Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006894.1 Hibiscus syriacus cultivar Beakdansim tig00017596_pilon, whole genome shotgun sequence
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: 213556
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:4134 original size:23 final size:23
Alignment explanation
Indices: 4101--4152 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
4091 CAATTAATGA
* *
4101 AATTAAATTTTAGTTGAGACAGCT
1 AATT-AATTTTAGTTCAGACAGAT
* *
4125 AATTAATTTTTGTTCAGTCAGAT
1 AATTAATTTTAGTTCAGACAGAT
4148 AATTA
1 AATTA
4153 GAGAGCAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (23 bp):
AATTAATTTTAGTTCAGACAGAT
Found at i:4454 original size:35 final size:36
Alignment explanation
Indices: 4415--4495 Score: 87
Period size: 40 Copynumber: 2.2 Consensus size: 36
4405 ATTTAATGTT
4415 AAATTTTAA-A-GGA-TACTAAAATAAAATCAAAATCA
1 AAATTTTAACATGGATTACTAAAATAAAAT-AAAAT-A
* *
4450 AAATTTTTAACGATGGATTATTAAAATGAAATAAAATA
1 AAA-TTTTAAC-ATGGATTACTAAAATAAAATAAAATA
4488 AAATTTTA
1 AAATTTTA
4496 GATATGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
35 3 0.08
36 6 0.15
37 5 0.13
38 5 0.13
39 8 0.21
40 12 0.31
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (36 bp):
AAATTTTAACATGGATTACTAAAATAAAATAAAATA
Found at i:6445 original size:2 final size:2
Alignment explanation
Indices: 6438--6468 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6428 GTGAGGCATA
6438 AT AT AT 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 AT AT AT A
6469 ACAATGCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6732 original size:18 final size:18
Alignment explanation
Indices: 6709--6781 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
6699 ACTGAATATT
*
6709 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
6727 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
6746 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
6765 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
6782 GATAATTCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 31 0.65
19 2 0.04
20 15 0.31
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:7462 original size:64 final size:65
Alignment explanation
Indices: 7355--7515 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 65
7345 CCCTTGACTG
* * * *
7355 GTGCATCGATGCAC-AATCTATGCATCGGTACA-TAAATCCCATTCGATGTTTGTATTTTAAGGG
1 GTGCATCGATGCACTACT-TATGCATCGATACACTAAATCACATTCGATGTTTGTATTTTAAAGG
7418 A
65 A
* *
7419 GTGCATCGATGCACTACTTATGCATCGATACACT-AATGACATTCGATGTTTTTATTTTAAAGGA
1 GTGCATCGATGCACTACTTATGCATCGATACACTAAATCACATTCGATGTTTGTATTTTAAAGGA
* * *
7483 GTGCATCGATACACCT-CATGTGCATCGATACAC
1 GTGCATCGATGCA-CTACTTATGCATCGATACAC
7516 CTTGAACAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 80 0.94
65 5 0.06
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCACTACTTATGCATCGATACACTAAATCACATTCGATGTTTGTATTTTAAAGGA
Found at i:13644 original size:17 final size:17
Alignment explanation
Indices: 13622--13687 Score: 87
Period size: 17 Copynumber: 3.7 Consensus size: 17
13612 AATATTTGTT
*
13622 CCGAAGACCACTATATC
1 CCGAAGACCACTATGTC
*
13639 CCGAAGACCACTGATTGTT
1 CCGAAGACCACT-A-TGTC
13658 CCGAAGAACCACTATGTC
1 CCGAAG-ACCACTATGTC
13676 CCGAAGACCACT
1 CCGAAGACCACT
13688 GATAATCCCT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
17 18 0.42
18 10 0.23
19 9 0.21
20 6 0.14
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (17 bp):
CCGAAGACCACTATGTC
Found at i:13678 original size:37 final size:36
Alignment explanation
Indices: 13617--13690 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 36
13607 CACTGAATAT
13617 TTGTTCCGAAGACCACTATATCCCGAAGACCACTGA
1 TTGTTCCGAAGACCACTATATCCCGAAGACCACTGA
*
13653 TTGTTCCGAAGAACCACTATGTCCCGAAGACCACTGA
1 TTGTTCCGAAG-ACCACTATATCCCGAAGACCACTGA
13690 T
1 T
13691 AATCCCTCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 11 0.31
37 25 0.69
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (36 bp):
TTGTTCCGAAGACCACTATATCCCGAAGACCACTGA
Found at i:17324 original size:23 final size:23
Alignment explanation
Indices: 17293--17359 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
17283 AACATTTCTA
*
17293 TTTAATGTTTCTATTAATTT-GT
1 TTTAATGTTTTTATTAATTTAGT
*
17315 TTTAATTGTTTTTACT-ATTTAGT
1 TTTAA-TGTTTTTATTAATTTAGT
17338 TTGTAATGTTTTTATGTAATTT
1 TT-TAATGTTTTTAT-TAATTT
17360 TCACTTGAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 9 0.24
23 20 0.54
24 4 0.11
25 4 0.11
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.64
Consensus pattern (23 bp):
TTTAATGTTTTTATTAATTTAGT
Found at i:19034 original size:35 final size:35
Alignment explanation
Indices: 18988--19055 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
18978 TTCCTCTGTG
18988 ATGTCGATATTTAGGTCGAACAAGTTGGTAGTTGA
1 ATGTCGATATTTAGGTCGAACAAGTTGGTAGTTGA
19023 ATGTCGATATTTAGGTCGAACAAGTTGGTAGTT
1 ATGTCGATATTTAGGTCGAACAAGTTGGTAGTT
19056 AAAGGCCTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.35
Consensus pattern (35 bp):
ATGTCGATATTTAGGTCGAACAAGTTGGTAGTTGA
Found at i:20707 original size:16 final size:16
Alignment explanation
Indices: 20686--20720 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
20676 CAAATAAGAC
20686 TTGCATACCACAAATA
1 TTGCATACCACAAATA
20702 TTGCATACCACAAATA
1 TTGCATACCACAAATA
20718 TTG
1 TTG
20721 AATGTCACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (16 bp):
TTGCATACCACAAATA
Found at i:25538 original size:3 final size:3
Alignment explanation
Indices: 25530--25606 Score: 109
Period size: 3 Copynumber: 25.7 Consensus size: 3
25520 GTTTTACACG
* *
25530 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
25578 CAA TTA TAA TAA CAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
25607 CATTCAATGT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:25736 original size:29 final size:29
Alignment explanation
Indices: 25704--25803 Score: 83
Period size: 29 Copynumber: 3.2 Consensus size: 29
25694 TACTCAATAT
25704 ACTTTTAATTTTTCTAATTTGCTCATTGA
1 ACTTTTAATTTTTCTAATTTGCTCATTGA
* * * * *
25733 ACTTTACAATTTTACTCTCTCCTATTTTACTCAATGT
1 ACTTT-TAA--TT--T-T-T-CTAATTTGCTCATTGA
25770 ACTTTTAATTTTTCTAATTTGCTCATTGA
1 ACTTTTAATTTTTCTAATTTGCTCATTGA
25799 ACTTT
1 ACTTT
25804 ACGGAGTGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
29 22 0.42
30 3 0.06
31 1 0.02
32 3 0.06
34 3 0.06
35 1 0.02
36 3 0.06
37 17 0.32
ACGTcount: A:0.24, C:0.18, G:0.05, T:0.53
Consensus pattern (29 bp):
ACTTTTAATTTTTCTAATTTGCTCATTGA
Found at i:25751 original size:66 final size:66
Alignment explanation
Indices: 25674--25805 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
25664 TTTCTCACTT
25674 AATTTTACTCTCTCCTATTTTACTCAATATACTTTTAATTTTTCTAATTTGCTCATTGAACTTTA
1 AATTTTACTCTCTCCTATTTTACTCAATATACTTTTAATTTTTCTAATTTGCTCATTGAACTTTA
25739 C
66 C
*
25740 AATTTTACTCTCTCCTATTTTACTCAATGTACTTTTAATTTTTCTAATTTGCTCATTGAACTTTA
1 AATTTTACTCTCTCCTATTTTACTCAATATACTTTTAATTTTTCTAATTTGCTCATTGAACTTTA
25805 C
66 C
25806 GGAGTGAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.25, C:0.20, G:0.04, T:0.52
Consensus pattern (66 bp):
AATTTTACTCTCTCCTATTTTACTCAATATACTTTTAATTTTTCTAATTTGCTCATTGAACTTTA
C
Found at i:26512 original size:39 final size:39
Alignment explanation
Indices: 26458--26536 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
26448 TTAGAAAGAT
26458 AACGGTAGAGTGAGCAAAATGATTCAATATGTAAAGTTC
1 AACGGTAGAGTGAGCAAAATGATTCAATATGTAAAGTTC
26497 AACGGTAGAGTGAGCAAAATGATTCAATATGTAAAGTTC
1 AACGGTAGAGTGAGCAAAATGATTCAATATGTAAAGTTC
26536 A
1 A
26537 GTGAGCAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (39 bp):
AACGGTAGAGTGAGCAAAATGATTCAATATGTAAAGTTC
Found at i:30749 original size:21 final size:22
Alignment explanation
Indices: 30716--30776 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
30706 AACCTAAAAT
*
30716 TCTCAAATTCTT-AAATTTCAA
1 TCTCAAATCCTTAAAATTTCAA
*
30737 TCTCTAATCCTTAAAATTTCAA
1 TCTCAAATCCTTAAAATTTCAA
*
30759 T-ACACAATCCCTTAAAAT
1 TCTCA-AAT-CCTTAAAAT
30777 CATTTAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.33
22 13 0.39
23 9 0.27
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCAAATCCTTAAAATTTCAA
Found at i:30756 original size:22 final size:23
Alignment explanation
Indices: 30728--30776 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
30718 TCAAATTCTT
*
30728 AAATTTCAAT-CTCTAAT-CCTTA
1 AAATTTCAATACAC-AATCCCTTA
30750 AAATTTCAATACACAATCCCTTA
1 AAATTTCAATACACAATCCCTTA
30773 AAAT
1 AAAT
30777 CATTTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATTTCAATACACAATCCCTTA
Found at i:31032 original size:31 final size:31
Alignment explanation
Indices: 30997--31055 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
30987 ATTAACACCA
* * *
30997 AGGCACCTAAAGTGATAACGTTTGTAACGTT
1 AGGCACCTAAAATGATAACATTTATAACGTT
31028 AGGCACCTAAAATGATAACATTTATAAC
1 AGGCACCTAAAATGATAACATTTATAAC
31056 TTTATACACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (31 bp):
AGGCACCTAAAATGATAACATTTATAACGTT
Found at i:31066 original size:31 final size:31
Alignment explanation
Indices: 31000--31066 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
30990 AACACCAAGG
* * * *
31000 CACCTAAAGTGATAACGTTTGTAACGTTAGG
1 CACCTAAAATGATAACATTTATAACGTTAGA
* *
31031 CACCTAAAATGATAACATTTATAACTTTATA
1 CACCTAAAATGATAACATTTATAACGTTAGA
31062 CACCT
1 CACCT
31067 GTATGAGCCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (31 bp):
CACCTAAAATGATAACATTTATAACGTTAGA
Found at i:31765 original size:30 final size:30
Alignment explanation
Indices: 31731--31787 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
31721 CCCACACTTA
* *
31731 AATGATTAATTTGTAACATTTTATACTTTG
1 AATGATCAATTTGAAACATTTTATACTTTG
*
31761 AATGATCAATTTGAAACATTTTGTACT
1 AATGATCAATTTGAAACATTTTATACT
31788 CAGGTGACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (30 bp):
AATGATCAATTTGAAACATTTTATACTTTG
Found at i:34459 original size:105 final size:105
Alignment explanation
Indices: 34262--34482 Score: 318
Period size: 105 Copynumber: 2.1 Consensus size: 105
34252 CAGGATGCTA
* * * *
34262 GCCTTTGCTAACTTGCCAGCCCGGATGCTAGCTTCTTCCTTTACTTCTCTCAACTCTTGTTCAAT
1 GCCTCTGCTAACTTGCCAACCAGGATGCTAGCCTCTTCCTTTACTTCTCTCAACTCTTGTTCAAT
* * *
34327 CTGTGTCTTGGTAGTCTGAAAACAATCAATAGTGGCCTGG
66 CTGTGTCTTGGAAGTCCGAAAACAATCAATAGTCGCCTGG
* *
34367 GCTTCTGCTAACTTGCCAACCAGGATGCTAGCCTCTTCCTTTACTT-TCTGCAACTCTTGTTCAG
1 GCCTCTGCTAACTTGCCAACCAGGATGCTAGCCTCTTCCTTTACTTCTCT-CAACTCTTGTTCAA
* * *
34431 TCTGTGTCTTGGAAGTCCGACAATAATCAATAGTCGCTTGG
65 TCTGTGTCTTGGAAGTCCGAAAACAATCAATAGTCGCCTGG
34472 GCCTCTGCTAA
1 GCCTCTGCTAA
34483 TTTTTTTTTG
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
104 3 0.03
105 99 0.97
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (105 bp):
GCCTCTGCTAACTTGCCAACCAGGATGCTAGCCTCTTCCTTTACTTCTCTCAACTCTTGTTCAAT
CTGTGTCTTGGAAGTCCGAAAACAATCAATAGTCGCCTGG
Found at i:35609 original size:73 final size:73
Alignment explanation
Indices: 35517--35659 Score: 225
Period size: 73 Copynumber: 2.0 Consensus size: 73
35507 TAAAATGGGG
* * * *
35517 CCCACTAAATTATTATATTTTTGAGTTTTTTAAAT-AAAAAATAATATTTAAAAATATTTTTTAA
1 CCCACTAAATTATCATATTTTTAAGTATTTAAAATAAAAAAATAA-ATTTAAAAATATTTTTTAA
*
35581 TTATTAGGA
65 CTATTAGGA
35590 CCCACTAAATTATCATATTTTTAAGTATTTAAAATAAAAAAATAAATTTAAAAATATTTTTTAAC
1 CCCACTAAATTATCATATTTTTAAGTATTTAAAATAAAAAAATAAATTTAAAAATATTTTTTAAC
35655 TATTA
66 TATTA
35660 AACTAAAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 55 0.86
74 9 0.14
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.44
Consensus pattern (73 bp):
CCCACTAAATTATCATATTTTTAAGTATTTAAAATAAAAAAATAAATTTAAAAATATTTTTTAAC
TATTAGGA
Found at i:35678 original size:38 final size:40
Alignment explanation
Indices: 35607--35682 Score: 111
Period size: 38 Copynumber: 1.9 Consensus size: 40
35597 AATTATCATA
*
35607 TTTTTAAGTATTTAAAATAAAAAAATAAATTTAAAAATAT
1 TTTTTAACTATTTAAAATAAAAAAATAAATTTAAAAATAT
* *
35647 TTTTTAACTA-TTAAACT-AAAAAATAATTTTAAAAAT
1 TTTTTAACTATTTAAAATAAAAAAATAAATTTAAAAAT
35683 GGGCACTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 18 0.55
39 6 0.18
40 9 0.27
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (40 bp):
TTTTTAACTATTTAAAATAAAAAAATAAATTTAAAAATAT
Found at i:36864 original size:21 final size:21
Alignment explanation
Indices: 36830--36898 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
36820 GACCCATCTA
*
36830 TATATATTTTTTAATTAAATC
1 TATATATTTTTTAAATAAATC
**
36851 TATAT-TTTTATTAAATAAAAG
1 TATATATTTT-TTAAATAAATC
* *
36872 TA-ATATTTTTT-TATAAATA
1 TATATATTTTTTAAATAAATC
36891 TAT-TATTT
1 TATATATTT
36899 CAAGTCGAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 12 0.31
20 8 0.21
21 19 0.49
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (21 bp):
TATATATTTTTTAAATAAATC
Found at i:37519 original size:3 final size:3
Alignment explanation
Indices: 37511--37546 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
37501 ATTTGATATA
37511 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
37547 TTAAAGGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:37925 original size:18 final size:18
Alignment explanation
Indices: 37902--37941 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
37892 GCAAAGTTGG
37902 ATTCTGCTTCCTAT-TCGC
1 ATTCTGCTT-CTATCTCGC
*
37920 ATTCTGGTTCTATCTCGC
1 ATTCTGCTTCTATCTCGC
37938 ATTC
1 ATTC
37942 GAGTTCTGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.12, C:0.30, G:0.12, T:0.45
Consensus pattern (18 bp):
ATTCTGCTTCTATCTCGC
Found at i:38102 original size:18 final size:17
Alignment explanation
Indices: 38077--38110 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
38067 CTAATTCGGC
38077 TTCACATTCTGCTTCTT
1 TTCACATTCTGCTTCTT
*
38094 TTCATCATTCTGGTTCT
1 TTCA-CATTCTGCTTCT
38111 ATTGAAGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.26, G:0.09, T:0.53
Consensus pattern (17 bp):
TTCACATTCTGCTTCTT
Found at i:38581 original size:195 final size:194
Alignment explanation
Indices: 38228--38591 Score: 482
Period size: 195 Copynumber: 1.9 Consensus size: 194
38218 ACCTGCCTCT
* * * * * *
38228 GCAAATCAAGGTGGTGCTATGGGTCATAGTTCTGCATCTTTTTCACTTTCAGGTTCAGCTTCTAG
1 GCAAATCAAGGTGGTACTACGGGTCATAGCTCTGCATCTTTCTCACATTCAAGTTCAGCTTCTAG
* * * * *
38293 CGCATCCTCACATTCTAGTTCAGCTTCACATTCCGCTTCTTTTCATCATTCTGGTTCTGTTGAAG
66 CGCATCCTCACATTCCAGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCTGGTTCTATTAAAG
* *
38358 GTTCTAGCACTATTGCAAATTCTAATGATTCTAAAGGTTCCGGTGAATCTTCACAATCTAGTTCA
131 GTTCTAGCACTA-TACAAATTCTAATGATTCCAAAGGTTCCGGTGAATCTTCACAATCTAGTTCA
* *
38423 GCAAATCAAGGTGGTACTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAG
1 GCAAATCAAGGTGGTACTACGGGTCATAGCTCTGCATCTTTCTCACATTCAAGTTCAGCTTCTAG
** * *
38488 CTTATCCTCGCATTCCGGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCTGGTTCTATTAAAG
66 CGCATCCTCACATTCCAGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCTGGTTCTATTAAAG
*
38553 GTTCTGGAGCAAC-A-ACAGATGT-TAATGATTCCAAAGGTT
131 GTTCT--AGC-ACTATACAAAT-TCTAATGATTCCAAAGGTT
38592 TAGGTTCTGT
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
195 138 0.95
196 1 0.01
197 4 0.03
198 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.36
Consensus pattern (194 bp):
GCAAATCAAGGTGGTACTACGGGTCATAGCTCTGCATCTTTCTCACATTCAAGTTCAGCTTCTAG
CGCATCCTCACATTCCAGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCTGGTTCTATTAAAG
GTTCTAGCACTATACAAATTCTAATGATTCCAAAGGTTCCGGTGAATCTTCACAATCTAGTTCA
Found at i:39113 original size:489 final size:489
Alignment explanation
Indices: 38185--40521 Score: 3509
Period size: 489 Copynumber: 4.8 Consensus size: 489
38175 CTACAAGTTA
* * * * * * **
38185 TGGGATTTCAAAGGGTTCTGACGAATCCTCACAACCTGCCTCTGCAAATCAAGGTGGTGCTATGG
1 TGGGGTTTCTAAGGGCTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
* ** * * * * *
38250 GTCATAGTTCTGCATCTTTTTCACTTTCAGGTTCAGCTTCTAGCGCATCCTCACATTCTAGTTCA
66 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
* * * * *
38315 GCTTCACATTCCGCTTCTTTTCATCATTCTGGTTCTGTTGAAGGTTCTAGCACTATTGCAAATTC
131 GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAATTC
* * * * * *
38380 TAATGATTCTAAAGGTTCCGGTGAATCTTCACAATCTAGTTCAGCAAATCAAGGTGGTACTACGG
196 TAATGATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGTTCAGCAAATCAAGGTGGTATTACGG
*
38445 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTTATCCTCGCATTCCGGTTCA
261 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
* * * *
38510 GCTTCACATTCCGCTTCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAGCAACAACAGATGT
326 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTACAACGGATGT
* * * *
38575 TAATGATTCCAAAGGTTTAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTCCGGGGCTTCTG
391 TGATGATTCTAAAGGTTCAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTCCGGGGCTTCCG
*
38640 GTTTCACAACAAGTTCTGGTTCTTCATCAGGTTC
456 GTTCCACAACAAGTTCTGGTTCTTCATCAGGTTC
* * * *
38674 TGGGGTTTCTAAGGGTTCCGACAAATCCTCACAATATGGTTATACAAATCAAGGTGGTGCTATGG
1 TGGGGTTTCTAAGGGCTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
* * *
38739 GTCACAACTCTGTATATTTCTCACATGCAGGCTCAGCTTCTAGCCCATCCTCACATTCCAGTTCA
66 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
* *
38804 GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTAATGCAAAGTC
131 GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAATTC
* * * *
38869 TAATGATTCTAAGGGTTCTGGCGAAACTTTACAATCCAGATCAGCAAATCAAGTTGGTATTACGA
196 TAATGATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGTTCAGCAAATCAAGGTGGTATTACGG
* * *
38934 GTCATGGTTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGATCATCCTCGCATTCCAGTTCA
261 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
* * * *
38999 GCTTCACATTCCGAATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTAAAACAGATGC
326 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTACAACGGATGT
* *
39064 TGATGATTCTAAAGGTTTAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTTCGGGGCTTCCG
391 TGATGATTCTAAAGGTTCAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTCCGGGGCTTCCG
39129 GTTCCACAACAAGTTCTGGTTCTTCATCAGGTTC
456 GTTCCACAACAAGTTCTGGTTCTTCATCAGGTTC
* * * *
39163 TGGGGTTTCTAAGGGCTCCGATAAATCTTCACAATCTAGTTCTGCAAGTCAAGGTGGTGCTATGG
1 TGGGGTTTCTAAGGGCTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
* *
39228 GTCACAACTCTGTATCTTTCTCACATGCAAGTTCAGCTTCTAGCGCATCCTCATATTCCAGTTCA
66 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
*
39293 GCTT---A---------TTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAATTA
131 GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAATTC
*
39346 TAATGATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGTTCAACAAATCAAGGTGGTATTACGG
196 TAATGATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGTTCAGCAAATCAAGGTGGTATTACGG
*
39411 GTCATGGCTCTTCATCTTTCTCACATGCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
261 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
* * *
39476 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAATGATTCTGGAACGACAACGGATGT
326 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTACAACGGATGT
*
39541 TGATGATTCTAAAGGTTCAGGTTCTGTTTTGACTTCTAACTCTTCATCAGGTTCCGGGGCTTCCG
391 TGATGATTCTAAAGGTTCAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTCCGGGGCTTCCG
*
39606 GTTCCACAACAAGTTTTGGTTCTTCATCAGGTTC
456 GTTCCACAACAAGTTCTGGTTCTTCATCAGGTTC
* *
39640 TAGGGTTTCTAAGGGTTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
1 TGGGGTTTCTAAGGGCTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
* * *
39705 GTCAAAACTCTGTATCTTTCTCACATACAGTTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
66 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
* *
39770 GCTTCACGTTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGTAAATTC
131 GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAATTC
* * *
39835 TAATGATTCTAAGGGTTCTGGTGAAACTTTACAATCCAGATCAGCAAATCAAGGTGGTATTACGG
196 TAATGATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGTTCAGCAAATCAAGGTGGTATTACGG
* * *
39900 GTCATGG--C-TCATCTTTCTCAAATTCAAGTTCAGCTTCCAGCTCATCTTCGCATTCCGGTTCA
261 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
* ** * * *
39962 GTTTCACATTCCGTTTCTTTTAATCACTCTGGTTCTTTTAAAGGTTCTGGAACTACAATGGATAT
326 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTACAACGGATGT
40027 TGATGATTCTAAAGGTTCAGGTTCTGTTGTGACTTCTAACTCTTCAAT-AGGTTCC--GG-----
391 TGATGATTCTAAAGGTTCAGGTTCTGTTGTGACTTCTAACTCTTC-ATCAGGTTCCGGGGCTTCC
40084 GG--------C---TTCTGGTTCTTCATCAGGTTC
455 GGTTCCACAACAAGTTCTGGTTCTTCATCAGGTTC
*
40108 TGGGGTTTCTAAGGGCTCCAACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
1 TGGGGTTTCTAAGGGCTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
40173 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
66 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
* * * *
40238 GCTTCACATTCTTCTTCTTTTCATCGTTCTGGTTCTATTGAAGGTTCTGGCACTACTGCAAATTA
131 GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAATTC
* *
40303 TAATGATTCTAAGGGTTCTGGCGAAACTTCACAATTCAGTTCAGCAAATCAAGGTAGTATTACGG
196 TAATGATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGTTCAGCAAATCAAGGTGGTATTACGG
* * *
40368 GTCATGGCTCTTCATCTTTCTCACATGCAAGTTCAGTTTCTAGCTCATTCTCGCATTCCGGTTCA
261 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
40433 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTACAACGGATGT
326 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTACAACGGATGT
40498 TGATGATTCTAAAGGTTCAGGTTC
391 TGATGATTCTAAAGGTTCAGGTTC
40522 CGGGGCTTCC
Statistics
Matches: 1682, Mismatches: 150, Indels: 50
0.89 0.08 0.03
Matches are distributed among these distances:
468 270 0.16
470 1 0.00
471 132 0.08
477 442 0.26
479 2 0.00
484 2 0.00
486 158 0.09
487 3 0.00
489 672 0.40
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (489 bp):
TGGGGTTTCTAAGGGCTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAATTC
TAATGATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGTTCAGCAAATCAAGGTGGTATTACGG
GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTACAACGGATGT
TGATGATTCTAAAGGTTCAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTCCGGGGCTTCCG
GTTCCACAACAAGTTCTGGTTCTTCATCAGGTTC
Found at i:40706 original size:18 final size:17
Alignment explanation
Indices: 40681--40714 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
40671 CCAATTTAAC
40681 TTCACATTCTGCTTCTT
1 TTCACATTCTGCTTCTT
*
40698 TTCATCATTCTGGTTCT
1 TTCA-CATTCTGCTTCT
40715 ATTGAAGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.26, G:0.09, T:0.53
Consensus pattern (17 bp):
TTCACATTCTGCTTCTT
Found at i:41521 original size:339 final size:336
Alignment explanation
Indices: 40850--41945 Score: 1233
Period size: 339 Copynumber: 3.2 Consensus size: 336
40840 CTCTAATGCT
* * * *
40850 GATTCTAGA-AAGTTTAATGATTCAGATTCTGCTACGACTTCTAAAGGTTCTAACTCTTTCGTAA
1 GATTCTA-ACAAGTCTAATGATTCTGATTCTGCTACGACTTCTAAAGGTTCTAACTCTTCCGTAG
* * * **
40914 ATTCAAACAAATCAATGGATTCCAGTTATACAGGGACTTCCCAGTCTTCATTAGGTTTTGGGGCT
65 ATTCAAACAATTCAAAGGATTCCAGTTCTACAGGGACTT-CCAGTCTTCATTAGG-TTCCGGGCT
* * * *
40979 TCAAAATCCTCTGAAAGTTCTAGTTCATCATTAGCTTCTAGCGA-TCATAAGGGTTATGGCTCAT
128 TCAAATTCCTCTGAAAGTTCTGGTTCATCATCAACTTCTAGCGATTC-TAAGGGTT-TGGCTCAT
* * * * * * * *
41043 CCTCACACACCAATTCTGCAACTCATGATGGTGCTATGAGCCATGGCTCTTCATCTTTATCACAT
191 CCTCACATATCAGTTCTGCAACTCATGCTGGAGCTACGAGTCATGGCTCTTCATCTTTCTCACAT
* * *
41108 TCAAGTTCAACTTCAGGATCATCCTCACATTCCAGTTTATTTTCACATTCTGCTTCTTCTAAAGG
256 TCAAGTTCAGCTTCAGGATCATCCTTACATTCCAGTTTATTTTCACATTCTGCTTCTTCTGAAGG
* *
41173 -TCATGACTCTTTTGCG
321 TTC-TGACTCTTTAGCA
* * * * * *
41189 GATTTTAACAATTCTAAAGATTCTGATACTGCTACTACTTCTAAAGGTTCTAACTC-TCCGGTGG
1 GATTCTAACAAGTCTAATGATTCTGATTCTGCTACGACTTCTAAAGGTTCTAACTCTTCC-GTAG
*
41253 ATTCAAACAATTCAAAGGATTCCAATTCTACAGGGACTTCTCAGTCTTCATTAGGTTCCGAGGCT
65 ATTCAAACAATTCAAAGGATTCCAGTTCTACAGGGACTTC-CAGTCTTCATTAGGTTCCG-GGCT
* * * * *
41318 ACAAATTCCTCTGAAAATTCTGGTTCATTATCAACTTCTAACGATTCTAAGGGTTCTGGCCCATC
128 TCAAATTCCTCTGAAAGTTCTGGTTCATCATCAACTTCTAGCGATTCTAAGGGTT-TGGCTCATC
*
41383 CTCACATATCAGTTCTGCAACTCACGCTGGAGCTACGAGTCATGGCTCTTCATCTTTCTCACATT
192 CTCACATATCAGTTCTGCAACTCATGCTGGAGCTACGAGTCATGGCTCTTCATCTTTCTCACATT
* * *
41448 CAAGTTCAGCTTCAGGATCATCCTTACTTTCCAGTTTATTTTCACATAAC-ACTTCTT-TGGAAG
257 CAAGTTCAGCTTCAGGATCATCCTTACATTCCAGTTTATTTTCACAT-TCTGCTTCTTCT-GAAG
*
41511 GTTCTGACTCTTCAGCA
320 GTTCTGACTCTTTAGCA
* * * * * *
41528 AATTCTAACAAGTCTAATTATTCTAATTCCGCTAAGACATCTAAAGGTTCTGAA-TCTTCC-TCA
1 GATTCTAACAAGTCTAATGATTCTGATTCTGCTACGACTTCTAAAGGTTCT-AACTCTTCCGT-A
* * * * * **
41591 GATTCAAACAATTCAAAGGATTCCGGTTCTACTGAGACATCCGAGTCATCATTACCTTCCGGAGC
64 GATTCAAACAATTCAAAGGATTCCAGTTCTACAGGGACTTCC-AGTCTTCATTAGGTTCCGG-GC
** ** * *
41656 TTTGAATTCCTCTTCAAGTTCTGGTTCATCATCAACTTCTAGTGATTTTAAGGGTTTAGGCTCAT
127 TTCAAATTCCTCTGAAAGTTCTGGTTCATCATCAACTTCTAGCGATTCTAAGGGTTT-GGCTCAT
* *
41721 CCTCACAT-TCTAGTTCCGCACCTCATGCT-GATGCTACGAGTCATGGCTCTTCATCTTTCTCAC
191 CCTCACATATC-AGTTCTGCAACTCATGCTGGA-GCTACGAGTCATGGCTCTTCATCTTTCTCAC
** * * *
41784 ATTCAAGTTCAGCTTCAGGATCATCCTTACATTCTGGTTCATTTTCGCATTCTGTTTCTTCTGAA
254 ATTCAAGTTCAGCTTCAGGATCATCCTTACATTCCAGTTTATTTTCACATTCTGCTTCTTCTGAA
41849 GGTTCTGACTCTTTCA-CA
319 GGTTCTGACTCTTT-AGCA
* * * * * ** *
41867 GATTCTAACAAGTCTAATGATTTTGATTCTGCTACAACTTCTAAAGTTTCTGACTTTTCCACAGG
1 GATTCTAACAAGTCTAATGATTCTGATTCTGCTACGACTTCTAAAGGTTCTAACTCTTCCGTAGA
*
41932 TTCAAACAAGTCAA
66 TTCAAACAATTCAA
41946 TGGCTCCGAA
Statistics
Matches: 635, Mismatches: 101, Indels: 42
0.82 0.13 0.05
Matches are distributed among these distances:
338 18 0.03
339 605 0.95
340 12 0.02
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (336 bp):
GATTCTAACAAGTCTAATGATTCTGATTCTGCTACGACTTCTAAAGGTTCTAACTCTTCCGTAGA
TTCAAACAATTCAAAGGATTCCAGTTCTACAGGGACTTCCAGTCTTCATTAGGTTCCGGGCTTCA
AATTCCTCTGAAAGTTCTGGTTCATCATCAACTTCTAGCGATTCTAAGGGTTTGGCTCATCCTCA
CATATCAGTTCTGCAACTCATGCTGGAGCTACGAGTCATGGCTCTTCATCTTTCTCACATTCAAG
TTCAGCTTCAGGATCATCCTTACATTCCAGTTTATTTTCACATTCTGCTTCTTCTGAAGGTTCTG
ACTCTTTAGCA
Found at i:42206 original size:294 final size:294
Alignment explanation
Indices: 41674--42220 Score: 760
Period size: 294 Copynumber: 1.9 Consensus size: 294
41664 CCTCTTCAAG
** * *
41674 TTCTGGTTCATCATCAACTTCTAGTGATTTTAAGGGTTTAGGCTCATCCTCACATTCTAGTTCCG
1 TTCTGGTTCATCATCAACTTCTAGCAATTCTAAGGGTTTAGGCTCATCCTCACATTCTAGCTCCG
* * *
41739 CACCTCATGCTGATGCTACGAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCAGGA
66 CAACTCACGCTGATGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCAGGA
* ** * * *
41804 TCATCCTTACATTCTGGTTCATTTTCGCATTCTGTTTCTTCTGAAGGTTCTGACTCTTTCACAGA
131 TCATCCTCACATTCAAGTTCATTTTCACATTCCGCTTCTTCTGAAGGTTCTGACTCTTTCACAGA
* * * * * * *
41869 TTCTAACAAGTCTAATGATTTTGATTCTGCTACAACTTCTAAAGTTTCTGACTTTTCCACAGGTT
196 TTCTAACAAGTCCAAAGATTCTGATTCTGATACAACATCTAAAGGTTCTGACTCTTCCACAGGTT
41934 CAAACAAGTCAATGGCTCCGAATACCACTGTGAT
261 CAAACAAGTCAATGGCTCCGAATACCACTGTGAT
*
41968 TTCTGGTTCATCATCAGCTTCTAGCAATTCTAAGGGTTCT-GGCTCATCCTCACAATTC-AGCTC
1 TTCTGGTTCATCATCAACTTCTAGCAATTCTAAGGGTT-TAGGCTCATCCTCAC-ATTCTAGCTC
* * * *
42031 CGCAACTCACGGTGGTGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAATTTCAGGTTCAG
64 CGCAACTCACGCTGATGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCAG
* ** *
42096 GATCATCCTCACATTCAAGTTTATTTTCACATTCCGCTTCTTCT-AGAGGTTCTGGGTC-TTCTG
129 GATCATCCTCACATTCAAGTTCATTTTCACATTCCGCTTCTTCTGA-AGGTTCTGACTCTTTC-A
*
42159 CAGATTCTATCAAGTCCAAAGATTCTGATTCTGATACAACATCTAAAGGTTCTGACTCTTCC
192 CAGATTCTAACAAGTCCAAAGATTCTGATTCTGATACAACATCTAAAGGTTCTGACTCTTCC
42221 GTGGATTCAA
Statistics
Matches: 219, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
293 4 0.02
294 210 0.96
295 5 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (294 bp):
TTCTGGTTCATCATCAACTTCTAGCAATTCTAAGGGTTTAGGCTCATCCTCACATTCTAGCTCCG
CAACTCACGCTGATGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCAGGA
TCATCCTCACATTCAAGTTCATTTTCACATTCCGCTTCTTCTGAAGGTTCTGACTCTTTCACAGA
TTCTAACAAGTCCAAAGATTCTGATTCTGATACAACATCTAAAGGTTCTGACTCTTCCACAGGTT
CAAACAAGTCAATGGCTCCGAATACCACTGTGAT
Found at i:42719 original size:321 final size:321
Alignment explanation
Indices: 42130--42766 Score: 839
Period size: 321 Copynumber: 2.0 Consensus size: 321
42120 TTTCACATTC
* * * * *
42130 CGCTTCTTCTAGAGGTTCTGGGTCTTCTGCAGATTCTATCAAGTCCAAAGATTCTGATTCTGATA
1 CGCTTCTTCTAAAGGTTCTGGATCTTCCGCAGACTCTAACAAGTCCAAAGATTCTGATTCTGATA
*** *
42195 CAACATCTAAAGGTTCTGACTCTTCCGTGGATTCAAACAACTCAAATGATTTTGGTTCTACAAAG
66 CAACATCTAAAGGTTCTGACTCTTCCACAGATTCAAACAACTCAAAAGATTTTGGTTCTACAAAG
* * *
42260 ACTTCCCAATCTTCAGTAGGTTCCGGGGCTTCAAATTCCTCTATAAGTTCTGGTTTATCATCAGC
131 ACTTCCCAATCGTCAGTAGGTTCCGGGGCTTCAAATACCTCTATAAGTTCTAGTTTATCATCAGC
* * **
42325 TTCTAGTGGTTCTAAGGGTTCTGGCTCATCCTCACATTCCAGCTCCTCAACTCACGTTAGTGCTA
196 TTCTAGTGGTTCTAAGGGTTCTGGATCATCCTCACATTCCAGATCCTCAACTCACACTAGTGCTA
* ** * **
42390 CGAGTCATGGCTCTTTTTCTTTCTCACATTCAGGTTCAGGATCAGGATCATCCTCATATTT
261 CAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAACATCAGGATCATCCTCATATTT
** * * *
42451 CGCTTCTTCTAAAGGTTCTGGATCTTCCGGTGACTCTAACAAGTCTAAGGATTCTGATTCTGCTA
1 CGCTTCTTCTAAAGGTTCTGGATCTTCCGCAGACTCTAACAAGTCCAAAGATTCTGATTCTGATA
* * **
42516 -AGACTTCTAAAGGTTCTAGA-TCTTCCACAGATTCAAACAATTCAAAAGATTTTGGTTCTACCG
66 CA-ACATCTAAAGGTTCT-GACTCTTCCACAGATTCAAACAACTCAAAAGATTTTGGTTCTACAA
* * *
42579 AGACTTCCCAATCGTCATTAGGTTCCGGGGCTTCTAATACCTCTATAAGTTCTAGTTTATCATTA
129 AGACTTCCCAATCGTCAGTAGGTTCCGGGGCTTCAAATACCTCTATAAGTTCTAGTTTATCATCA
* * * * * *
42644 GCTTCTAGTGGTTCTATGGGTTCTGGATCATCCTCCCATTCTA-ATTCTGCAACTCATACTGGTG
194 GCTTCTAGTGGTTCTAAGGGTTCTGGATCATCCTCACATTCCAGATCCT-CAACTCACACTAGTG
* * *
42708 TTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAACTTTAGGATCATCCTCA
258 CTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAACATCAGGATCATCCTCA
42767 CATTCCGGTT
Statistics
Matches: 270, Mismatches: 43, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
320 4 0.01
321 264 0.98
322 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (321 bp):
CGCTTCTTCTAAAGGTTCTGGATCTTCCGCAGACTCTAACAAGTCCAAAGATTCTGATTCTGATA
CAACATCTAAAGGTTCTGACTCTTCCACAGATTCAAACAACTCAAAAGATTTTGGTTCTACAAAG
ACTTCCCAATCGTCAGTAGGTTCCGGGGCTTCAAATACCTCTATAAGTTCTAGTTTATCATCAGC
TTCTAGTGGTTCTAAGGGTTCTGGATCATCCTCACATTCCAGATCCTCAACTCACACTAGTGCTA
CAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAACATCAGGATCATCCTCATATTT
Found at i:44166 original size:276 final size:275
Alignment explanation
Indices: 43112--45042 Score: 2737
Period size: 276 Copynumber: 7.1 Consensus size: 275
43102 TGGATCATCC
* *
43112 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCCAAAAAGTCCAAGGATTCTGG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
* * * * *
43177 TTCTTCTACAACTTCTCGCTCTTTATCAGGTTCCGGGGCTTTAAGCTCCTCTTCAAGTTCTGGTT
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAG-TCCTCTTCAAGTTCTGGTT
* * *
43242 CTTCATCAGGTTCTAATAATTCTAAGCGTTCTGGCTCGTCTTCGCATTTCAGTTCTGCAAGTCAT
130 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
* * *
43307 ATTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTTAAGTGCAGCTTCTGGATCATCTTC
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
43372 ACATTCCAGTTCATTT
260 ACATTCCAGTTCATTT
*
43388 ACACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
* **
43453 TTCTGCTACGACTTCTCATTCTTCATCAGGTTATGGGGCTTCAAGT--TC-T--AGTTC----T-
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTCCTCTTCAAGTTCTGGTTC
* *
43508 TT-ATC-GGATTCTAATGATTCTAAGCATTCTGGCTCGTCTTCACATTTTGGTTCTGCAAGTCAT
131 TTCATCAGG-TTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
* *
43571 AGTGTTGCTACGGGTCATGGTTCTTCAACTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
*
43636 ACATTCCAATTCATTT
260 ACATTCCAGTTCATTT
** * * * * * * *
43652 TCACATTTTGCTTCTTCTAAAGGTTCAGACTCTTCCGCAGATTC-AAACAAGTTTGATGATTCCG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAA-AAGTCTAAGGATTCTG
* *
43716 GTTCTGCTATGACTTCTCACTCTTCATCAGGTTTC-GGG------G----CTTCAAGTTCTGGTT
65 GTTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTCCTCTTCAAGTTCTGGTT
*
43770 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCATCTTCACATTTCGGTTCTGCAAGTCAT
130 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
* * *
43835 AGTGTTGCTATGGGTCATGACTCTTCATCTCTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
43900 ACATTCCAGTTCATTT
260 ACATTCCAGTTCATTT
* * *
43916 TCACATTCCGCTTCTTCTAAAGGTTTTGGATCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGA
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
* *
43981 TTTTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTTCCTCTTTAAGTTCTGGTT
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAG-TCCTCTTCAAGTTCTGGTT
* * *
44046 CTTCATCAGGTTCTAATGATTCTAAACATTCTGGCTCGTCTTCACATTTCGATTCTGCAAGTCAT
130 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
* * * *
44111 AGTGTTGCTACGGGTCATGGCTCTTCATCTTCCTCAAATTCAAGTGCAACTTCTGGATCATCCTT
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
44176 ACATTCCAGTTCATTT
260 ACATTCCAGTTCATTT
* *
44192 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCCAAGGCTTCTGG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
* *
44257 TTCTACTACGACTTCTCACTCTTCATCAGGTTTCGGGGCTTCAAGTTCCTCTTCAAGTTCTGGTT
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAG-TCCTCTTCAAGTTCTGGTT
* *
44322 CTTCATCAGGTACTAATGAATCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
130 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
**
44387 AGTGTTGCTATAGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
*
44452 ACATTCCGGTTCATTT
260 ACATTCCAGTTCATTT
*
44468 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAAGATTCTGG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
44533 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTTCCTCTTCAAGTTCTGGTT
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAG-TCCTCTTCAAGTTCTGGTT
* * *
44598 CTTCATCAGGTTCTAATGTTTCTAAGCATTCTGGCTCGTCTTCACATTTCGATTCTGCAAGTCAT
130 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
* * * *
44663 AGTGTTGCTACAGGTCATGGCTCTTCATCTTCCTCACATTCAAGTGCAACTTCTGGATCATCCTT
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
44728 ACATTCCAGTTCATTT
260 ACATTCCAGTTCATTT
* * *
44744 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTATTCCACAGATTCTAAAAGGTCTAAGGCTTCTGG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
* * *
44809 TTCTACTACGACTTCTCTCTCTTCATCAGGTTTC-GGG------G----CTTCAAGTTCTGGTTC
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTCCTCTTCAAGTTCTGGTTC
*** * * * * * *
44863 TTCATCAGGTTCTAGCAATTCTAAGGGTTTTGGCTCATCTTCACA-ATCTGGTTCTACAAGTCAC
131 TTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTC-GGTTCTGCAAGTCAT
* * * * * *
44927 AATGTGGCTATGGGTCACGGCTCTTCATCTTTCTCACATTCAAGTGCAACTTCTGGATCATCTTC
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
*
44992 ACATTCTAGTTCATTT
260 ACATTCCAGTTCATTT
* *
45008 TCACATTCCGCTTCTTCTAAAAGTTTTGGCTCTTC
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTC
45043 ATCGGGTTCT
Statistics
Matches: 1490, Mismatches: 139, Indels: 64
0.88 0.08 0.04
Matches are distributed among these distances:
255 1 0.00
256 1 0.00
257 1 0.00
258 5 0.00
262 1 0.00
263 12 0.01
264 588 0.39
265 10 0.01
266 1 0.00
269 1 0.00
270 5 0.00
271 1 0.00
272 1 0.00
273 2 0.00
275 4 0.00
276 856 0.57
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (275 bp):
TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTCCTCTTCAAGTTCTGGTTC
TTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCATA
GTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTCA
CATTCCAGTTCATTT
Found at i:45521 original size:39 final size:40
Alignment explanation
Indices: 45467--45658 Score: 187
Period size: 39 Copynumber: 4.9 Consensus size: 40
45457 AGGCTCTTCC
* * * *
45467 GCACACATTGGTTCTTCTTCAACATCTAGTCACTCTA-CG
1 GCACAAATCGGTTCTTCTGCAACATCTAGACACTCTAGCG
* * *
45506 ACACAAATCGGTTCTTCTGCGAGATCTAGACACTCTA-CG
1 GCACAAATCGGTTCTTCTGCAACATCTAGACACTCTAGCG
* * * *
45545 GCACAAATCGGTTCTTCTGCTATATCTAGTCACTC-AGCC
1 GCACAAATCGGTTCTTCTGCAACATCTAGACACTCTAGCG
* * *
45584 GCACACAGCAGTTCTTCTGCAACATCTAG-CTACTC-AGCG
1 GCACAAATCGGTTCTTCTGCAACATCTAGAC-ACTCTAGCG
* * *
45623 GCACACACCGGTTCTTCTGCAACATCTGGACACTCT
1 GCACAAATCGGTTCTTCTGCAACATCTAGACACTCT
45659 GCGATACACA
Statistics
Matches: 128, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
38 2 0.02
39 125 0.98
40 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (40 bp):
GCACAAATCGGTTCTTCTGCAACATCTAGACACTCTAGCG
Found at i:45668 original size:78 final size:78
Alignment explanation
Indices: 45467--45668 Score: 212
Period size: 78 Copynumber: 2.6 Consensus size: 78
45457 AGGCTCTTCC
* * * * * * * *
45467 GCACACATTGGTTCTTCTTCAACATCTAGTCACTCTACGACACAAATCGGTTCTTCTGCGAGATC
1 GCACACATCGGTTCTTCTGCAACATCTAGTCACTCTGCGACACACAGCAGTTCTTCTGCAACATC
45532 TAGACACTCTACG
66 TAGACACTCTACG
* * * *
45545 GCACAAATCGGTTCTTCTGCTATATCTAGTCACTCAGCCG-CACACAGCAGTTCTTCTGCAACAT
1 GCACACATCGGTTCTTCTGCAACATCTAGTCACTCTG-CGACACACAGCAGTTCTTCTGCAACAT
45609 CTAG-CTACTC-AGCG
65 CTAGAC-ACTCTA-CG
* * * *
45623 GCACACACCGGTTCTTCTGCAACATCTGGACACTCTGCGATACACA
1 GCACACATCGGTTCTTCTGCAACATCTAGTCACTCTGCGACACACA
45669 CTGGTTCTTT
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
77 4 0.04
78 94 0.94
79 2 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (78 bp):
GCACACATCGGTTCTTCTGCAACATCTAGTCACTCTGCGACACACAGCAGTTCTTCTGCAACATC
TAGACACTCTACG
Found at i:49901 original size:14 final size:14
Alignment explanation
Indices: 49879--49915 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
49869 TGTTTTACGC
49879 TTTCTCGATTTTTCT
1 TTTC-CGATTTTTCT
49894 TTTCCGATTTTTCT
1 TTTCCGATTTTTCT
49908 TTTCCGAT
1 TTTCCGAT
49916 CTACTCAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.08, C:0.22, G:0.08, T:0.62
Consensus pattern (14 bp):
TTTCCGATTTTTCT
Found at i:52497 original size:2 final size:2
Alignment explanation
Indices: 52490--52542 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
52480 ATTAGATTCT
52490 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52532 TA TA TA T- TA TA
1 TA TA TA TA TA TA
52543 ATTGCTATGT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:52594 original size:2 final size:2
Alignment explanation
Indices: 52587--52615 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
52577 TTATTTATCT
52587 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52616 GTTTGAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52666 original size:36 final size:36
Alignment explanation
Indices: 52621--52800 Score: 140
Period size: 35 Copynumber: 5.1 Consensus size: 36
52611 TTATAGTTTG
*
52621 AAATCATTTTAAAAATTATATAATATATAATCTTTAA
1 AAAT-ATTTTAAAAATTATATAATATATAATTTTTAA
* *
52658 AAATATTTTGAAAA-TATAT-ATATATGATTTTTAA
1 AAATATTTTAAAAATTATATAATATATAATTTTTAA
* * *
52692 AACAT-TTTAAAAAATTATATAATATATAA-TATT-G
1 AA-ATATTTTAAAAATTATATAATATATAATTTTTAA
* *
52726 AAATCATTTTGAAAAAATATAT-ATATATAGTTTTTTAA
1 AAAT-ATTTT-AAAAATTATATAATATATA-ATTTTTAA
* * * * * *
52764 ACAT-TTTTGACAACTATATAATATATAGTTTTGAA
1 AAATATTTTAAAAATTATATAATATATAATTTTTAA
52799 AA
1 AA
52801 CCTTTTTTTG
Statistics
Matches: 113, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
33 2 0.02
34 24 0.21
35 40 0.35
36 37 0.33
37 7 0.06
38 3 0.03
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (36 bp):
AAATATTTTAAAAATTATATAATATATAATTTTTAA
Found at i:52721 original size:70 final size:69
Alignment explanation
Indices: 52602--52891 Score: 254
Period size: 70 Copynumber: 4.2 Consensus size: 69
52592 ATATATATAT
* * * *
52602 ATATATATATTATAGTTTGAAATCA-TTTTAAAAATTATATAATATATAATCTTT-AAAAATATT
1 ATATATATA-TATATTTTTAAAACATTTTTAAAAACTATATAATATATAAT-TTTGAAAAATATT
52665 TTGAAA
64 TTGAAA
* * *
52671 ATATATATATATGATTTTTAAAACATTTTAAAAAATTATATAATATATAATATTG--AAATCATT
1 ATATATATATAT-ATTTTTAAAACATTTTTAAAAACTATATAATATATAATTTTGAAAAAT-ATT
52734 TTGAAAAA
64 TTG--AAA
* * * * * *
52742 ATATATATATATAGTTTTTTAAACATTTTTGACAACTATATAATATATAGTTTTGAAAACCTTTT
1 ATATATATATATA-TTTTTAAAACATTTTTAAAAACTATATAATATATAATTTTGAAAA--ATAT
52807 TTTGAAA
63 TTTGAAA
* * * * *
52814 AT-T-TATATA-ATTTGCTTAAATCATTTTTGAAAACTATATAATATATAGTTTTGAAAACTTTT
1 ATATATATATATATTT--TTAAAACATTTTTAAAAACTATATAATATATAATTTTGAAAAATATT
*
52876 TTAAAA
64 TTGAAA
52882 ATATAT-TATA
1 ATATATATATA
52892 CAGTTTAAAA
Statistics
Matches: 187, Mismatches: 19, Indels: 30
0.79 0.08 0.13
Matches are distributed among these distances:
68 21 0.11
69 32 0.17
70 71 0.38
71 50 0.27
72 5 0.03
73 2 0.01
74 5 0.03
75 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (69 bp):
ATATATATATATATTTTTAAAACATTTTTAAAAACTATATAATATATAATTTTGAAAAATATTTT
GAAA
Found at i:52807 original size:36 final size:36
Alignment explanation
Indices: 52601--52933 Score: 207
Period size: 36 Copynumber: 9.5 Consensus size: 36
52591 TATATATATA
* * *
52601 TATATATATATTATAG-TTTGAAATCA-TTTTAAAAAT
1 TATATA-ATA-TATAGTTTTGAAAACATTTTTGAAAAC
*
52637 TATATAATATATAATCTTT-AAAA-ATATTTTGAAAA-
1 TATATAATATATAGT-TTTGAAAACAT-TTTTGAAAAC
* ** *
52672 TATAT-ATATAT-GATTTTTAAAACATTTTAAAAAAT
1 TATATAATATATAG-TTTTGAAAACATTTTTGAAAAC
* * *
52707 TATATAATATATAATATTGAAATCA-TTTTGAAAA-
1 TATATAATATATAGTTTTGAAAACATTTTTGAAAAC
* ** *
52741 AATATATATATATAGTTTTTTAAACATTTTTGACAAC
1 TATATA-ATATATAGTTTTGAAAACATTTTTGAAAAC
* *
52778 TATATAATATATAGTTTTGAAAACCTTTTTTTGAAAATT
1 TATATAATATATAGTTTTGAAAA-C-ATTTTTGAAAA-C
* *
52817 TATATAAT-T-T-G-CTT-AAATCATTTTTGAAAAC
1 TATATAATATATAGTTTTGAAAACATTTTTGAAAAC
*
52848 TATATAATATATAGTTTTGAAAAC-TTTTTTAAAA-
1 TATATAATATATAGTTTTGAAAACATTTTTGAAAAC
* * ** *
52882 -ATATATTATACAGTTTAAAAAATATTTTTGAAATA-
1 TATATAATATATAGTTTTGAAAACATTTTTGAAA-AC
* *
52917 TATATATTATAGAGTTT
1 TATATAATATATAGTTT
52934 ATATTATATA
Statistics
Matches: 234, Mismatches: 39, Indels: 48
0.73 0.12 0.15
Matches are distributed among these distances:
31 8 0.03
32 11 0.05
33 23 0.10
34 40 0.17
35 53 0.23
36 74 0.32
37 7 0.03
38 10 0.04
39 8 0.03
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
TATATAATATATAGTTTTGAAAACATTTTTGAAAAC
Found at i:54299 original size:20 final size:20
Alignment explanation
Indices: 54262--54299 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54252 TCTTAAGTTT
*
54262 TTTTATTTAATTTATATTAC
1 TTTTATATAATTTATATTAC
54282 TTTTATATATATTT-TATT
1 TTTTATATA-ATTTATATT
54300 TATTTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATATAATTTATATTAC
Found at i:54390 original size:3 final size:3
Alignment explanation
Indices: 54384--54418 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
54374 TTTTTTTTTA
54384 TAT TAT TAT TAT T-T TAT TAT TAT TAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
54419 TTCTATTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:54398 original size:17 final size:18
Alignment explanation
Indices: 54378--54412 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
54368 ACCTTCTTTT
54378 TTTTTA-TATTATTATTA
1 TTTTTATTATTATTATTA
54395 -TTTTATTATTATTATTA
1 TTTTTATTATTATTATTA
54412 T
1 T
54413 ATTATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTATTATTATTATTA
Found at i:54400 original size:11 final size:11
Alignment explanation
Indices: 54381--54420 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
54371 TTCTTTTTTT
*
54381 TTATATTATTA
1 TTATTTTATTA
54392 TTATTTTATTA
1 TTATTTTATTA
54403 TTATTATTA-TA
1 TTATT-TTATTA
54414 TTATTTT
1 TTATTTT
54421 CTATTTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 2 0.07
11 22 0.81
12 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:54403 original size:14 final size:14
Alignment explanation
Indices: 54381--54418 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
54371 TTCTTTTTTT
54381 TTATATTATTATTA
1 TTATATTATTATTA
*
54395 TTTTATTATTATTA
1 TTATATTATTATTA
54409 TTATATTATT
1 TTATATTATT
54419 TTCTATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATATTATTATTA
Found at i:54417 original size:17 final size:17
Alignment explanation
Indices: 54384--54418 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
54374 TTTTTTTTTA
*
54384 TATTATTATTATTTTAT
1 TATTATTATTATATTAT
54401 TATTATTATTATATTAT
1 TATTATTATTATATTAT
54418 T
1 T
54419 TTCTATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTATTATATTAT
Found at i:55360 original size:30 final size:30
Alignment explanation
Indices: 55264--55363 Score: 82
Period size: 30 Copynumber: 3.3 Consensus size: 30
55254 GCATATACGT
*
55264 ATAGTTT-GGGATGAAATTGAAATATTTAA
1 ATAGTTTAGGGATGAAATTGAAATGTTTAA
* ** * *
55293 AAAGTTTAGGGA-CCAATTTAGAATG--GAA
1 ATAGTTTAGGGATGAAATTGA-AATGTTTAA
55321 GTCATAGTTTAGGGATGAAATTGAAATGTTTAA
1 ---ATAGTTTAGGGATGAAATTGAAATGTTTAA
55354 ATAGTTTAGG
1 ATAGTTTAGG
55364 AATCAATTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 15
0.67 0.14 0.19
Matches are distributed among these distances:
28 2 0.04
29 11 0.21
30 17 0.33
31 15 0.29
32 5 0.10
33 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
ATAGTTTAGGGATGAAATTGAAATGTTTAA
Found at i:55360 original size:61 final size:60
Alignment explanation
Indices: 55264--55493 Score: 270
Period size: 61 Copynumber: 3.8 Consensus size: 60
55254 GCATATACGT
* *
55264 ATAGTTT-GGGATGAAATTGAAATATTTAAAAAGTTTAGGGACCAATTTAGAATGGAAGTC
1 ATAGTTTAGGGATGAAATTGAAATATTT-AAAAGTTTAAGAACCAATTTAGAATGGAAGTC
* * * *
55324 ATAGTTTAGGGATGAAATTGAAATGTTTAAATAGTTTAGGAATCAATTTAGAATGAAAGTC
1 ATAGTTTAGGGATGAAATTGAAATATTTAAA-AGTTTAAGAACCAATTTAGAATGGAAGTC
* * * * * *
55385 A-ACGTTTAGGGATGAAATTGAAATGTTCAAAGGTTTAAGGACTAATTTAGAAT-GATAATC
1 ATA-GTTTAGGGATGAAATTGAAATATTTAAAAGTTTAAGAACCAATTTAGAATGGA-AGTC
*
55445 ATAGTTTAGGGAAGAAATT-AGAATATTTAAAAGTTTAAGAACCAATTTA
1 ATAGTTTAGGGATGAAATTGA-AATATTTAAAAGTTTAAGAACCAATTTA
55494 AAATAAGAGT
Statistics
Matches: 146, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
59 2 0.01
60 70 0.48
61 74 0.51
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.33
Consensus pattern (60 bp):
ATAGTTTAGGGATGAAATTGAAATATTTAAAAGTTTAAGAACCAATTTAGAATGGAAGTC
Found at i:56324 original size:12 final size:12
Alignment explanation
Indices: 56307--56331 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56297 ACAAAACACC
56307 ATTTGGTGCCTA
1 ATTTGGTGCCTA
56319 ATTTGGTGCCTA
1 ATTTGGTGCCTA
56331 A
1 A
56332 ATTATTTGAC
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:60763 original size:12 final size:12
Alignment explanation
Indices: 60746--60770 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60736 ACAAAACACC
60746 ATTTGGTGCCTA
1 ATTTGGTGCCTA
60758 ATTTGGTGCCTA
1 ATTTGGTGCCTA
60770 A
1 A
60771 ATTATTTGAC
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:67177 original size:275 final size:274
Alignment explanation
Indices: 66699--67289 Score: 807
Period size: 275 Copynumber: 2.2 Consensus size: 274
66689 TTTTAGATGC
* * * * ** *
66699 TCAATCAATGCACCATTTAAGGTACTTTTCAGAGGTCATTCATTGCAGTAATAATGCACTGTTTC
1 TCAATCAATGCACCATTTCAGCTACTTTTCAGAAGTCATTCATTACAACAATAATGCACTATTTC
* *
66764 AGTTTTTTCAAAGCTCATTCAATGCAGAATTCAAGAAACAATTTAAAAAACGGGTGAAAATAGTG
66 AGCTTTTTCAAAGCTCATTCAATGCAGAATTCAAGAAACAATTCAAAAAACGGGTGAAAATAGTG
* * * * * **
66829 GTGCGCTATCATCTTCTGTAACTTTTCAATGATATATCAATTCAAATCAGAAACATTTTTTTTGT
131 GTGCACTATCATCTTCTGCAACTTTTAAATGATATATAAACTCAAATCAGAAACATTTTTAGTGT
**
66894 TGAATTATCACTTCAAATCATAAAAAA-ATGTGTATTTTAACCA-GACCAAGTTTTTCACTGTTT
196 TGAATTATCACTTCAAATCATAAAAAATAT-T-TATTTTAACCATG-CCAAAATTTTCACTGTTT
* *
66957 CA-TATACTTTTTGGTTA
258 CAGT-TACTTTTCGGTGA
*
66974 TCAATCAATGCACCATTTCAGCTACATTTCAGAAGTCATTCATTACAACAATAATGCA-TCATTT
1 TCAATCAATGCACCATTTCAGCTACTTTTCAGAAGTCATTCATTACAACAATAATGCACT-ATTT
* * * * *
67038 CAGCTTTTTCAGAGCTCATTCAATGCAGAATTCAAGCAACTATTCAGAAAATGGGTGAAAATAGT
65 CAGCTTTTTCAAAGCTCATTCAATGCAGAATTCAAGAAACAATTCAAAAAACGGGTGAAAATAGT
*
67103 GGTGCATTATCATCTTCTGCAACTTTTAAATGATATATAAACTCAAATCAGAAAC-TTTTTCAGT
130 GGTGCACTATCATCTTCTGCAACTTTTAAATGATATATAAACTCAAATCAGAAACATTTTT-AGT
*
67167 GTTGAATTATCACTTCAAATCATAAAAAATATTTATTTTAACCATGCCAAAATTTTCATTGTTTC
194 GTTGAATTATCACTTCAAATCATAAAAAATATTTATTTTAACCATGCCAAAATTTTCACTGTTTC
*
67232 AGTTACTTTTCGGTGC
259 AGTTACTTTTCGGTGA
*
67248 TCAATCAATGCACCGTTTCAGCTACTTTTCA-AAGGTCATTCA
1 TCAATCAATGCACCATTTCAGCTACTTTTCAGAA-GTCATTCA
67290 CTGTAGTAAT
Statistics
Matches: 279, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
273 2 0.01
274 81 0.29
275 194 0.70
276 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (274 bp):
TCAATCAATGCACCATTTCAGCTACTTTTCAGAAGTCATTCATTACAACAATAATGCACTATTTC
AGCTTTTTCAAAGCTCATTCAATGCAGAATTCAAGAAACAATTCAAAAAACGGGTGAAAATAGTG
GTGCACTATCATCTTCTGCAACTTTTAAATGATATATAAACTCAAATCAGAAACATTTTTAGTGT
TGAATTATCACTTCAAATCATAAAAAATATTTATTTTAACCATGCCAAAATTTTCACTGTTTCAG
TTACTTTTCGGTGA
Found at i:67304 original size:46 final size:46
Alignment explanation
Indices: 67249--67351 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
67239 TTTCGGTGCT
* *
67249 CAATCAATGCACCGTTTCAGCTACTTTTCAAAGGTCATTCA-CTGTAG
1 CAAT-AATGCACCATTTCAGCAACTTTTCAAAGGTCATTCATC-GTAG
* ** * * *
67296 TAATAATGCATTATTTTAGCAACTTTTCAGAGGTCATTTATCGTAG
1 CAATAATGCACCATTTCAGCAACTTTTCAAAGGTCATTCATCGTAG
67342 CAATAATGCA
1 CAATAATGCA
67352 TTGGTTGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
46 42 0.91
47 4 0.09
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (46 bp):
CAATAATGCACCATTTCAGCAACTTTTCAAAGGTCATTCATCGTAG
Found at i:76703 original size:14 final size:14
Alignment explanation
Indices: 76684--76720 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
76674 AATGAATGAA
76684 TGGCATGAGTTGTG
1 TGGCATGAGTTGTG
76698 TGGCATGAGTTGTG
1 TGGCATGAGTTGTG
*
76712 TGACATGAG
1 TGGCATGAG
76721 AGTATCCGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.19, C:0.08, G:0.41, T:0.32
Consensus pattern (14 bp):
TGGCATGAGTTGTG
Found at i:78216 original size:18 final size:19
Alignment explanation
Indices: 78180--78217 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
78170 CACGGAATGT
78180 AAGATTACCAGTAGGAATAA
1 AAGATTACCAG-AGGAATAA
78200 AAGATTACCAG-GGAATAA
1 AAGATTACCAGAGGAATAA
78218 GATTACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGAGGAATAA
Found at i:78751 original size:20 final size:20
Alignment explanation
Indices: 78726--78839 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
78716 AATTTGAAAA
78726 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
78746 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* ** *
78766 TTCGCAACACGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
78786 TTCGCAACT-AGATACTGACT
1 ATCGCAA-TGCGATACTGACT
* * * *
78806 TTCGCAACGAGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
78826 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
78840 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
19 2 0.03
20 66 0.85
21 10 0.13
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:78780 original size:40 final size:40
Alignment explanation
Indices: 78727--78839 Score: 117
Period size: 40 Copynumber: 2.8 Consensus size: 40
78717 ATTTGAAAAA
*
78727 TCGCAATG-CGATACTGACTATCGCAATGCGATACTGACTT
1 TCGCAACGACGATACT-ACTATCGCAATGCGATACTGACTT
* *
78767 TCGCAAC-ACGATACTTACTTTCGCAACT-AGATACTGACTT
1 TCGCAACGACGATAC-TACTATCGCAA-TGCGATACTGACTT
*
78807 TCGCAACGA-GATAATACATAATCGCAATGCGAT
1 TCGCAACGACGATACTAC-T-ATCGCAATGCGAT
78840 TTTCAAAGCG
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
39 3 0.05
40 45 0.75
41 12 0.20
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (40 bp):
TCGCAACGACGATACTACTATCGCAATGCGATACTGACTT
Found at i:79034 original size:22 final size:22
Alignment explanation
Indices: 79006--79049 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
78996 CACTCTCTCA
79006 CCCATCTCCGACGAAACCCGTC
1 CCCATCTCCGACGAAACCCGTC
* *
79028 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAACCCGTC
79050 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.48, G:0.16, T:0.16
Consensus pattern (22 bp):
CCCATCTCCGACGAAACCCGTC
Found at i:79337 original size:20 final size:20
Alignment explanation
Indices: 79314--79356 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
79304 GATAATCAAA
79314 TTCGCGTTGCGATTGTCATT
1 TTCGCGTTGCGATTGTCATT
* *
79334 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTGTCATT
79354 TTC
1 TTC
79357 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.19, G:0.21, T:0.51
Consensus pattern (20 bp):
TTCGCGTTGCGATTGTCATT
Found at i:81309 original size:19 final size:19
Alignment explanation
Indices: 81287--81380 Score: 68
Period size: 19 Copynumber: 5.5 Consensus size: 19
81277 AATGGCTATT
81287 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
81306 GCAA--CGACAA-G---ATC
1 GCAATGCGA-AATGAAAATC
81320 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
81339 GCAA--CGACAA-G---ATC
1 GCAATGCGA-AATGAAAATC
* *
81353 ACAACGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
81372 GCAATGCGA
1 GCAATGCGA
81381 TTTATGTTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 28
0.65 0.03 0.31
Matches are distributed among these distances:
14 13 0.22
15 4 0.07
16 8 0.14
17 8 0.14
18 4 0.07
19 21 0.36
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
GCAATGCGAAATGAAAATC
Found at i:81329 original size:33 final size:33
Alignment explanation
Indices: 81287--81375 Score: 160
Period size: 33 Copynumber: 2.7 Consensus size: 33
81277 AATGGCTATT
81287 GCAATGCGAAATGAAAATCGCAACGACAAGATC
1 GCAATGCGAAATGAAAATCGCAACGACAAGATC
81320 GCAATGCGAAATGAAAATCGCAACGACAAGATC
1 GCAATGCGAAATGAAAATCGCAACGACAAGATC
* *
81353 ACAACGCGAAATGAAAATCGCAA
1 GCAATGCGAAATGAAAATCGCAA
81376 TGCGATTTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.11
Consensus pattern (33 bp):
GCAATGCGAAATGAAAATCGCAACGACAAGATC
Found at i:81424 original size:33 final size:33
Alignment explanation
Indices: 81387--81466 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
81377 GCGATTTATG
* * *
81387 TTTCGCGTTGCGATTTTGTTGTTGCGATTTTCA
1 TTTCGCATTGCGATCTTGTCGTTGCGATTTTCA
81420 TTTCGCATTGCGATCTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATCTTGTCGTTGCGATTTTCA
81453 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
81467 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATCTTGTCGTTGCGATTTTCA
Found at i:81432 original size:19 final size:19
Alignment explanation
Indices: 81408--81466 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
81398 GATTTTGTTG
81408 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81427 TTGCGA---TC-TTGTCG--
1 TTGCGATTTTCATT-TCGCA
81441 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81460 TTGCGAT
1 TTGCGAT
81467 AGCCATTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
14 6 0.18
15 2 0.06
16 5 0.15
17 5 0.15
18 2 0.06
19 13 0.39
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:81485 original size:20 final size:20
Alignment explanation
Indices: 81451--81505 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
81441 TTGCGATTTT
*
81451 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
81470 CATTTCCGCGTTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
81490 CATTTCCGCGTTGCGA
1 CATTTCCGCGTTGCGA
81506 AAGTATGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.15
20 29 0.85
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.31
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:83577 original size:19 final size:19
Alignment explanation
Indices: 83550--83614 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
83540 GCAACGAGAG
*
83550 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
83569 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
83588 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
83602 AATCGCAATGCGA
1 AATCGCAATGCGA
83615 TTTTCATTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
19 26 0.62
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:83665 original size:20 final size:20
Alignment explanation
Indices: 83640--83708 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
83630 GCGATTCTCT
83640 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
83660 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGTCATTTTCG
83680 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
83700 CGTTGCGAT
1 CGTTGCGAT
83709 TTCCCCGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:83666 original size:34 final size:33
Alignment explanation
Indices: 83621--83727 Score: 106
Period size: 40 Copynumber: 3.0 Consensus size: 33
83611 GCGATTTTCA
* *
83621 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATT-TCACGTTGCGATAGTCAT
83655 TTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAT
1 TTTCGCGTTGC----G--A-TTTCACGTTGCGATAGTCAT
*
83695 TTTCGCGTTGCGATTTCCCCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTT-CACGTTGCGATAGTCA
83728 AATGAATGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
33 3 0.05
34 26 0.42
36 1 0.02
38 1 0.02
40 29 0.47
41 2 0.03
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.38
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTCACGTTGCGATAGTCAT
Found at i:84091 original size:20 final size:20
Alignment explanation
Indices: 84079--84151 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
84069 TCGTTGTGAT
*
84079 AGTCAGAATCTCGTTGCGAA
1 AGTCAGAATCGCGTTGCGAA
84099 AGTCAGAATCGCGTTGCGAA
1 AGTCAGAATCGCGTTGCGAA
*
84119 AGTCAGAATCGCATTGCGAA
1 AGTCAGAATCGCGTTGCGAA
84139 AGTCAGAATCGCG
1 AGTCAGAATCGCG
84152 ATTTTTGTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.21
Consensus pattern (20 bp):
AGTCAGAATCGCGTTGCGAA
Found at i:84123 original size:40 final size:40
Alignment explanation
Indices: 84070--84151 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
84060 TGTATTATCT
* * * *
84070 CGTTGTGATAGTCAGAATCTCGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGAATCG
84110 CGTTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGAATCG
84150 CG
1 CG
84152 ATTTTTGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
CGTTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGAATCG
Found at i:84280 original size:22 final size:22
Alignment explanation
Indices: 84248--84294 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
84238 CTCCGGCGAT
84248 ATCTGTACCTATATCCAACGAC
1 ATCTGTACCTATATCCAACGAC
*
84270 ATCTGTTCCTATATCCAACGAC
1 ATCTGTACCTATATCCAACGAC
84292 ATC
1 ATC
84295 CTTCCTCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.30
Consensus pattern (22 bp):
ATCTGTACCTATATCCAACGAC
Found at i:87430 original size:20 final size:19
Alignment explanation
Indices: 87402--87443 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
87392 CAATCATCTT
*
87402 AATGTCTATCGCAATGCGGA
1 AATGACTATCGCAATGC-GA
87422 AATGACTATCGCAATGCGA
1 AATGACTATCGCAATGCGA
87441 AAT
1 AAT
87444 AAAAATTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (19 bp):
AATGACTATCGCAATGCGA
Found at i:87519 original size:20 final size:19
Alignment explanation
Indices: 87409--87559 Score: 80
Period size: 19 Copynumber: 8.6 Consensus size: 19
87399 CTTAATGTCT
**
87409 ATCGCAATGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
*
87429 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
* *
87448 ATTGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
87462 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
87481 ACCGCAACGCG--AT---A
1 ATCGCAATGCGAAATGAAA
87495 ATCGCAATGCGAAATGAAAA
1 ATCGCAATGCGAAATG-AAA
**
87515 ATCGCAAT--G--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
87529 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
87548 ATCGCAACGCGA
1 ATCGCAATGCGA
87560 TTTTAGTTTC
Statistics
Matches: 97, Mismatches: 18, Indels: 33
0.66 0.12 0.22
Matches are distributed among these distances:
14 26 0.27
15 2 0.02
16 6 0.06
17 4 0.04
18 3 0.03
19 37 0.38
20 19 0.20
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:87532 original size:34 final size:33
Alignment explanation
Indices: 87429--87556 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
87419 GGAAATGACT
* *
87429 ATCGCAATGCGAAATAAAAATTGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
87462 ATCGCAATGCGAAATGAAAACCGCAACGCGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
87495 ATCGCAATGCGAAATGAAAAATCGCAATGAGGGA
1 ATCGCAATGCGAAATG-AAAATCGCAACGAGAGA
*
87529 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
87557 CGATTTTAGT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
33 55 0.67
34 27 0.33
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:87541 original size:67 final size:66
Alignment explanation
Indices: 87429--87560 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 66
87419 GGAAATGACT
* *
87429 ATCGCAATGCGAAATAAAAATTGCAACGAGAGAATCGCAATGCGAAATGAAAACCGCAACGCGAT
1 ATCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAAAGCGAAATGAAAACCGCAACGCGAT
87494 A
66 A
* * *
87495 ATCGCAATGCGAAATGAAAAATCGCAATGAGGGAATCGCAAAGCGAAATGAAAATCGCAACGCGA
1 ATCGCAATGCGAAAT-AAAAATCGCAACGAGAGAATCGCAAAGCGAAATGAAAACCGCAACGCGA
87560 T
65 T
87561 TTTAGTTTCG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
66 15 0.25
67 45 0.75
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.14
Consensus pattern (66 bp):
ATCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAAAGCGAAATGAAAACCGCAACGCGAT
A
Found at i:87578 original size:19 final size:19
Alignment explanation
Indices: 87556--87631 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
87546 AAATCGCAAC
87556 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCA-TTTCGCGTT
*
87575 GCGA-TTT--TGTCG--TT
1 GCGATTTTCATTTCGCGTT
87589 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
*
87608 GCGATTTTCATTTCGCATT
1 GCGATTTTCATTTCGCGTT
87627 GCGAT
1 GCGAT
87632 AGTCATTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
14 6 0.12
15 3 0.06
16 4 0.08
17 4 0.08
18 3 0.06
19 29 0.59
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.46
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:87637 original size:19 final size:19
Alignment explanation
Indices: 87596--87639 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
87586 GTTGCGATTT
* **
87596 TCATTTCGCGTTGCGATTT
1 TCATTTCGCATTGCGATAG
87615 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
87634 TCATTT
1 TCATTT
87640 TTGCTTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:87757 original size:14 final size:13
Alignment explanation
Indices: 87738--87776 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
87728 CATCAATTAA
87738 ACAAATCAACTTTT
1 ACAAATCAA-TTTT
87752 ACAAATCATATTTT
1 ACAAATCA-ATTTT
87766 ACAAATCAATT
1 ACAAATCAATT
87777 AAACAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 3 0.12
14 20 0.83
15 1 0.04
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (13 bp):
ACAAATCAATTTT
Found at i:91480 original size:19 final size:19
Alignment explanation
Indices: 91438--91521 Score: 106
Period size: 19 Copynumber: 4.6 Consensus size: 19
91428 TTGGTTGAAC
*
91438 TGAAAATCGCAACGAGAGAA
1 TGAAAATCGCAACGCGA-AA
91458 TGAAAATCGCAACGCGAAA
1 TGAAAATCGCAACGCGAAA
91477 TGAAAATCGCAA--CG--A
1 TGAAAATCGCAACGCGAAA
*
91492 -GATAATCGCAACGCGAAA
1 TGAAAATCGCAACGCGAAA
91510 TGAAAATCGCAA
1 TGAAAATCGCAA
91522 TCATTTCGCG
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 24 0.43
20 16 0.29
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.12
Consensus pattern (19 bp):
TGAAAATCGCAACGCGAAA
Found at i:91549 original size:14 final size:14
Alignment explanation
Indices: 91530--91585 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
91520 AATCATTTCG
91530 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
91544 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
91563 CGTTGCGATTATCT
1 CGTTGCGATTATCT
91577 CGTTGCGAT
1 CGTTGCGAT
91586 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:91564 original size:33 final size:33
Alignment explanation
Indices: 91522--91606 Score: 143
Period size: 33 Copynumber: 2.5 Consensus size: 33
91512 AAAATCGCAA
**
91522 TCATTTCGCGTTGCGATTATCTCGTTGCGATTT
1 TCATTTCGCGTTGCGATTATCTCGTTGCGATAG
91555 TCATTTCGCGTTGCGATTATCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTATCTCGTTGCGATAG
91588 TCATTTCCGCGTTGCGATT
1 TCATTT-CGCGTTGCGATT
91607 TTCATTCTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 37 0.76
34 12 0.24
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.42
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTATCTCGTTGCGATAG
Found at i:91611 original size:20 final size:19
Alignment explanation
Indices: 91544--91612 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 19
91534 GCGATTATCT
91544 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
91563 CGTTGCGA--TT-A--TCT
1 CGTTGCGATTTTCATTTCG
**
91577 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTT-CG
91597 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
91613 CTCGAAACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
14 10 0.26
16 2 0.05
17 3 0.08
19 9 0.23
20 15 0.38
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:92182 original size:20 final size:20
Alignment explanation
Indices: 92155--92248 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
92145 CGATAGTCAG
92155 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
92175 ATTTGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
92195 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* *
92216 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
92236 ATTCGCATTGCGA
1 ATTCGCATTGCGA
92249 ATTATGAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
20 45 0.73
21 17 0.27
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:92205 original size:41 final size:40
Alignment explanation
Indices: 92155--92248 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 40
92145 CGATAGTCAG
* * *
92155 ATTCGCATTGCGATTTACGTATTTGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * *
92195 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
92236 ATTCGCATTGCGA
1 ATTCGCATTGCGA
92249 ATTATGAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 13 0.28
41 34 0.72
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:92289 original size:20 final size:21
Alignment explanation
Indices: 92132--92292 Score: 120
Period size: 20 Copynumber: 7.9 Consensus size: 21
92122 ATGGCGCTAT
92132 GTAAATCGCATTGCGA--TA-
1 GTAAATCGCATTGCGATTTAC
*
92150 GTCAGATTCGCATTGCGATTTAC
1 GT-A-AATCGCATTGCGATTTAC
* * *
92173 GT-ATTTGCATTGCGATTTTC
1 GTAAATCGCATTGCGATTTAC
* *
92193 CTAATTCGCATTGCGATTTAC
1 GTAAATCGCATTGCGATTTAC
* *
92214 -TTAATCGCGTTGCGATTTAC
1 GTAAATCGCATTGCGATTTAC
* * *
92234 GT-ATTCGCATTGCGAATTAT
1 GTAAATCGCATTGCGATTTAC
* ** *
92254 GAAAATCGCAACGCGA-ATAC
1 GTAAATCGCATTGCGATTTAC
92274 GTAAATCGCATTGCGATTT
1 GTAAATCGCATTGCGATTT
92293 TGTATTATCG
Statistics
Matches: 111, Mismatches: 23, Indels: 15
0.74 0.15 0.10
Matches are distributed among these distances:
18 2 0.02
19 1 0.01
20 76 0.68
21 28 0.25
22 2 0.02
23 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (21 bp):
GTAAATCGCATTGCGATTTAC
Found at i:92303 original size:21 final size:22
Alignment explanation
Indices: 92278--92334 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
92268 GAATACGTAA
*
92278 ATCGCATTGCGATTTTGT-ATT
1 ATCGCATTGCGATTTTGTCAGT
* *
92299 ATCGCGTTGCGA--TAGTCAGT
1 ATCGCATTGCGATTTTGTCAGT
92319 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
92335 CTAAATTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.11
20 13 0.46
21 11 0.39
22 1 0.04
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (22 bp):
ATCGCATTGCGATTTTGTCAGT
Found at i:92345 original size:82 final size:82
Alignment explanation
Indices: 92198--92392 Score: 193
Period size: 82 Copynumber: 2.4 Consensus size: 82
92188 TTTTCCTAAT
*
92198 TCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGAAAATCGC
1 TCGCATTGCGATTTACTTAATCGCGTTGCGATTCACGTATTCGCATTGCGAATTATGAAAATCGC
*
92263 AACGCG-AATACGTAAA
66 AACGCGAAATACGAAAA
** * * * *
92279 TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCA-GTA-TCGCATTGCG-ATTTTCTAAAT
1 TCGCATTGCGATTTACT-TAATCGCGTTGCGAT--TCACGTATTCGCATTGCGAATTAT-GAAAA
* **
92341 TCGCAATGCGAAATTGGAAAA
62 TCGCAACGCGAAATACGAAAA
* *
92362 TCGCATTGCGATAGTA-ATAATCGCGTTGCGA
1 TCGCATTGCGAT-TTACTTAATCGCGTTGCGA
92393 ATCTGGAAAC
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
81 19 0.20
82 49 0.53
83 22 0.24
84 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (82 bp):
TCGCATTGCGATTTACTTAATCGCGTTGCGATTCACGTATTCGCATTGCGAATTATGAAAATCGC
AACGCGAAATACGAAAA
Found at i:96418 original size:48 final size:49
Alignment explanation
Indices: 96322--96451 Score: 244
Period size: 48 Copynumber: 2.7 Consensus size: 49
96312 CCCCAGAAAC
*
96322 CAATAAGAGAAAATCAATAAACAACTCAAACCCCAAAAAAATGAATGAA
1 CAATAAGAGAATATCAATAAACAACTCAAACCCCAAAAAAATGAATGAA
96371 CAATAAGAGAATATCAATAAACAA-TCAAACCCCAAAAAAATGAATGAA
1 CAATAAGAGAATATCAATAAACAACTCAAACCCCAAAAAAATGAATGAA
96419 CAATAAGAGAATATCAATAAACAACTCAAACCC
1 CAATAAGAGAATATCAATAAACAACTCAAACCC
96452 GAGAAACCAA
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
48 48 0.61
49 31 0.39
ACGTcount: A:0.59, C:0.19, G:0.08, T:0.14
Consensus pattern (49 bp):
CAATAAGAGAATATCAATAAACAACTCAAACCCCAAAAAAATGAATGAA
Found at i:97266 original size:24 final size:23
Alignment explanation
Indices: 97226--97271 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
97216 TTGTGAATTT
*
97226 TTTTAATTTTTTAATTAGTTTATA
1 TTTTAATTTTATAATTA-TTTATA
97250 TTTTAA-TTTATATATTATTTAT
1 TTTTAATTTTATA-ATTATTTAT
97272 TTAATTAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTAATTTTATAATTATTTATA
Found at i:97681 original size:29 final size:29
Alignment explanation
Indices: 97636--97693 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
97626 GTGTTGGCCG
*
97636 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
97665 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
97694 AAGAGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:97763 original size:14 final size:14
Alignment explanation
Indices: 97744--97776 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
97734 ATCTGGGCAT
97744 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
97758 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
97772 ACGAG
1 CCGAG
97777 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:97838 original size:33 final size:33
Alignment explanation
Indices: 97768--97838 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
97758 CCGAGGCCAT
* * **
97768 CCGAACGAGCTATGCGAGGGCATCTGAGGGCAA
1 CCGAGCGAGCTATGCGAGGGAATCCAAGGGCAA
97801 CCGAGCGAGCTATGCGAGGGAATCCAAGGG-AA
1 CCGAGCGAGCTATGCGAGGGAATCCAAGGGCAA
97833 GCCGAG
1 -CCGAG
97839 AGAGGGTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 2 0.06
33 31 0.94
ACGTcount: A:0.28, C:0.24, G:0.38, T:0.10
Consensus pattern (33 bp):
CCGAGCGAGCTATGCGAGGGAATCCAAGGGCAA
Found at i:97892 original size:29 final size:29
Alignment explanation
Indices: 97846--97901 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
97836 GAGAGAGGGT
*
97846 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
97875 AGGTTGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
97902 TGTGTTGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.38, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:99378 original size:23 final size:23
Alignment explanation
Indices: 99352--99396 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
99342 AAACGAACTT
*
99352 AATAAATGAACATAAACAAATAC
1 AATAAACGAACATAAACAAATAC
*
99375 AATAAACGAACATAAACGAATA
1 AATAAACGAACATAAACAAATA
99397 ACACAAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.64, C:0.13, G:0.07, T:0.16
Consensus pattern (23 bp):
AATAAACGAACATAAACAAATAC
Found at i:99404 original size:23 final size:23
Alignment explanation
Indices: 99359--99404 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
99349 CTTAATAAAT
*
99359 GAACATAAACAAATACAATAAAC
1 GAACATAAACAAATACAACAAAC
*
99382 GAACATAAACGAATA-ACACAAAC
1 GAACATAAACAAATACA-ACAAAC
99405 ACAAAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.63, C:0.20, G:0.07, T:0.11
Consensus pattern (23 bp):
GAACATAAACAAATACAACAAAC
Found at i:99892 original size:16 final size:16
Alignment explanation
Indices: 99871--99906 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
99861 TCATTTACAA
99871 CCCTAAGAATTAGTAG
1 CCCTAAGAATTAGTAG
*
99887 CCCTAAGAATTAGTCG
1 CCCTAAGAATTAGTAG
99903 CCCT
1 CCCT
99907 GCTTGTCGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (16 bp):
CCCTAAGAATTAGTAG
Found at i:100066 original size:35 final size:35
Alignment explanation
Indices: 100015--100095 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
100005 TTTGTTCTAC
* *
100015 CTTCTGGGTTGCAAATTAGAAAAAAAGAATCTATG
1 CTTCTGAGTTGAAAATTAGAAAAAAAGAATCTATG
* * *
100050 CTTCTGAGTTGAAAATTAGAAGAAACGAATCTGTG
1 CTTCTGAGTTGAAAATTAGAAAAAAAGAATCTATG
100085 CTTCTGAGTTG
1 CTTCTGAGTTG
100096 CAATTACACA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (35 bp):
CTTCTGAGTTGAAAATTAGAAAAAAAGAATCTATG
Found at i:107819 original size:27 final size:27
Alignment explanation
Indices: 107789--107842 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
107779 GTACTGCATA
*
107789 TTCTTGAAATACATACATTATTGTATC
1 TTCTTGAAATACATACATCATTGTATC
107816 TTCTTGAAATACATACATCATTGTATC
1 TTCTTGAAATACATACATCATTGTATC
107843 ATCGCGTGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (27 bp):
TTCTTGAAATACATACATCATTGTATC
Found at i:111709 original size:4 final size:4
Alignment explanation
Indices: 111700--111725 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
111690 AAAAATTATT
111700 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
111726 TAGATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:119653 original size:18 final size:18
Alignment explanation
Indices: 119630--119672 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
119620 TTGACATCGT
119630 GATTTTGAATCCAACCTC
1 GATTTTGAATCCAACCTC
119648 GATTTTGAATCCAACCTC
1 GATTTTGAATCCAACCTC
*
119666 TATTTTG
1 GATTTTG
119673 TCAGAAGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.40
Consensus pattern (18 bp):
GATTTTGAATCCAACCTC
Found at i:121473 original size:2 final size:2
Alignment explanation
Indices: 121462--121491 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
121452 ATCTAGAATC
121462 AT AT -T 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 AT AT AT A
121492 ATTAGATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125754 original size:31 final size:31
Alignment explanation
Indices: 125719--125795 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
125709 AAACTAAGTA
* * *
125719 TTTAGTACATAAATTATCATTTTTGGTATGT
1 TTTAGTACATAAACTATCAGTTTTGGTACGT
* *
125750 TTTAGCACATAAACTATCAGTTTTGGTCCGT
1 TTTAGTACATAAACTATCAGTTTTGGTACGT
125781 TTTAGTACATAAACT
1 TTTAGTACATAAACT
125796 TTTAATTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (31 bp):
TTTAGTACATAAACTATCAGTTTTGGTACGT
Found at i:126152 original size:3 final size:3
Alignment explanation
Indices: 126144--126171 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
126134 TTTGTATTTC
126144 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
126172 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:126688 original size:135 final size:135
Alignment explanation
Indices: 126527--126792 Score: 469
Period size: 135 Copynumber: 2.0 Consensus size: 135
126517 GAATTAGCTT
*
126527 TGAATGTGACATGCTGTTTGATAATGGCTCTGAATCATTCAGAATATACTTCTGTGCTGAATCAT
1 TGAATGTGACATGCTGTTTGATAATGGCTCTGAATCATTCAGAATATACTTCTATGCTGAATCAT
*
126592 TCAACACTATTTTGCTGAATCAGTCAGCACTGAATCATTCAGAGGTGCGAAACAAACGCTCTGAA
66 TCAACACTATTTTGCTGAATCAGTCAGCACTGAATCATTCAGAGGTACGAAACAAACGCTCTGAA
126657 TGTTC
131 TGTTC
* *
126662 TGAATGTGACATGTTGTTTGATAATGGCTCTGAATCATTCAGAATATACTTCTATGTTGAATCAT
1 TGAATGTGACATGCTGTTTGATAATGGCTCTGAATCATTCAGAATATACTTCTATGCTGAATCAT
* * *
126727 TCAGCACTATTTTGCTGAATCAGTCAGTACTGAATTATTCAGAGGTACGAAACAAACGCTCTGAA
66 TCAACACTATTTTGCTGAATCAGTCAGCACTGAATCATTCAGAGGTACGAAACAAACGCTCTGAA
126792 T
131 T
126793 ATTGAACGGT
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
135 124 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (135 bp):
TGAATGTGACATGCTGTTTGATAATGGCTCTGAATCATTCAGAATATACTTCTATGCTGAATCAT
TCAACACTATTTTGCTGAATCAGTCAGCACTGAATCATTCAGAGGTACGAAACAAACGCTCTGAA
TGTTC
Found at i:127137 original size:38 final size:38
Alignment explanation
Indices: 127059--127138 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 38
127049 ATCAATTTGG
* *
127059 AAAATATTATATATTTTCTTTAAAAAATTTAAATTCAT
1 AAAATATTATATATTTTCTTTAAAAAATTAAAAATCAT
* *
127097 AAAAT-TTATATAATTTTTTTTTACAAAATTAAAAAT-AT
1 AAAATATTATAT-A-TTTTCTTTAAAAAATTAAAAATCAT
127135 AAAA
1 AAAA
127139 AGGTTTAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 6 0.17
38 12 0.33
39 18 0.50
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (38 bp):
AAAATATTATATATTTTCTTTAAAAAATTAAAAATCAT
Found at i:128799 original size:21 final size:20
Alignment explanation
Indices: 128769--128808 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
128759 TATTTTTTTA
128769 ATTATTTTAAT-AATAAAAGT
1 ATTATTTTAATGAA-AAAAGT
128789 ATTATTTTTAATGAAAAAAG
1 ATTA-TTTTAATGAAAAAAG
128809 AAAAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTATTTTAATGAAAAAAGT
Found at i:130011 original size:20 final size:20
Alignment explanation
Indices: 129986--130024 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
129976 AGAAGACTGG
*
129986 TGGATGAAGTCGGACTCGAA
1 TGGATGAAGTCGAACTCGAA
*
130006 TGGATGGAGTCGAACTCGA
1 TGGATGAAGTCGAACTCGA
130025 GGTCTGATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.21
Consensus pattern (20 bp):
TGGATGAAGTCGAACTCGAA
Found at i:134246 original size:24 final size:25
Alignment explanation
Indices: 134198--134250 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
134188 AAATGAACAT
134198 ACAATTCGATTCAACAAAAATATTC
1 ACAATTCGATTCAACAAAAATATTC
* *
134223 ACAATTTGATTTAAC-AAAATATTC
1 ACAATTCGATTCAACAAAAATATTC
134247 ACAA
1 ACAA
134251 CCTGACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (25 bp):
ACAATTCGATTCAACAAAAATATTC
Found at i:135959 original size:17 final size:17
Alignment explanation
Indices: 135932--135970 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
135922 AATTTACAAT
135932 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
135948 TAATTATAAATAATATC
1 TAATTATAAATAATATC
135965 TAATTA
1 TAATTA
135971 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:141469 original size:38 final size:38
Alignment explanation
Indices: 141416--141500 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
141406 TTTAGTTAAT
* *
141416 TCGACTCGAATTGAGAAGCATATCACCTTCATAGTAAC
1 TCGACTCGAACTGAGAAGCATATCACCTTCACAGTAAC
* * *
141454 TCGACTCGAACTGAGAAGCATATTACCTTGACATTAAC
1 TCGACTCGAACTGAGAAGCATATCACCTTCACAGTAAC
141492 TCGACTCGA
1 TCGACTCGA
141501 GTTTTGAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (38 bp):
TCGACTCGAACTGAGAAGCATATCACCTTCACAGTAAC
Found at i:142207 original size:20 final size:20
Alignment explanation
Indices: 142182--142230 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
142172 GGGAAAATCA
142182 CAATGCGATACTGACTATCG
1 CAATGCGATACTGACTATCG
*
142202 CAATGCGATACTTACTATCG
1 CAATGCGATACTGACTATCG
142222 CAATGCGAT
1 CAATGCGAT
142231 TTACGTATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (20 bp):
CAATGCGATACTGACTATCG
Found at i:142242 original size:20 final size:21
Alignment explanation
Indices: 142198--142376 Score: 135
Period size: 20 Copynumber: 8.8 Consensus size: 21
142188 GATACTGACT
142198 ATCGCAATGCGATACTTAC-T--
1 ATCGCAATGCGAT--TTACGTAA
142218 ATCGCAATGCGATTTACGT-A
1 ATCGCAATGCGATTTACGTAA
* * * *
142238 TTCGCATTGCGATTTTCATAA
1 ATCGCAATGCGATTTACGTAA
* *
142259 TTCGCAATGCGA-ATACGTAA
1 ATCGCAATGCGATTTACGTAA
*
142279 ATCGCAATGCGA-ATACGTAA
1 ATCGCAATGCGATTTACGTAA
* * *
142299 ATCGCAATGCGAATTAGGGAA
1 ATCGCAATGCGATTTACGTAA
**
142320 ATCGCAATGC-AAATACGTAA
1 ATCGCAATGCGATTTACGTAA
142340 ATCGCAATGCGAATCTTAC-T--
1 ATCGCAATGCG-AT-TTACGTAA
*
142360 ATCGCATTGCGATTTAC
1 ATCGCAATGCGATTTAC
142377 ATAGCGCCAT
Statistics
Matches: 134, Mismatches: 18, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
18 8 0.06
19 3 0.02
20 91 0.68
21 27 0.20
22 2 0.01
23 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (21 bp):
ATCGCAATGCGATTTACGTAA
Found at i:142284 original size:41 final size:41
Alignment explanation
Indices: 142138--142379 Score: 137
Period size: 41 Copynumber: 6.0 Consensus size: 41
142128 TTTTCCCAAT
* * **
142138 TCGCAATGCGAATAAGTAAATCGCAACGCGA-ATTGGGA-AAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGATA-T-ACATAAA
* *
142179 TCACAATGCG-ATAC-TGACTATCGCAATGCGATACTTAC-T--A
1 TCGCAATGCGAATACGT-A-AATCGCAATGCGATA--TACATAAA
* * * * * *
142219 TCGCAATGCGATTTACGT-ATTCGCATTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAATCGCAATGCGATATACATAAA
*
142260 TCGCAATGCGAATACGTAAATCGCAATGCGA-ATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGATATACATAAA
* * * *
142300 TCGCAATGCGAATTAGGGAAATCGCAATGC-AAATACGTAAA
1 TCGCAATGCGAA-TACGTAAATCGCAATGCGATATACATAAA
* * * *
142341 TCGCAATGCGAAT-CTTACTATCGCATTGCGATTTACATA
1 TCGCAATGCGAATACGTA-AATCGCAATGCGATATACATA
142380 GCGCCATTCG
Statistics
Matches: 154, Mismatches: 31, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
38 2 0.01
39 3 0.02
40 58 0.38
41 84 0.55
42 4 0.03
43 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (41 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGATATACATAAA
Found at i:142304 original size:61 final size:61
Alignment explanation
Indices: 142122--142379 Score: 193
Period size: 61 Copynumber: 4.2 Consensus size: 61
142112 TACAGTGTCG
** * * ** * *
142122 TTGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCACA
1 TTGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCGAA-TACGTAAATCGCA
* ** * * * * *
142184 ATGCGATACTGACT-A-TCGCAATGCG-ATACTTACTATCGCAATGCGATTTACGT-ATTCGCA
1 TTGCGATTTTCA-TAATTCGCAATGCGAATACGTA-AATCGCAATGCGA-ATACGTAAATCGCA
142244 TTGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCA
1 TTGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCA
* * **** * * * *
142305 ATGCGAATTAGGGAAATCGCAATGCAAATACGTAAATCGCAATGCGAAT-CTTACTATCGCA
1 TTGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCGAATACGTA-AATCGCA
*
142366 TTGCGATTTACATA
1 TTGCGATTTTCATA
142380 GCGCCATTCG
Statistics
Matches: 149, Mismatches: 39, Indels: 17
0.73 0.19 0.08
Matches are distributed among these distances:
59 1 0.01
60 27 0.18
61 107 0.72
62 14 0.09
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (61 bp):
TTGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCA
Found at i:142344 original size:122 final size:122
Alignment explanation
Indices: 142122--142379 Score: 301
Period size: 122 Copynumber: 2.1 Consensus size: 122
142112 TACAGTGTCG
** **
142122 TTGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCACAATG
1 TTGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTACGAAAATCACAATG
* * * * *
142187 CGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCG-AT-TTACGTATTCGCA
66 CGATACGGACAATCGCAATGCAATACGTACAATCGCAATGCGAATCTTAC-TA-TCGCA
* * * *
142244 TTGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCGAA-TACGTAAATCGCAATG
1 TTGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTACGAAAATCACAATG
*
142308 CGAATTAGGGA-AATCGCAATGCAAATACGTA-AATCGCAATGCGAATCTTACTATCGCA
66 CG-A-TACGGACAATCGCAATGC-AATACGTACAATCGCAATGCGAATCTTACTATCGCA
*
142366 TTGCGATTTACATA
1 TTGCGATTTTCATA
142380 GCGCCATTCG
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
121 14 0.12
122 84 0.72
123 14 0.12
124 4 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (122 bp):
TTGCGATTTTCATAATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTACGAAAATCACAATG
CGATACGGACAATCGCAATGCAATACGTACAATCGCAATGCGAATCTTACTATCGCA
Found at i:142950 original size:19 final size:20
Alignment explanation
Indices: 142895--142964 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
142885 GAGAATGAAA
142895 ATCGCAACGCGGAAATAACT
1 ATCGCAACGCGGAAATAACT
142915 ATCGCAACGCGGAAATAACT
1 ATCGCAACGCGGAAATAACT
* **
142935 ATCGCAACG-AGAAATAAAA
1 ATCGCAACGCGGAAATAACT
142954 ATCGCAACGCG
1 ATCGCAACGCG
142965 AAACCAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.36
20 29 0.64
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCGGAAATAACT
Found at i:142967 original size:19 final size:20
Alignment explanation
Indices: 142892--142978 Score: 97
Period size: 20 Copynumber: 4.5 Consensus size: 20
142882 TTCGAGAATG
142892 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGCGGAAATA
**
142912 ACTATCGCAACGCGGAAATA
1 AAAATCGCAACGCGGAAATA
** *
142932 ACTATCGCAACG-AGAAATA
1 AAAATCGCAACGCGGAAATA
**
142951 AAAATCGCAACGC-GAAACC
1 AAAATCGCAACGCGGAAATA
142970 AAAATCGCA
1 AAAATCGCA
142979 TTGCGATGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
19 29 0.49
20 30 0.51
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACGCGGAAATA
Found at i:143063 original size:20 final size:18
Alignment explanation
Indices: 142974--143086 Score: 99
Period size: 19 Copynumber: 6.1 Consensus size: 18
142964 GAAACCAAAA
*
142974 TCGCATTGCGATGTTCATT
1 TCGCGTTGCGAT-TTCATT
142993 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
143012 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
* *
143026 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGAT-TTCATT
143045 TCCGCGTTGCGATTATCATT
1 T-CGCGTTGCGATT-TCATT
*
143065 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGA-TTTCATT
143085 TC
1 TC
143087 AACCAAATGA
Statistics
Matches: 78, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.13
16 2 0.03
17 3 0.04
19 30 0.38
20 30 0.38
21 3 0.04
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:145258 original size:21 final size:21
Alignment explanation
Indices: 145234--145300 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
145224 TCATTCCTCG
145234 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
145255 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
145276 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
145297 AGAG
1 AGAG
145301 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:145258 original size:42 final size:41
Alignment explanation
Indices: 145187--145300 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 41
145177 ACCTGATATC
* * * * * *
145187 CCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATT
1 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCA-T
*
145229 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCAT
1 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCAT
* * *
145270 CGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 CCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
145301 CCCGATTCAC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.07
42 54 0.90
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (41 bp):
CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCAT
Found at i:146840 original size:19 final size:19
Alignment explanation
Indices: 146784--146843 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
146774 AAAAAGTACT
*
146784 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
146803 ATTGCAA--CG--AT-AGA
1 ATCGCAACGCGAAATGAAA
146817 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
146836 ATCGCAAC
1 ATCGCAAC
146844 AAGAAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 2 0.06
17 2 0.06
18 2 0.06
19 16 0.50
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Done.