAT-GGCATCGATATATGATAAC
* * *
51966084 GTGTAAGACCCTGTCTGAGACAGTGGCATCGATATTTGATAAC
1 GTGTAAGACCATGTCTGGGACA-TGGCATCGATATATGATAAC
* * *
51966127 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
51966155 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 27 0.47
42 12 0.21
43 19 0.33
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGATATATGATAAC
Found at i:51968232 original size:21 final size:22
Alignment explanation
Indices: 51968197--51968238 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
51968187 AAGGGACTTT
*
51968197 ATGATGATATTTGAC-TATGAG
1 ATGATGATATATGACTTATGAG
*
51968218 ATGATGATGTATGACTTATGA
1 ATGATGATATATGACTTATGA
51968239 TTGTGAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (22 bp):
ATGATGATATATGACTTATGAG
Found at i:51976411 original size:11 final size:11
Alignment explanation
Indices: 51976388--51976421 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
51976378 AACAAATCCT
51976388 CTCTCATATTTC
1 CTCTCA-ATTTC
51976400 CTCTCAATTTC
1 CTCTCAATTTC
51976411 CTCTCAATTTC
1 CTCTCAATTTC
51976422 TTTCCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.18, C:0.35, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:51976468 original size:51 final size:51
Alignment explanation
Indices: 51976403--51976523 Score: 190
Period size: 51 Copynumber: 2.4 Consensus size: 51
51976393 ATATTTCCTC
* * *
51976403 TCAATTTCCTCTCAATTTCTTTCCAAAATTCTCAT-AAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCATTCCAAAAATCTC-TCAAACCCATATTTAATT
51976454 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAACCCATATTTAATT
1 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAACCCATATTTAATT
*
51976505 TCAATTTGCTCTCAATTTC
1 TCAATTTCCTCTCAATTTC
51976524 CTTTTTTAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
50 1 0.02
51 64 0.98
ACGTcount: A:0.31, C:0.26, G:0.01, T:0.43
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAACCCATATTTAATT
Found at i:51979490 original size:31 final size:32
Alignment explanation
Indices: 51979431--51979495 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
51979421 GGCAAATTAC
51979431 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
51979463 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
51979494 AA
1 AA
51979496 ATTATATAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:51985024 original size:13 final size:13
Alignment explanation
Indices: 51985005--51985036 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
51984995 ATGTAAGCAA
51985005 CTTTTTTTTTGCG
1 CTTTTTTTTTGCG
*
51985018 GTTTTTTTTTGCG
1 CTTTTTTTTTGCG
51985031 CTTTTT
1 CTTTTT
51985037 ACTTCTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.16, T:0.72
Consensus pattern (13 bp):
CTTTTTTTTTGCG
Found at i:51985047 original size:13 final size:13
Alignment explanation
Indices: 51985031--51985065 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
51985021 TTTTTTTGCG
51985031 CTTTTTACTTCTT
1 CTTTTTACTTCTT
* *
51985044 CTTTTTTCTTTTT
1 CTTTTTACTTCTT
51985057 CTTTTTACT
1 CTTTTTACT
51985066 GTTTTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTTACTTCTT
Found at i:51985662 original size:31 final size:32
Alignment explanation
Indices: 51985603--51985667 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
51985593 GGCAAATTAC
*
51985603 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCATAATAAAAACTCTTTA
51985635 AAGAGTAATTGAATCATAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCATAATAAAAACTCTTTA
51985666 AA
1 AA
51985668 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCATAATAAAAACTCTTTA
Found at i:51986823 original size:5 final size:5
Alignment explanation
Indices: 51986815--51986844 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
51986805 ATACCACAAA
*
51986815 AAAAT AAAAT AAAGT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
51986845 GAGATAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:51989161 original size:28 final size:27
Alignment explanation
Indices: 51989121--51989195 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
51989111 AATTTTTTAG
*
51989121 AATTTTAATTTTTTTTAAAAA-TATATA
1 AATTTTAAATTTTTTTAAAAATTATA-A
* * *
51989148 AATTTTAGAATTTTTATAAATATTTTAA
1 AATTTTA-AATTTTTTTAAAAATTATAA
51989176 AATTTTAAAATTATTTTTAA
1 AATTTT-AAATT-TTTTTAA
51989196 TTTTTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.18
28 22 0.56
29 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (27 bp):
AATTTTAAATTTTTTTAAAAATTATAA
Found at i:51989165 original size:20 final size:20
Alignment explanation
Indices: 51989149--51989209 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
51989139 AAATATATAA
*
51989149 ATTTTAGAATTTTTATAAAT
1 ATTTTAAAATTTTTATAAAT
51989169 ATTTTAAAA-TTTTA-AAATT
1 ATTTTAAAATTTTTATAAA-T
*
51989188 ATTTT-TAATTTTT-TAAA-
1 ATTTTAAAATTTTTATAAAT
51989205 ATTTT
1 ATTTT
51989210 TGTTGAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 5 0.14
18 5 0.14
19 18 0.50
20 8 0.22
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTTAAAATTTTTATAAAT
Found at i:51989201 original size:28 final size:28
Alignment explanation
Indices: 51989147--51989209 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
51989137 AAAAATATAT
*
51989147 AAATTTTAGAATTTTTATAAATATTTTA
1 AAATTTTAAAATTTTTATAAATATTTTA
* *
51989175 AAATTTTAAAATTATTT-TTAATTTTTTA
1 AAATTTTAAAATT-TTTATAAATATTTTA
51989203 AAATTTT
1 AAATTTT
51989210 TGTTGAGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 28 0.90
29 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
AAATTTTAAAATTTTTATAAATATTTTA
Found at i:51995120 original size:24 final size:24
Alignment explanation
Indices: 51995093--51995139 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
51995083 TCATTTTCGC
* *
51995093 TTTTAATATTTATTTTTTAATTAT
1 TTTTAACATATATTTTTTAATTAT
**
51995117 TTTTGCCATATATTTTTTAATTA
1 TTTTAACATATATTTTTTAATTA
51995140 CTTCCAAACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTAACATATATTTTTTAATTAT
Found at i:51995259 original size:24 final size:24
Alignment explanation
Indices: 51995232--51995278 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
51995222 TCATTTTCAC
* *
51995232 TTTTAATATTTATTTTTTAATTAT
1 TTTTAACATATATTTTTTAATTAT
**
51995256 TTTTGCCATATATTTTTTAATTA
1 TTTTAACATATATTTTTTAATTA
51995279 CTTCCAAACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTAACATATATTTTTTAATTAT
Done.