Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 22 of 172
Found at i:6976651 original size:10 final size:10
Alignment explanation
Indices: 6976636--6976663 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6976626 ATATTACATG
6976636 TTTACTTTGT
1 TTTACTTTGT
6976646 TTTACTTTGT
1 TTTACTTTGT
6976656 TTTACTTT
1 TTTACTTT
6976664 TTCCCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:6978043 original size:183 final size:183
Alignment explanation
Indices: 6977735--6978100 Score: 732
Period size: 183 Copynumber: 2.0 Consensus size: 183
6977725 TTTACTTATT
6977735 AATGCTCACATCAAGCTGTTCATACGAGTCATAGTCACTCAATTATTTATAATTCAAGATACACA
1 AATGCTCACATCAAGCTGTTCATACGAGTCATAGTCACTCAATTATTTATAATTCAAGATACACA
6977800 GCTCCAAATTAAGATCCGTAAATTTTTCCTGAAACTAGACTCACATATCATTCCACCATAAAATT
66 GCTCCAAATTAAGATCCGTAAATTTTTCCTGAAACTAGACTCACATATCATTCCACCATAAAATT
6977865 TTGAAAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTTAAATTTACCA
131 TTGAAAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTTAAATTTACCA
6977918 AATGCTCACATCAAGCTGTTCATACGAGTCATAGTCACTCAATTATTTATAATTCAAGATACACA
1 AATGCTCACATCAAGCTGTTCATACGAGTCATAGTCACTCAATTATTTATAATTCAAGATACACA
6977983 GCTCCAAATTAAGATCCGTAAATTTTTCCTGAAACTAGACTCACATATCATTCCACCATAAAATT
66 GCTCCAAATTAAGATCCGTAAATTTTTCCTGAAACTAGACTCACATATCATTCCACCATAAAATT
6978048 TTGAAAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTTAAATTTACCA
131 TTGAAAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTTAAATTTACCA
6978101 TGTTTCACTA
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.35
Consensus pattern (183 bp):
AATGCTCACATCAAGCTGTTCATACGAGTCATAGTCACTCAATTATTTATAATTCAAGATACACA
GCTCCAAATTAAGATCCGTAAATTTTTCCTGAAACTAGACTCACATATCATTCCACCATAAAATT
TTGAAAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTTAAATTTACCA
Found at i:6981835 original size:15 final size:15
Alignment explanation
Indices: 6981815--6981844 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6981805 TTCCTTATTA
*
6981815 TGTCTTTTATATTTT
1 TGTCTTTCATATTTT
6981830 TGTCTTTCATATTTT
1 TGTCTTTCATATTTT
6981845 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.07, T:0.70
Consensus pattern (15 bp):
TGTCTTTCATATTTT
Found at i:6983470 original size:29 final size:29
Alignment explanation
Indices: 6983435--6983494 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
6983425 TTTAATATAT
6983435 TTAATATTAAATTTAATTTAATACTTATC
1 TTAATATTAAATTTAATTTAATACTTATC
* **
6983464 TTAATATTGAATTTAATTTAATGTTTATC
1 TTAATATTAAATTTAATTTAATACTTATC
6983493 TT
1 TT
6983495 GTAGATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (29 bp):
TTAATATTAAATTTAATTTAATACTTATC
Found at i:6985114 original size:30 final size:30
Alignment explanation
Indices: 6985062--6985119 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
6985052 CACGGCCAGG
* * *
6985062 ACACACGGGCGTGTGCTCTACCCGTGTGTC
1 ACACACAGGCGTGTGATCTACCCATGTGTC
6985092 ACACACAGGCGTGTGGAT-TACCCATGTG
1 ACACACAGGCGTGT-GATCTACCCATGTG
6985120 GAATTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.22
Consensus pattern (30 bp):
ACACACAGGCGTGTGATCTACCCATGTGTC
Found at i:6991537 original size:46 final size:46
Alignment explanation
Indices: 6991487--6991662 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
6991477 TGGTTGAGCA
6991487 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6991533 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
6991578 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6991626 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6991663 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:6991643 original size:93 final size:93
Alignment explanation
Indices: 6991484--6991655 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
6991474 GGATGGTTGA
* *
6991484 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6991549 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
6991577 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6991642 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
6991656 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:6998083 original size:46 final size:46
Alignment explanation
Indices: 6998033--6998208 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
6998023 TGGTTGAGCA
6998033 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6998079 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
6998124 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6998172 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6998209 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:6998189 original size:93 final size:93
Alignment explanation
Indices: 6998030--6998201 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
6998020 GGATGGTTGA
* *
6998030 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6998095 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
6998123 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6998188 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
6998202 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:7002619 original size:117 final size:117
Alignment explanation
Indices: 7002413--7002731 Score: 568
Period size: 117 Copynumber: 2.7 Consensus size: 117
7002403 AGTTTTCCAT
** * * *
7002413 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTATGGCTCAAATCGTAACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
7002478 CTACTTCGCGTCAAAAGGTTGTGGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGGACGTGACAAGTAAAACTCCGCTAGCCGA
7002530 GGTTATGAGTATGGCTCAAATCGTAACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTATGGCTCAAATCGTAACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
7002595 CTACTTCGCGTCAAAAGGTTGTGGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGGACGTGACAAGTAAAACTCCGCTAGCCGA
7002647 GGTTATGAGTATGGCTCAAATCGTAACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATC
1 GGTTATGAGTATGGCTCAAATCGTAACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCAT-
*
7002712 TCT-CTTCACGTCAAAAGGTT
65 TCTACTTCGCGTCAAAAGGTT
7002732 TAATATATTC
Statistics
Matches: 195, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
117 192 0.98
118 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (117 bp):
GGTTATGAGTATGGCTCAAATCGTAACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:7002781 original size:9 final size:10
Alignment explanation
Indices: 7002769--7002793 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7002759 AATAAAAGTT
7002769 AAAAAAATCA
1 AAAAAAATCA
7002779 AAAAAAATCA
1 AAAAAAATCA
7002789 AAAAA
1 AAAAA
7002794 GAAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:7002806 original size:11 final size:11
Alignment explanation
Indices: 7002788--7002816 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7002778 AAAAAAAATC
7002788 AAAA-AAGAAA
1 AAAATAAGAAA
7002798 AAAATAAGAAA
1 AAAATAAGAAA
7002809 AAAATAAG
1 AAAATAAG
7002817 TACTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (11 bp):
AAAATAAGAAA
Found at i:7003443 original size:27 final size:26
Alignment explanation
Indices: 7003383--7003444 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
7003373 ATTTTATTTT
7003383 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
7003409 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
7003437 ATTTTATT
1 ATTTTATT
7003445 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:7008030 original size:6 final size:6
Alignment explanation
Indices: 7008019--7008056 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
7008009 TAAAAAATAA
7008019 TATATG TATATG TATATG TATATG TATATG TATATG TA
1 TATATG TATATG TATATG TATATG TATATG TATATG TA
7008057 AATAGAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:7015344 original size:21 final size:22
Alignment explanation
Indices: 7015320--7015373 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
7015310 ACATACACGT
7015320 TTTAAAAACTATCGATACTCA-
1 TTTAAAAACTATCGATACTCAG
* *
7015341 TTTAGGAAA-TATTGATACTCAG
1 TTTA-AAAACTATCGATACTCAG
7015363 TTTTAAAAACT
1 -TTTAAAAACT
7015374 CATGCAGCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 15 0.58
22 6 0.23
23 5 0.19
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (22 bp):
TTTAAAAACTATCGATACTCAG
Found at i:7016006 original size:37 final size:37
Alignment explanation
Indices: 7015965--7016040 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
7015955 ACTTGCACAC
7015965 TTGATTTTAAAATTTTTATCCCAAATCAATTTTCAAT
1 TTGATTTTAAAATTTTTATCCCAAATCAATTTTCAAT
7016002 TTGATTTTAAAATTTTTATCCCAAATCAATTTTCAAT
1 TTGATTTTAAAATTTTTATCCCAAATCAATTTTCAAT
7016039 TT
1 TT
7016041 CTTGAAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (37 bp):
TTGATTTTAAAATTTTTATCCCAAATCAATTTTCAAT
Found at i:7018269 original size:22 final size:22
Alignment explanation
Indices: 7018241--7018307 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
7018231 TGCACAAACG
*
7018241 ACAGAGAGCACTAAAGTGCTAT
1 ACAGAGAGCACTAAAGTGCTAA
7018263 ACAGAGAGCA--AAGATGTGCTAA
1 ACAGAGAGCACTAA-A-GTGCTAA
*
7018285 ACAGAGAGCACTTAACGTGCTAA
1 ACAGAGAGCAC-TAAAGTGCTAA
7018308 TAATAGAACG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 2 0.05
21 1 0.03
22 26 0.68
23 7 0.18
25 2 0.05
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (22 bp):
ACAGAGAGCACTAAAGTGCTAA
Found at i:7019490 original size:7 final size:7
Alignment explanation
Indices: 7019480--7019568 Score: 64
Period size: 7 Copynumber: 13.3 Consensus size: 7
7019470 TACTTATGTT
7019480 TTATATA
1 TTATATA
7019487 -T-TATA
1 TTATATA
7019492 TTATATA
1 TTATATA
*
7019499 TAATATA
1 TTATATA
*
7019506 ATA-ATA
1 TTATATA
*
7019512 TGATATA
1 TTATATA
7019519 TTATATA
1 TTATATA
7019526 TTA-ATA
1 TTATATA
*
7019532 CTTAAATA
1 -TTATATA
7019540 TTA-A-A
1 TTATATA
7019545 TTAATATA
1 TT-ATATA
*
7019553 ATATATA
1 TTATATA
*
7019560 ATATATA
1 TTATATA
7019567 TT
1 TT
7019569 TTTATATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 7 0.11
6 11 0.17
7 43 0.65
8 5 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (7 bp):
TTATATA
Found at i:7019517 original size:20 final size:20
Alignment explanation
Indices: 7019489--7019531 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7019479 TTTATATATT
*
7019489 ATATTATATATAATATAATA
1 ATATGATATATAATATAATA
* *
7019509 ATATGATATATTATATATTA
1 ATATGATATATAATATAATA
7019529 ATA
1 ATA
7019532 CTTAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATGATATATAATATAATA
Found at i:7021569 original size:21 final size:19
Alignment explanation
Indices: 7021543--7021587 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
7021533 AAAAAGTATT
7021543 GATACCCATATGATTTTTATC
1 GATACCCAT-T-ATTTTTATC
*
7021564 GATA-CCATTCTTTTTATC
1 GATACCCATTATTTTTATC
7021582 GATACC
1 GATACC
7021588 AAAGTTGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 4 0.18
21 4 0.18
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (19 bp):
GATACCCATTATTTTTATC
Found at i:7024425 original size:16 final size:16
Alignment explanation
Indices: 7024404--7024435 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7024394 AAATTCATTC
7024404 GATTACTTGATGGATG
1 GATTACTTGATGGATG
7024420 GATTACTTGATGGATG
1 GATTACTTGATGGATG
7024436 TACAGATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
GATTACTTGATGGATG
Found at i:7031479 original size:23 final size:25
Alignment explanation
Indices: 7031452--7031501 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
7031442 AAGCTAAGGA
*
7031452 TAATA-TTTATATTATTAAA-ATAT
1 TAATATTTTATACTATTAAATATAT
*
7031475 TAATATTTTGTACTATTAAATATAT
1 TAATATTTTATACTATTAAATATAT
7031500 TA
1 TA
7031502 TAATTATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 12 0.52
25 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTTTATACTATTAAATATAT
Found at i:7033850 original size:22 final size:24
Alignment explanation
Indices: 7033825--7033880 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
7033815 GAAGTAAATT
*
7033825 AGATTTTTT-TTTAA-TGGTTATA
1 AGATTTTTTGTTTAATTGATTATA
7033847 AGATTTTTTTTGTTTAATTGATTATA
1 AGA--TTTTTTGTTTAATTGATTATA
7033873 AGATTTTT
1 AGATTTTT
7033881 GAAATATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 3 0.10
24 11 0.38
25 5 0.17
26 10 0.34
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (24 bp):
AGATTTTTTGTTTAATTGATTATA
Found at i:7033857 original size:26 final size:26
Alignment explanation
Indices: 7033828--7033880 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
7033818 GTAAATTAGA
*
7033828 TTTTTT-TTTAA-TGGTTATAAGATT
1 TTTTTTGTTTAATTGATTATAAGATT
7033852 TTTTTTGTTTAATTGATTATAAGATT
1 TTTTTTGTTTAATTGATTATAAGATT
7033878 TTT
1 TTT
7033881 GAAATATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 6 0.23
25 5 0.19
26 15 0.58
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (26 bp):
TTTTTTGTTTAATTGATTATAAGATT
Found at i:7039002 original size:13 final size:13
Alignment explanation
Indices: 7038986--7039011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7038976 AATATATTAT
7038986 TTTATTAATTTAA
1 TTTATTAATTTAA
7038999 TTTATTAATTTAA
1 TTTATTAATTTAA
7039012 GAGTAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTAATTTAA
Found at i:7054386 original size:25 final size:25
Alignment explanation
Indices: 7054337--7054395 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
7054327 GAGCAGAATT
* *
7054337 GAACAAAACATAGTAGAATAGAACA
1 GAACAGAACATAGTAGAAGAGAACA
*
7054362 TAACAGAACATAGTAGAACGA-AACA
1 GAACAGAACATAGTAGAA-GAGAACA
*
7054387 GAGCAGAAC
1 GAACAGAAC
7054396 TGAATAGAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.10
Consensus pattern (25 bp):
GAACAGAACATAGTAGAAGAGAACA
Found at i:7057926 original size:15 final size:15
Alignment explanation
Indices: 7057906--7057935 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7057896 TTCCAATTCT
*
7057906 TTCTTTTTCTATTGA
1 TTCTTTTTCGATTGA
7057921 TTCTTTTTCGATTGA
1 TTCTTTTTCGATTGA
7057936 GATGTATGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.63
Consensus pattern (15 bp):
TTCTTTTTCGATTGA
Found at i:7067494 original size:3 final size:3
Alignment explanation
Indices: 7067486--7067597 Score: 59
Period size: 3 Copynumber: 37.7 Consensus size: 3
7067476 AATATGATAG
* * * * * * * *
7067486 TAA TAA TAA CAA T-A TAG TAA TAG TAG TAG TAA TAG TGA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * **
7067533 AAA TAA TAG TAA TAA -AGA TAG TTC TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
7067578 TAA TTAA -AA TAA TCA TAA TA
1 TAA -TAA TAA TAA TAA TAA TA
7067598 TAAAATTTGA
Statistics
Matches: 81, Mismatches: 23, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
2 5 0.06
3 72 0.89
4 4 0.05
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:7067502 original size:17 final size:16
Alignment explanation
Indices: 7067464--7067507 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
7067454 ATAAAAATAG
* *
7067464 TATAGTAATGATAATA
1 TATAGTAATAATAAAA
7067480 TGATAGTAATAATAACAA
1 T-ATAGTAATAATAA-AA
7067498 TATAGTAATA
1 TATAGTAATA
7067508 GTAGTAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 21 0.88
18 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (16 bp):
TATAGTAATAATAAAA
Found at i:7067546 original size:6 final size:6
Alignment explanation
Indices: 7067459--7067531 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 6
7067449 AATAGATAAA
* * * *
7067459 AATAGT -ATAGT AAT-GAT AATA-T GATAGT AATAAT AACAAT -ATAGT
1 AATAGT AATAGT AATAG-T AATAGT AATAGT AATAGT AATAGT AATAGT
* *
7067504 AATAGT AGTAGT AATAGT GATAGT AATA
1 AATAGT AATAGT AATAGT AATAGT AATA
7067532 AAAATAATAG
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
5 13 0.25
6 39 0.75
ACGTcount: A:0.49, C:0.01, G:0.16, T:0.33
Consensus pattern (6 bp):
AATAGT
Found at i:7067552 original size:27 final size:27
Alignment explanation
Indices: 7067512--7067574 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
7067502 GTAATAGTAG
**
7067512 TAGTAATAGTGATAGTAATAAAAATAA
1 TAGTAATAAAGATAGTAATAAAAATAA
** *
7067539 TAGTAATAAAGATAGTTCTAATAATAA
1 TAGTAATAAAGATAGTAATAAAAATAA
*
7067566 TAATAATAA
1 TAGTAATAA
7067575 TAATAATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.56, C:0.02, G:0.11, T:0.32
Consensus pattern (27 bp):
TAGTAATAAAGATAGTAATAAAAATAA
Found at i:7067667 original size:12 final size:12
Alignment explanation
Indices: 7067557--7067674 Score: 51
Period size: 12 Copynumber: 9.0 Consensus size: 12
7067547 AAGATAGTTC
*
7067557 TAATAATAATAA
1 TAATAAAAATAA
*
7067569 TAATAATAATAA
1 TAATAAAAATAA
* *
7067581 TTAA-AATAATCA
1 -TAATAAAAATAA
*
7067593 TAATATAAAAT-T
1 TAATA-AAAATAA
*
7067605 TGAAAAAAAATATA
1 T-AATAAAAATA-A
7067619 TATATAAAATATACA
1 TA-ATAAAA-ATA-A
7067634 TAAGTAAATAAATAA
1 TAA-T-AA-AAATAA
*
7067649 TGAAATACAAATAA
1 T--AATAAAAATAA
7067663 TAATAAAAATAA
1 TAATAAAAATAA
7067675 ACAAACCAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 26
0.71 0.08 0.22
Matches are distributed among these distances:
11 3 0.04
12 36 0.43
13 11 0.13
14 14 0.17
15 10 0.12
16 6 0.07
17 4 0.05
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (12 bp):
TAATAAAAATAA
Found at i:7067798 original size:3 final size:3
Alignment explanation
Indices: 7067792--7067898 Score: 67
Period size: 3 Copynumber: 35.0 Consensus size: 3
7067782 ATGGTAAAAC
** **
7067792 ATA ATA ATA ATA AT- ATGA ATA ATA ATA ACG ATA ATAA ATA ATA GCA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * *
7067838 AGA ATA ATA ATA GTA ATG ATA ATA GA-A GATA ATA ATA GTA CT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA
7067883 ATAA ATA ATA ATA ATA
1 AT-A ATA ATA ATA ATA
7067899 GATTAAATTA
Statistics
Matches: 81, Mismatches: 16, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
2 3 0.04
3 68 0.84
4 10 0.12
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:7067843 original size:31 final size:30
Alignment explanation
Indices: 7067792--7067892 Score: 90
Period size: 31 Copynumber: 3.4 Consensus size: 30
7067782 ATGGTAAAAC
7067792 ATAAT-AATAATA-ATATGAATAATAATAACG
1 ATAATAAATAATAGA-A-GAATAATAATAACG
7067822 ATAATAAATAATAGCAAGAATAATAAT-A-G
1 ATAATAAATAATAG-AAGAATAATAATAACG
* *
7067851 -TAAT-GATAATAGAAG-ATAATAATAGTACT
1 ATAATAAATAATAGAAGAATAATAATA--ACG
7067880 ATAATAAATAATA
1 ATAATAAATAATA
7067893 ATAATAGATT
Statistics
Matches: 59, Mismatches: 3, Indels: 17
0.75 0.04 0.22
Matches are distributed among these distances:
25 8 0.14
26 3 0.05
27 7 0.12
28 5 0.08
29 1 0.02
30 10 0.17
31 23 0.39
32 1 0.02
33 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (30 bp):
ATAATAAATAATAGAAGAATAATAATAACG
Found at i:7075081 original size:32 final size:33
Alignment explanation
Indices: 7075040--7075115 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 33
7075030 GAGTGGGGTT
*
7075040 TATAATATATATATGCGTGTATGGGTGTTATA-
1 TATAATATATATATGCGTGCATGGGTGTTATAG
* *
7075072 TATAATATATATTTGGGTGCATGGGTGTTATATG
1 TATAATATATATATGCGTGCATGGGTGTTATA-G
7075106 TATAATATAT
1 TATAATATAT
7075116 CTGCGTGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
32 29 0.74
34 10 0.26
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (33 bp):
TATAATATATATATGCGTGCATGGGTGTTATAG
Found at i:7076178 original size:17 final size:17
Alignment explanation
Indices: 7076158--7076238 Score: 58
Period size: 17 Copynumber: 4.8 Consensus size: 17
7076148 ATGATGAAGC
7076158 ATGAACTGTTATTCGGT
1 ATGAACTGTTATTCGGT
* *
7076175 ATGAACTGATATTTC-AT
1 ATGAACTGTTA-TTCGGT
* * *
7076192 ATGAACTATTATTCTGC
1 ATGAACTGTTATTCGGT
* * *
7076209 ATGAGCTGTCATTTGGT
1 ATGAACTGTTATTCGGT
7076226 -TAGAACTGTTATT
1 AT-GAACTGTTATT
7076239 TCATATGAAC
Statistics
Matches: 47, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
16 4 0.09
17 40 0.85
18 3 0.06
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (17 bp):
ATGAACTGTTATTCGGT
Found at i:7076248 original size:17 final size:17
Alignment explanation
Indices: 7076158--7076248 Score: 55
Period size: 17 Copynumber: 5.4 Consensus size: 17
7076148 ATGATGAAGC
*
7076158 ATGAACTGTTA-TTCGGT
1 ATGAACTGTTATTTC-AT
*
7076175 ATGAACTGATATTTCAT
1 ATGAACTGTTATTTCAT
*
7076192 ATGAACTATTA-TTC-T
1 ATGAACTGTTATTTCAT
* * **
7076207 GCATGAGCTGTCATTTGGT
1 --ATGAACTGTTATTTCAT
7076226 -TAGAACTGTTATTTCAT
1 AT-GAACTGTTATTTCAT
7076243 ATGAAC
1 ATGAAC
7076249 AGATGTTTGG
Statistics
Matches: 55, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
15 1 0.02
16 4 0.07
17 43 0.78
18 6 0.11
19 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.41
Consensus pattern (17 bp):
ATGAACTGTTATTTCAT
Found at i:7077663 original size:68 final size:69
Alignment explanation
Indices: 7077591--7077722 Score: 176
Period size: 68 Copynumber: 1.9 Consensus size: 69
7077581 TTTAATAGTT
* * * * * *
7077591 TTAATATTAAATTTAATTTACTACCTATCTTAAT-AGTGTTTTATTAATTTAATATTATAGTGAT
1 TTAATATTAAATATAATCTAATACCTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
7077655 TATC
66 TATC
** *
7077659 TTAATATTAAATATAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGA
1 TTAATATTAAATATAATCTAATACCTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGA
7077723 GTAAGTTTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
68 28 0.52
69 26 0.48
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.49
Consensus pattern (69 bp):
TTAATATTAAATATAATCTAATACCTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:7079834 original size:51 final size:51
Alignment explanation
Indices: 7079758--7079877 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
7079748 CTCAAACTTA
* *
7079758 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* * *
7079809 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
*
7079860 CTTCATATTTTATCCGGA
1 CTTCATATTTCATCCGGA
7079878 TAACTTAGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:7085647 original size:17 final size:16
Alignment explanation
Indices: 7085627--7085667 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
7085617 TTTTCAAAGG
7085627 CCCAAATTAACCCTAAA
1 CCCAAATTAACCCT-AA
**
7085644 CCCAAACAAACCCTAA
1 CCCAAATTAACCCTAA
7085660 CCCAAATT
1 CCCAAATT
7085668 GGCCCAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (16 bp):
CCCAAATTAACCCTAA
Found at i:7087537 original size:17 final size:18
Alignment explanation
Indices: 7087497--7087537 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
7087487 TTGTAATTTA
7087497 TTTGTATAATATTTCATC
1 TTTGTATAATATTTCATC
* *
7087515 TATGTATAA-ATTTCATG
1 TTTGTATAATATTTCATC
7087532 TTTGTA
1 TTTGTA
7087538 ACTTTGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (18 bp):
TTTGTATAATATTTCATC
Found at i:7090227 original size:23 final size:23
Alignment explanation
Indices: 7090193--7090274 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
7090183 TGGCTATCCA
* *
7090193 GAGCTTCCCGATAGGCTCTTTGC
1 GAGCTTCTCGATAGGCTCTTTGT
* *
7090216 GAGCTTTTCGATAGGCTTTTTGT
1 GAGCTTCTCGATAGGCTCTTTGT
* * *
7090239 AAGCTTCCCGATAGGCTCTTCGT
1 GAGCTTCTCGATAGGCTCTTTGT
7090262 GAGCTTCTCGATA
1 GAGCTTCTCGATA
7090275 TGATTCCTTG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.35
Consensus pattern (23 bp):
GAGCTTCTCGATAGGCTCTTTGT
Found at i:7092822 original size:21 final size:22
Alignment explanation
Indices: 7092798--7092838 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
7092788 TCCCTTCAGT
7092798 GGTATCGCGATATCC-CCTCTA
1 GGTATCGCGATATCCACCTCTA
7092819 GGTATCGCGATATCCACCTC
1 GGTATCGCGATATCCACCTC
7092839 CCAAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.27
Consensus pattern (22 bp):
GGTATCGCGATATCCACCTCTA
Found at i:7093099 original size:11 final size:11
Alignment explanation
Indices: 7093085--7093147 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
7093075 TTTTAGGTTA
7093085 GTTTTCTTTAG
1 GTTTTCTTTAG
7093096 GTTTTCTTTAG
1 GTTTTCTTTAG
* * *
7093107 TTTTTCTGTAC
1 GTTTTCTTTAG
* *
7093118 ATTTT-TCTAG
1 GTTTTCTTTAG
*
7093128 G-GTTCTTTAG
1 GTTTTCTTTAG
7093138 GTTTTCTTTA
1 GTTTTCTTTA
7093148 CTTATTGTTC
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
9 2 0.05
10 8 0.20
11 30 0.75
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.62
Consensus pattern (11 bp):
GTTTTCTTTAG
Found at i:7094987 original size:16 final size:19
Alignment explanation
Indices: 7094955--7094992 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
7094945 GCAATTATAA
7094955 TTAAGTTGAGAAAATT-AT
1 TTAAGTTGAGAAAATTAAT
7094973 TTAA-TTGAG-AAATTAAT
1 TTAAGTTGAGAAAATTAAT
7094990 TTA
1 TTA
7094993 GTTAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 10 0.53
18 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (19 bp):
TTAAGTTGAGAAAATTAAT
Found at i:7094999 original size:9 final size:9
Alignment explanation
Indices: 7094983--7095023 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
7094973 TTAATTGAGA
7094983 AATTAATTT
1 AATTAATTT
*
7094992 AGTTAATTT
1 AATTAATTT
7095001 AATTAATTT
1 AATTAATTT
7095010 AATTAATTT
1 AATTAATTT
7095019 -ATTAA
1 AATTAA
7095024 ATGATATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 5 0.17
9 25 0.83
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
AATTAATTT
Found at i:7095743 original size:21 final size:20
Alignment explanation
Indices: 7095678--7095743 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
7095668 AAACGCCGCT
* *
7095678 AAAAGTCATAAAAATTTAAA
1 AAAAGTCTTAAAAATATAAA
* * * *
7095698 AAAAATATTATAAAATATTAT
1 AAAAGTCTTA-AAAATATAAA
7095719 AAAAGTCTTGAAAAATATAAA
1 AAAAGTCTT-AAAAATATAAA
7095740 AAAA
1 AAAA
7095744 ATTAAAATTC
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
20 7 0.21
21 26 0.76
22 1 0.03
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAGTCTTAAAAATATAAA
Found at i:7095864 original size:16 final size:16
Alignment explanation
Indices: 7095839--7095869 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7095829 ACTACACCAG
*
7095839 AAATATAACAAAATAC
1 AAATAGAACAAAATAC
7095855 AAATAGAACAAAATA
1 AAATAGAACAAAATA
7095870 ATGATAGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.03, T:0.16
Consensus pattern (16 bp):
AAATAGAACAAAATAC
Found at i:7096359 original size:12 final size:12
Alignment explanation
Indices: 7096342--7096374 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
7096332 TTGAAGAACC
7096342 ATTAATCATGTT
1 ATTAATCATGTT
7096354 ATTAATCATGTT
1 ATTAATCATGTT
7096366 ATTAATCAT
1 ATTAATCAT
7096375 ATATGCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (12 bp):
ATTAATCATGTT
Found at i:7102268 original size:15 final size:15
Alignment explanation
Indices: 7102221--7102269 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
7102211 CCCCTATCAC
*
7102221 CACCTCTTCCACCAC
1 CACCTCTTCCACCAT
* *
7102236 CTCCTCTTCC-TC-T
1 CACCTCTTCCACCAT
7102249 C-CCTCTTCCACCAT
1 CACCTCTTCCACCAT
7102263 CACCTCT
1 CACCTCT
7102270 GCCCCTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 3 0.11
15 14 0.52
ACGTcount: A:0.12, C:0.57, G:0.00, T:0.31
Consensus pattern (15 bp):
CACCTCTTCCACCAT
Found at i:7103369 original size:7 final size:7
Alignment explanation
Indices: 7103357--7103485 Score: 50
Period size: 7 Copynumber: 18.1 Consensus size: 7
7103347 ACTAATCAAT
7103357 CTAAACC
1 CTAAACC
7103364 CTAAACC
1 CTAAACC
* *
7103371 TTTTAACCC
1 --CTAAACC
*
7103380 CT-ATCC
1 CTAAACC
*
7103386 CATAAACA
1 C-TAAACC
*
7103394 CTAAACT
1 CTAAACC
7103401 CTAAACC
1 CTAAACC
* *
7103408 CTTAACG
1 CTAAACC
*
7103415 CTTAACC
1 CTAAACC
*
7103422 CCAAACC
1 CTAAACC
*
7103429 CTTATACC
1 C-TAAACC
*
7103437 TTAAACTC
1 CTAAAC-C
7103445 C--AACC
1 CTAAACC
7103450 CT-AACC
1 CTAAACC
7103456 CTTAAACC
1 C-TAAACC
*
7103464 CTAAATC
1 CTAAACC
* *
7103471 ATAATCC
1 CTAAACC
7103478 CTAAACC
1 CTAAACC
7103485 C
1 C
7103486 ATAATTCATC
Statistics
Matches: 89, Mismatches: 24, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
5 2 0.02
6 12 0.13
7 57 0.64
8 13 0.15
9 5 0.06
ACGTcount: A:0.37, C:0.39, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:7103449 original size:21 final size:21
Alignment explanation
Indices: 7103395--7103462 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
7103385 CCATAAACAC
*
7103395 TAAACTCTAAACCCTTAACGCT
1 TAAACTC-CAACCCTTAACGCT
*
7103417 T-AACCCCAAACCCTTATAC-CT
1 TAAACTCC-AACCCTTA-ACGCT
*
7103438 TAAACTCCAACCC-TAACCCT
1 TAAACTCCAACCCTTAACGCT
7103458 TAAAC
1 TAAAC
7103463 CCTAAATCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.05
20 9 0.23
21 20 0.51
22 8 0.21
ACGTcount: A:0.37, C:0.38, G:0.01, T:0.24
Consensus pattern (21 bp):
TAAACTCCAACCCTTAACGCT
Found at i:7103554 original size:21 final size:21
Alignment explanation
Indices: 7103528--7103612 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
7103518 ACTCTTAAAC
*
7103528 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
7103549 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
7103574 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
7103595 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
7103613 AACTATAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 32 0.60
22 3 0.06
24 3 0.06
25 15 0.28
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:7103555 original size:46 final size:46
Alignment explanation
Indices: 7103504--7103605 Score: 179
Period size: 46 Copynumber: 2.2 Consensus size: 46
7103494 TCATAAACCT
*
7103504 TTAAA-CACTAGTTAACTCTTAAACCTTAAACCCTAAACCATATATC
1 TTAAACCA-TAGTTAACTCATAAACCTTAAACCCTAAACCATATATC
7103550 TTAAACCATAGTTAACTCATAAACCTTAAACCCTAAACCATATATC
1 TTAAACCATAGTTAACTCATAAACCTTAAACCCTAAACCATATATC
7103596 TTAAACCATA
1 TTAAACCATA
7103606 AACCATAAAC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
46 52 0.96
47 2 0.04
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.29
Consensus pattern (46 bp):
TTAAACCATAGTTAACTCATAAACCTTAAACCCTAAACCATATATC
Found at i:7103577 original size:25 final size:25
Alignment explanation
Indices: 7103494--7103581 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
7103484 CCATAATTCA
7103494 TCATAAACCTTTAAA-CACTAGTTAAC
1 TCATAAACC-TTAAACCA-TAGTTAAC
* *
7103520 TCTTAAACCTTAAACCCTA---AAC
1 TCATAAACCTTAAACCATAGTTAAC
* *
7103542 -CATATATCTTAAACCATAGTTAAC
1 TCATAAACCTTAAACCATAGTTAAC
7103566 TCATAAACCTTAAACC
1 TCATAAACCTTAAACC
7103582 CTAAACCATA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
21 14 0.29
22 3 0.06
24 3 0.06
25 20 0.41
26 9 0.18
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (25 bp):
TCATAAACCTTAAACCATAGTTAAC
Found at i:7103620 original size:7 final size:7
Alignment explanation
Indices: 7103523--7103620 Score: 61
Period size: 7 Copynumber: 13.4 Consensus size: 7
7103513 AGTTAACTCT
*
7103523 TAAACCT
1 TAAACCA
*
7103530 TAAACCC
1 TAAACCA
7103537 TAAACCA
1 TAAACCA
* * *
7103544 TATATCT
1 TAAACCA
7103551 TAAACCA
1 TAAACCA
7103558 TAGTTAACTCA
1 TA---AAC-CA
*
7103569 TAAACCT
1 TAAACCA
*
7103576 TAAACCC
1 TAAACCA
7103583 TAAACCA
1 TAAACCA
* * *
7103590 TATATCT
1 TAAACCA
7103597 TAAACCA
1 TAAACCA
7103604 TAAACCA
1 TAAACCA
*
7103611 TAAACTA
1 TAAACCA
7103618 TAA
1 TAA
7103621 TGATAATTAA
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
7 59 0.86
8 3 0.04
10 3 0.04
11 4 0.06
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.27
Consensus pattern (7 bp):
TAAACCA
Found at i:7103952 original size:40 final size:40
Alignment explanation
Indices: 7103754--7103931 Score: 223
Period size: 41 Copynumber: 4.4 Consensus size: 40
7103744 GTTATATGAC
* *
7103754 TTTTAGTGGCGTTTTGCGAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-GT
**
7103795 TTTTAGCGGCGTTTTGCCAAAAGCGTTGCTAATGCTCTGTT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTG-T
7103836 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
* * * * *
7103876 TTTTCGCGGCATTTTTTACTAAAA-CGCCGCTATTGCTCTGT
1 TTTTAGCGGC--GTTTTGCCAAAAGCGCCGCTAATGCTCTGT
*
7103917 TTTTAGTGGCGTTTT
1 TTTTAGCGGCGTTTT
7103932 TGGTAAAACG
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
39 4 0.03
40 11 0.09
41 96 0.80
42 9 0.08
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
Found at i:7106705 original size:36 final size:33
Alignment explanation
Indices: 7106649--7106714 Score: 80
Period size: 36 Copynumber: 1.9 Consensus size: 33
7106639 CATATTTCAA
7106649 TTATTATTATTAATTAATTTT-AAACTATACATT
1 TTATTATTATTAATTAATTTTCAAA-TATACATT
*
7106682 TTATTATTTATTATATGTCATTTTCAAATATAC
1 TTATTA-TTATTA-AT-TAATTTTCAAATATAC
7106715 TTTAACATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 6 0.21
34 6 0.21
35 2 0.07
36 11 0.39
37 3 0.11
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.55
Consensus pattern (33 bp):
TTATTATTATTAATTAATTTTCAAATATACATT
Found at i:7107711 original size:12 final size:12
Alignment explanation
Indices: 7107694--7107719 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7107684 AACTCTCTCT
7107694 CTCGCTCGTTCG
1 CTCGCTCGTTCG
7107706 CTCGCTCGTTCG
1 CTCGCTCGTTCG
7107718 CT
1 CT
7107720 TGTTCCTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.42, G:0.23, T:0.35
Consensus pattern (12 bp):
CTCGCTCGTTCG
Found at i:7109666 original size:43 final size:43
Alignment explanation
Indices: 7109605--7109690 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
7109595 GTTTTGTAGG
7109605 TCTCAAAAATAAGTATTAATATACTTATGTTCATCTAATCTTT
1 TCTCAAAAATAAGTATTAATATACTTATGTTCATCTAATCTTT
7109648 TCTCAAAAATAAGTATTAATATACTTATGTTCATCTAATCTTT
1 TCTCAAAAATAAGTATTAATATACTTATGTTCATCTAATCTTT
7109691 ACTTTGTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (43 bp):
TCTCAAAAATAAGTATTAATATACTTATGTTCATCTAATCTTT
Found at i:7110695 original size:32 final size:33
Alignment explanation
Indices: 7110652--7110731 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 33
7110642 TTGTCTTGAT
*
7110652 GGAACTGTTGCTTACTGT-TGAGT-TTCTTCCAG
1 GGAACTGTTGCTTACTGTCTGA-TCATCTTCCAG
* * *
7110684 GTAACTGTTGCTTA-TTTCTTATCATCTTCCAG
1 GGAACTGTTGCTTACTGTCTGATCATCTTCCAG
7110716 GGAACTGTTGCTTACT
1 GGAACTGTTGCTTACT
7110732 ACTTACTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 3 0.08
32 36 0.90
33 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (33 bp):
GGAACTGTTGCTTACTGTCTGATCATCTTCCAG
Found at i:7112746 original size:13 final size:14
Alignment explanation
Indices: 7112719--7112747 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7112709 GTAAACTCTT
7112719 AAGCGAATAAGAAA
1 AAGCGAATAAGAAA
7112733 AAGCGAAT-AGAAA
1 AAGCGAATAAGAAA
7112746 AA
1 AA
7112748 TCATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (14 bp):
AAGCGAATAAGAAA
Found at i:7137623 original size:26 final size:26
Alignment explanation
Indices: 7137587--7137655 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
7137577 CTCAATAGAA
*
7137587 CTTACTATCCATCAGCTCAGGAGGAG
1 CTTACTGTCCATCAGCTCAGGAGGAG
*
7137613 CTTACTGTCCATCAGCTCGGGAGGAG
1 CTTACTGTCCATCAGCTCAGGAGGAG
*
7137639 CTTACTGTTCAT-AGCTC
1 CTTACTGTCCATCAGCTC
7137656 GAAAGAGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 5 0.12
26 35 0.88
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTACTGTCCATCAGCTCAGGAGGAG
Found at i:7140384 original size:43 final size:43
Alignment explanation
Indices: 7140328--7140447 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
7140318 ACTGAGATGT
* * *
7140328 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T-ATT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATC
* * * *
7140369 GTAATTACGTTTAAGACCATGTTTGGGGCATTAGCATCGTTAATC
1 G--ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATC
* *
7140414 GATTACGTGTAAGACCTTGTCTGGGACAGTGGCA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCA
7140448 CTGATATGTG
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.02
43 57 0.92
44 1 0.02
45 3 0.05
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATC
Found at i:7166240 original size:21 final size:22
Alignment explanation
Indices: 7166216--7166260 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
7166206 TATTTAACCC
*
7166216 AAAATAAATTGGATTA-AAATT
1 AAAATAAATTAGATTATAAATT
* *
7166237 AAAATTAATTATATTATAAATT
1 AAAATAAATTAGATTATAAATT
7166259 AA
1 AA
7166261 TATTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAGATTATAAATT
Found at i:7167361 original size:324 final size:328
Alignment explanation
Indices: 7166756--7167406 Score: 1044
Period size: 324 Copynumber: 2.0 Consensus size: 328
7166746 TCTTGATGAA
* * * *
7166756 GGTTTGAAGATTATTGATGCAAGATTCAACAATTCGATGGAAGAATGATTTAGTTGAGACTTGAT
1 GGTTTGAAGATTATTGATGAAAGATTCAACAATTCGAGGGAAGAATGATTTAATCGAGACTTGAT
* *
7166821 TTCAATTTAGGATTTAAAAGATTAATTTTCCAGCAATGAAGGTAAAATATTTTATAAAAAGAAAA
66 TTCAATTTAGGATTCAAAAGATTAATTTTCCAGCAATGAAGGCAAAATATTTTATAAAAAGAAAA
* *
7166886 GAGGGAAAATAAAAGAAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGATGGAA
131 GAGAGAAAAT--AAGAAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGATGAAA
* *
7166951 AGGATTCAAAATCATAGTATAAGTAGGGGAAGTTAATAAATTCCTAGGTTTTCAAAATTGGAGGG
194 AGGATTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAAGTTTTCAAAATTGGAGGG
* * *
7167016 TTGATTGGGAAAATAACCCATCTACTAAAAATTAAGAAAATGAGAGGGGGAATGGCACGCTTTGA
259 ATGATTAGGAAAATAACCCATCTACCAAAAATTAAGAAAATGAGAGGGGGAATGGCACGCTTTGA
7167081 ACATG
324 ACATG
*
7167086 GGTTTGAAGA-TATTGATGAAAGATTCAACAATTC-AGGGGAAGAATGATTTAATCGGGACTTGA
1 GGTTTGAAGATTATTGATGAAAGATTCAACAATTCGA-GGGAAGAATGATTTAATCGAGACTTGA
7167149 TTTCAATTTAGGATTCAAAAGATTAAGTTTT-CAGCAATGAAGGCAAAATATTTTAT-AAAAGAA
65 TTTCAATTTAGGATTCAAAAGATTAA-TTTTCCAGCAATGAAGGCAAAATATTTTATAAAAAGAA
* *
7167212 GAGAGAGAAAAT-A-AAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGTTGAAA
129 AAGAGAGAAAATAAGAAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGATGAAA
7167275 AGGATTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAAGTTTTCAAAATTGGAGGG
194 AGGATTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAAGTTTTCAAAATTGGAGGG
* * * *
7167340 ATGATTAGGCAAATAACCCATCTACCGAAAATTAAGAAAATGGGAGGGGGAATGGCATGCTTTGA
259 ATGATTAGGAAAATAACCCATCTACCAAAAATTAAGAAAATGAGAGGGGGAATGGCACGCTTTGA
7167405 AC
324 AC
7167407 CTAGAAGCAA
Statistics
Matches: 299, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
324 171 0.57
325 1 0.00
328 18 0.06
329 95 0.32
330 14 0.05
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.27
Consensus pattern (328 bp):
GGTTTGAAGATTATTGATGAAAGATTCAACAATTCGAGGGAAGAATGATTTAATCGAGACTTGAT
TTCAATTTAGGATTCAAAAGATTAATTTTCCAGCAATGAAGGCAAAATATTTTATAAAAAGAAAA
GAGAGAAAATAAGAAAGAAAGGATTTTAAAGAGAAGAGAAAAGAATTCAATTTAGGGATGAAAAG
GATTCAAAATCATAGTATAACTAGGGGAAGTTAATAAATTCCTAAGTTTTCAAAATTGGAGGGAT
GATTAGGAAAATAACCCATCTACCAAAAATTAAGAAAATGAGAGGGGGAATGGCACGCTTTGAAC
ATG
Found at i:7167647 original size:15 final size:16
Alignment explanation
Indices: 7167622--7167654 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
7167612 TTAATGTAAC
7167622 AAATATTTTAATATGT
1 AAATATTTTAATATGT
7167638 AAAT-TTTTAATATGT
1 AAATATTTTAATATGT
7167653 AA
1 AA
7167655 TATAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
AAATATTTTAATATGT
Found at i:7169635 original size:87 final size:86
Alignment explanation
Indices: 7169518--7169689 Score: 247
Period size: 87 Copynumber: 2.0 Consensus size: 86
7169508 GCCCCTCCTT
* * *
7169518 TTTTTTTTGCACTCAATTGAGAACTTGAACTTTCAAAATACATCAAAAAGGCCCTCAAACTTCTT
1 TTTTTTTTGCACTCAATTGAGAACTTGAACTTTCAAAATACATAAAAAAGACCCTCAAAATTCTT
7169583 CAAAAAAAAGCAATTAAACCCCA
66 C--AAAAAAGCAATTAAACCCCA
* * * *
7169606 TTTTTTTT-CACTCAATTGGGTACTTGAACTTTCAAAATATATAAAAAAGACCCTCAAAATTTTT
1 TTTTTTTTGCACTCAATTGAGAACTTGAACTTTCAAAATACATAAAAAAGACCCTCAAAATTCTT
*
7169670 CAAAAAAGCAATTAAGCCCC
66 CAAAAAAGCAATTAAACCCC
7169690 TGCTCTTAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
85 18 0.24
87 50 0.66
88 8 0.11
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (86 bp):
TTTTTTTTGCACTCAATTGAGAACTTGAACTTTCAAAATACATAAAAAAGACCCTCAAAATTCTT
CAAAAAAGCAATTAAACCCCA
Found at i:7170178 original size:23 final size:21
Alignment explanation
Indices: 7170127--7170182 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
7170117 TATAAAAAAA
7170127 TTACAATTTTT-TATATATTT
1 TTACAATTTTTATATATATTT
*
7170147 TTACGATTTTTATATATATATT
1 TTACAATTTTTATATATAT-TT
*
7170169 TTTCTAATTTTTAT
1 TTAC-AATTTTTAT
7170183 TATTTGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.33
21 7 0.23
22 5 0.17
23 8 0.27
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (21 bp):
TTACAATTTTTATATATATTT
Found at i:7170255 original size:47 final size:47
Alignment explanation
Indices: 7170152--7170258 Score: 110
Period size: 47 Copynumber: 2.2 Consensus size: 47
7170142 TATTTTTACG
* *
7170152 ATTTTTATATATATATTTTTCTAATTTTTATTATTTGAATTTTTTATTA
1 ATTTTTA-ATA-ATATTTATCTAATTTTAATTATTTGAATTTTTTATTA
** * *
7170201 AAATTTAATAATATTTAT-TGATTTTAATTTTTTGTAATTTTTT-TCTA
1 ATTTTTAATAATATTTATCTAATTTTAATTATTTG-AATTTTTTAT-TA
7170248 ATTTTTAATAA
1 ATTTTTAATAA
7170259 GAGTAGGGGC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
46 14 0.29
47 26 0.54
48 3 0.06
49 5 0.10
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (47 bp):
ATTTTTAATAATATTTATCTAATTTTAATTATTTGAATTTTTTATTA
Found at i:7177743 original size:13 final size:13
Alignment explanation
Indices: 7177725--7177749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7177715 GTCCTGGTGA
7177725 TCTAGTAAAACAC
1 TCTAGTAAAACAC
7177738 TCTAGTAAAACA
1 TCTAGTAAAACA
7177750 AAAGTTTCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
TCTAGTAAAACAC
Found at i:7180550 original size:112 final size:112
Alignment explanation
Indices: 7180429--7180643 Score: 376
Period size: 112 Copynumber: 1.9 Consensus size: 112
7180419 GCCTAACCTT
*
7180429 CTTTTTTTTGGCCTAATAACAAATTCAACCTTCCAATATTTCTAATTTTATTAATTTGATCCTAA
1 CTTTTTTTTGGCCTAATAACAAATTCAACCTTCAAATATTTCTAATTTTATTAATTTGATCCTAA
* *
7180494 ATCTAAAGAAATCAACGAATTTAGCCCTTAATGTTTTATATAGTTCA
66 ATCTAAAGAAACCAAAGAATTTAGCCCTTAATGTTTTATATAGTTCA
* *
7180541 CTTTTTTTTGGCCTAATAACAAATTTAACCTTCAAATATTTCTAATTTTATTAATTTGATCCTAC
1 CTTTTTTTTGGCCTAATAACAAATTCAACCTTCAAATATTTCTAATTTTATTAATTTGATCCTAA
*
7180606 ATCTAAAGCAACCAAAGAATTTAGCCCTTAATGTTTTA
66 ATCTAAAGAAACCAAAGAATTTAGCCCTTAATGTTTTA
7180644 ATTCTAATTC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
112 97 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (112 bp):
CTTTTTTTTGGCCTAATAACAAATTCAACCTTCAAATATTTCTAATTTTATTAATTTGATCCTAA
ATCTAAAGAAACCAAAGAATTTAGCCCTTAATGTTTTATATAGTTCA
Found at i:7180966 original size:61 final size:62
Alignment explanation
Indices: 7180870--7181035 Score: 176
Period size: 61 Copynumber: 2.7 Consensus size: 62
7180860 GAATTAAAAT
* * ** * * *
7180870 TAAATTGACAAATTTTGTAATTGTTGAGTGATAAATTTATT-GAGTTTTTTAACATTTAA-AC
1 TAAATTGACAAATTTTGTAAATATTGAAAGTTAAATTTATTAAACTTTTTT-ACATTTAAGAC
* * *
7180931 TACAA-TGACAAATTTTGTAAATATTGAAAGTTAAATTTGTTAAACTTTTTTATATTTAAGAT
1 TA-AATTGACAAATTTTGTAAATATTGAAAGTTAAATTTATTAAACTTTTTTACATTTAAGAC
* *
7180993 TAAATTGATAAATTGTGTAAATATTGAAAAGTTAAATTTATTA
1 TAAATTGACAAATTTTGTAAATATTG-AAAGTTAAATTTATTA
7181036 TTAGATCAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
61 41 0.47
62 31 0.36
63 15 0.17
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (62 bp):
TAAATTGACAAATTTTGTAAATATTGAAAGTTAAATTTATTAAACTTTTTTACATTTAAGAC
Found at i:7181512 original size:13 final size:13
Alignment explanation
Indices: 7181494--7181519 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7181484 CTAAAAAAAA
7181494 CATCATCTAATTT
1 CATCATCTAATTT
7181507 CATCATCTAATTT
1 CATCATCTAATTT
7181520 AAATATAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
CATCATCTAATTT
Found at i:7187846 original size:12 final size:13
Alignment explanation
Indices: 7187831--7187859 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7187821 ATATATTTTT
7187831 ATATAAAAAA-TA
1 ATATAAAAAATTA
7187843 ATATAAAAAATTA
1 ATATAAAAAATTA
7187856 ATAT
1 ATAT
7187860 GGACGGACCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:7189088 original size:99 final size:99
Alignment explanation
Indices: 7188908--7189091 Score: 257
Period size: 99 Copynumber: 1.9 Consensus size: 99
7188898 AAGCAAAGCC
* *
7188908 ATGGAAGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCTAGTTATAGGAAATCG
1 ATGGAAGTGGAAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCGAGTTATAGGAAATCG
* **
7188973 AGTTATGATAGATCAGATGAAAGAGAAGAAGGAT
66 AGTGACAATAGATCAGATGAAAGAGAAGAAGGAT
* *
7189007 ATGGAGGTGGAAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAGTCGAGTTATAGAAGAAAT
1 ATGGAAGTGGAAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCGAGTTATAG--GAAAT
7189072 -G-GTGACAAT-GATTCAGATGA
64 CGAGTGACAATAGA-TCAGATGA
7189092 TGAAAGGAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
98 2 0.03
99 67 0.89
100 1 0.01
101 5 0.07
ACGTcount: A:0.41, C:0.04, G:0.33, T:0.21
Consensus pattern (99 bp):
ATGGAAGTGGAAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCGAGTTATAGGAAATCG
AGTGACAATAGATCAGATGAAAGAGAAGAAGGAT
Found at i:7192473 original size:18 final size:18
Alignment explanation
Indices: 7192450--7192485 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7192440 TCTTTTACAA
7192450 ATATATATATATAATCAT
1 ATATATATATATAATCAT
*
7192468 ATATATATATATAGTCAT
1 ATATATATATATAATCAT
7192486 TATCAGTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (18 bp):
ATATATATATATAATCAT
Found at i:7194169 original size:81 final size:82
Alignment explanation
Indices: 7194077--7194280 Score: 193
Period size: 82 Copynumber: 2.5 Consensus size: 82
7194067 AATATTATAC
* * * *
7194077 ATTAGCGGCGTTTGAACCA-AAACGCCACTATAAGTC-GAGAAAT-AGCAACA-TTTTCGGAAAA
1 ATTAGCGGCGTTT-AACAAGAAACGCCACCAAAAGTCTGAGAAATCA-CAACATTTTTC-CAAAA
7194138 ACGCCGCCAAAAGTCTGAGA
63 ACGCCGCCAAAAGTCTGAGA
** ** * *
7194158 ATTAGCGGCGTTTTTCAAGAAACGCTGCCAAAAGTCTGAGAATTCACGACATTTTTCCAAAAACG
1 ATTAGCGGCGTTTAACAAGAAACGCCACCAAAAGTCTGAGAAATCACAACATTTTTCCAAAAACG
*
7194223 CCGCCAAAAGTCTGAGC
66 CCGCCAAAAGTCTGAGA
* * * *
7194240 ATTAGCGGCATTTTTTAGAA-AAACGCCGCCAAAAGTCTGAG
1 ATTAGCGGC--GTTTAACAAGAAACGCCACCAAAAGTCTGAG
7194281 CATCTAAAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
80 2 0.02
81 26 0.25
82 42 0.41
83 26 0.25
84 6 0.06
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (82 bp):
ATTAGCGGCGTTTAACAAGAAACGCCACCAAAAGTCTGAGAAATCACAACATTTTTCCAAAAACG
CCGCCAAAAGTCTGAGA
Found at i:7194181 original size:41 final size:40
Alignment explanation
Indices: 7194134--7194617 Score: 355
Period size: 41 Copynumber: 12.1 Consensus size: 40
7194124 ACATTTTCGG
*
7194134 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCGTTTTTC
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCATTTTTC
* *
7194174 AAGAAACGCTGCCAAAAGTCTGAGAATTCA-CGACATTTTTCC
1 AA-AAACGCCGCCAAAAGTCTGAGAATT-AGCGGCATTTTT-C
* *
7194216 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCATTTTTTAG
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCA-TTTTT-C
*
7194258 AAAAACGCCGCCAAAAGTCT--G----A---GCA--TCT-
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCATTTTTC
* * ** * *
7194286 AAAAATGCCGCCAAAGGTCTGAGCGTTAACGGCGTTTTTTAC
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGC-ATTTTT-C
* * * * *
7194328 CAAAACGCCGCCAAAGGTCTGAGCATTAGCGGCGTTTTTGG
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCATTTTT-C
* * * * * **
7194369 AAAAGCGACGCTAAAAGTCTGAGCATTAGCGGCGTTGTTGG
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCATT-TTTC
* * * * **
7194410 AAAAATGCCGCTAAAAGTCTGAGCATTAGCGGCGTTGTTGG
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCATT-TTTC
* * * *
7194451 AAAAACGCCGCCAAAAGTCTGAGCATTTGCGGCGTTTTTGG
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCATTTTT-C
* * * *
7194492 AAAAAAGCCGCTAAAAGTCTGAGAATTAGCGGCGTTTTTGG
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCATTTTT-C
* * * *
7194533 GAAAACGCCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGG
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCATTTTT-C
* * *
7194574 GAAAACGCCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTC
1 AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCATTTTTC
7194614 AAAA
1 AAAA
7194618 GTCTGAGTAT
Statistics
Matches: 380, Mismatches: 43, Indels: 42
0.82 0.09 0.09
Matches are distributed among these distances:
28 18 0.05
30 3 0.01
33 3 0.01
34 1 0.00
36 1 0.00
37 2 0.01
40 11 0.03
41 281 0.74
42 60 0.16
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCATTTTTC
Found at i:7194333 original size:70 final size:70
Alignment explanation
Indices: 7194216--7194353 Score: 204
Period size: 70 Copynumber: 2.0 Consensus size: 70
7194206 ACATTTTTCC
* *
7194216 AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCATTTTTTAGAAAAACGCCGCCAAAAGTCTGAG
1 AAAAACGCCGCCAAAAGTCTGAGCATTAACGGCATTTTTTACAAAAACGCCGCCAAAAGTCTGAG
7194281 CATCT
66 CATCT
* * * * * *
7194286 AAAAATGCCGCCAAAGGTCTGAGCGTTAACGGCGTTTTTTACCAAAACGCCGCCAAAGGTCTGAG
1 AAAAACGCCGCCAAAAGTCTGAGCATTAACGGCATTTTTTACAAAAACGCCGCCAAAAGTCTGAG
7194351 CAT
66 CAT
7194354 TAGCGGCGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (70 bp):
AAAAACGCCGCCAAAAGTCTGAGCATTAACGGCATTTTTTACAAAAACGCCGCCAAAAGTCTGAG
CATCT
Found at i:7194440 original size:82 final size:81
Alignment explanation
Indices: 7194287--7194703 Score: 464
Period size: 82 Copynumber: 5.2 Consensus size: 81
7194277 TGAGCATCTA
* * * * * *
7194287 AAAATGCCGCCAAAGGTCTGAGCGTTAACGGCGTTTTT-TACCAAAACGCCGCCAAAGGTCTGAG
1 AAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGGA--AAAACGCCGCCAAAAGTCTGAG
7194351 CATTAGCGGCGTTTTTGG
64 CATTAGCGGCGTTTTTGG
* * * * *
7194369 AAAAGCGACGCTAAAAGTCTGAGCATTAGCGGCGTTGTTGGAAAAATGCCGCTAAAAGTCTGAGC
1 AAAA-CGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGC
*
7194434 ATTAGCGGCGTTGTTGG
65 ATTAGCGGCGTTTTTGG
* * * *
7194451 AAAAACGCCGCCAAAAGTCTGAGCATTTGCGGCGTTTTTGGAAAAAAGCCGCTAAAAGTCTGAGA
1 -AAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGC
7194516 ATTAGCGGCGTTTTTGGG
65 ATTAGCGGCGTTTTT-GG
* * *
7194534 AAAACGCCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTA
1 AAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCA
7194599 TTAGCGGCGTTTTT--
66 TTAGCGGCGTTTTTGG
* * * *
7194613 ----------CAAAAGTCTGAGTATTTGCAGCGTTTTTGGAAAAACGCCGCCAAAAGTCGGAGCA
1 AAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCA
7194668 TTAGCGGCGTTTTTGG
66 TTAGCGGCGTTTTTGG
* *
7194684 AGAAACGCCGCTAAACGTCT
1 A-AAACGCCGCCAAAAGTCT
7194704 TTTTTGAATT
Statistics
Matches: 286, Mismatches: 32, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
69 64 0.22
82 188 0.66
83 33 0.12
84 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (81 bp):
AAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCA
TTAGCGGCGTTTTTGG
Found at i:7194506 original size:123 final size:122
Alignment explanation
Indices: 7194286--7194703 Score: 457
Period size: 123 Copynumber: 3.5 Consensus size: 122
7194276 CTGAGCATCT
* * * ** *
7194286 AAAAATGCCGCCAAAGGTCTGAGCGTTAACGGCGTTTTTTACCAAAACGCCGCCAAAGGTCTGAG
1 AAAAATGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTGGA--AAAACGCCGCCAAAAGTCTGAG
** *
7194351 CATTAGCGGCGTTTTTGGAAAAGCGACGCTAAAAGTCTGAGCATTAGCGGCGTTGTTGG
64 CATTAGCGGCGTTTTTGGAAAAAAGACGCTAAAAGTCTGAGAATTAGCGGCGTTGTTGG
*
7194410 AAAAATGCCGCTAAAAGTCTGAGCATTAGCGGCGTTGTTGGAAAAACGCCGCCAAAAGTCTGAGC
1 AAAAATGCCGCCAAAAGTCTGAGCATTAGCGGCGTT-TTGGAAAAACGCCGCCAAAAGTCTGAGC
* * *
7194475 ATTTGCGGCGTTTTTGGAAAAAAGCCGCTAAAAGTCTGAGAATTAGCGGCGTTTTTGG
65 ATTAGCGGCGTTTTTGGAAAAAAGACGCTAAAAGTCTGAGAATTAGCGGCGTTGTTGG
* * * * *
7194533 GAAAACGCCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGT
1 AAAAATGCCGCCAAAAGTCTGAGCATTAGCGGCG-TTTTGGAAAAACGCCGCCAAAAGTCTGAGC
* * * *
7194598 ATTAGCGGCGTTTTT------------C-AAAAGTCTGAGTATTTGCAGCGTTTTTGG
65 ATTAGCGGCGTTTTTGGAAAAAAGACGCTAAAAGTCTGAGAATTAGCGGCGTTGTTGG
* * * * *
7194643 AAAAACGCCGCCAAAAGTCGGAGCATTAGCGGCGTTTTTGGAGAAACGCCGCTAAACGTCT
1 AAAAATGCCGCCAAAAGTCTGAGCATTAGCGGCG-TTTTGGAAAAACGCCGCCAAAAGTCT
7194704 TTTTTGAATT
Statistics
Matches: 262, Mismatches: 30, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
110 80 0.31
111 1 0.00
123 144 0.55
124 34 0.13
125 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (122 bp):
AAAAATGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTGGAAAAACGCCGCCAAAAGTCTGAGCA
TTAGCGGCGTTTTTGGAAAAAAGACGCTAAAAGTCTGAGAATTAGCGGCGTTGTTGG
Found at i:7194625 original size:28 final size:28
Alignment explanation
Indices: 7194585--7194640 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
7194575 AAAACGCCGC
*
7194585 CAAAAGTCTGAGTATTAGCGGCGTTTTT
1 CAAAAGTCTGAGTATTAGCAGCGTTTTT
*
7194613 CAAAAGTCTGAGTATTTGCAGCGTTTTT
1 CAAAAGTCTGAGTATTAGCAGCGTTTTT
7194641 GGAAAAACGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (28 bp):
CAAAAGTCTGAGTATTAGCAGCGTTTTT
Found at i:7194655 original size:69 final size:69
Alignment explanation
Indices: 7194544--7194681 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 69
7194534 AAAACGCCGC
* * * *
7194544 CAAAAGTCTGAGTATTAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTATTAGCGGCGT
1 CAAAAGTCTGAGTATTAGCAGCGTTTTTGGAAAAACGCCGCCAAAAGTCGGAGCATTAGCGGCGT
7194609 TTTT
66 TTTT
*
7194613 CAAAAGTCTGAGTATTTGCAGCGTTTTTGGAAAAACGCCGCCAAAAGTCGGAGCATTAGCGGCGT
1 CAAAAGTCTGAGTATTAGCAGCGTTTTTGGAAAAACGCCGCCAAAAGTCGGAGCATTAGCGGCGT
7194678 TTTT
66 TTTT
7194682 GGAGAAACGC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (69 bp):
CAAAAGTCTGAGTATTAGCAGCGTTTTTGGAAAAACGCCGCCAAAAGTCGGAGCATTAGCGGCGT
TTTT
Found at i:7194678 original size:41 final size:41
Alignment explanation
Indices: 7194613--7194694 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
7194603 CGGCGTTTTT
* * *
7194613 CAAAAGTCTGAGTATTTGCAGCGTTTTTGGAAAAACGCCGC
1 CAAAAGTCGGAGCATTAGCAGCGTTTTTGGAAAAACGCCGC
* *
7194654 CAAAAGTCGGAGCATTAGCGGCGTTTTTGGAGAAACGCCGC
1 CAAAAGTCGGAGCATTAGCAGCGTTTTTGGAAAAACGCCGC
7194695 TAAACGTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
CAAAAGTCGGAGCATTAGCAGCGTTTTTGGAAAAACGCCGC
Found at i:7194870 original size:7 final size:7
Alignment explanation
Indices: 7194858--7194882 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7194848 GGGTTTGAGA
7194858 TTTAGTG
1 TTTAGTG
7194865 TTTAGTG
1 TTTAGTG
7194872 TTTAGTG
1 TTTAGTG
7194879 TTTA
1 TTTA
7194883 TGATCTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (7 bp):
TTTAGTG
Found at i:7194931 original size:22 final size:22
Alignment explanation
Indices: 7194904--7194979 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
7194894 TTTAGCGATA
7194904 TTAAGGGTTTATGGGTTTAGGT
1 TTAAGGGTTTATGGGTTTAGGT
* *
7194926 TTAAGGGTTCAT-GGTTTATGT
1 TTAAGGGTTTATGGGTTTAGGT
**
7194947 TTTTGTGGTTTA-GGGTTTAGGGGT
1 TTAAG-GGTTTATGGGTTTA--GGT
7194971 TTAAGGGTT
1 TTAAGGGTT
7194980 GGTGGTTAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
21 11 0.26
22 22 0.52
23 4 0.10
24 5 0.12
ACGTcount: A:0.16, C:0.01, G:0.36, T:0.47
Consensus pattern (22 bp):
TTAAGGGTTTATGGGTTTAGGT
Found at i:7196269 original size:22 final size:22
Alignment explanation
Indices: 7196244--7196298 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
7196234 TATCTAGAAT
7196244 TTAGGGTTTAAT-GTTTATAAGG
1 TTAGGGTTTAATGGTTTA-AAGG
* *
7196266 TTAGGGGTTT-ATGGTTTAGAGT
1 TTA-GGGTTTAATGGTTTAAAGG
7196288 TTAGGGTTTAA
1 TTAGGGTTTAA
7196299 GATTTAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 6 0.21
22 11 0.39
23 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTAATGGTTTAAAGG
Found at i:7196281 original size:7 final size:7
Alignment explanation
Indices: 7196270--7196315 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
7196260 ATAAGGTTAG
7196270 GGGTTTA
1 GGGTTTA
*
7196277 TGGTTTA
1 GGGTTTA
*
7196284 GAGTTTA
1 GGGTTTA
7196291 GGGTTTA
1 GGGTTTA
* *
7196298 AGATTTA
1 GGGTTTA
7196305 GGGTTTA
1 GGGTTTA
7196312 GGGT
1 GGGT
7196316 CTGATTTTGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:7196296 original size:21 final size:21
Alignment explanation
Indices: 7196238--7196315 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
7196228 ATTTAGTATC
*
7196238 TAGAATTTAGGGTTTAAT-GTT
1 TAGAGTTTAGGGTTT-ATGGTT
* *
7196259 TATAAGGTTAGGGGTTTATGGTT
1 TA-GAGTTTA-GGGTTTATGGTT
* *
7196282 TAGAGTTTAGGGTTTAAGATT
1 TAGAGTTTAGGGTTTATGGTT
*
7196303 TAGGGTTTAGGGT
1 TAGAGTTTAGGGT
7196316 CTGATTTTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 24 0.52
22 11 0.24
23 11 0.24
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (21 bp):
TAGAGTTTAGGGTTTATGGTT
Found at i:7206679 original size:45 final size:46
Alignment explanation
Indices: 7206612--7206735 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
7206602 CATATGACCT
*
7206612 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
7206655 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
7206701 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
7206736 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:7206718 original size:46 final size:45
Alignment explanation
Indices: 7206612--7206920 Score: 207
Period size: 37 Copynumber: 7.8 Consensus size: 45
7206602 CATATGACCT
*
7206612 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
7206655 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
7206701 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
7206738 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
7206775 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
7206812 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
7206849 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
7206886 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
7206921 CACTTATCAC
Statistics
Matches: 250, Mismatches: 7, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
37 174 0.70
39 2 0.01
40 3 0.01
42 1 0.00
43 9 0.04
44 6 0.02
45 21 0.08
46 34 0.14
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:7206739 original size:37 final size:37
Alignment explanation
Indices: 7206698--7206947 Score: 446
Period size: 37 Copynumber: 6.8 Consensus size: 37
7206688 GCTGAAGCTA
* **
7206698 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
* *
7206735 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
*
7206772 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
7206809 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
7206846 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
7206883 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
7206920 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTTTCTTGATCAGA
7206948 AGTACTCAAA
Statistics
Matches: 208, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 208 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (37 bp):
CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
Found at i:7209544 original size:21 final size:21
Alignment explanation
Indices: 7209519--7209576 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
7209509 CTAGCCGATG
*
7209519 CAGCAGAGAGGGAGGCAGCGA
1 CAGCAGCGAGGGAGGCAGCGA
*
7209540 CAGCAGCGAGGGAGGCAGCGG
1 CAGCAGCGAGGGAGGCAGCGA
*
7209561 CAGCAGCGAGAGAGGC
1 CAGCAGCGAGGGAGGC
7209577 GGAGCAGAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.22, G:0.48, T:0.00
Consensus pattern (21 bp):
CAGCAGCGAGGGAGGCAGCGA
Found at i:7209567 original size:24 final size:22
Alignment explanation
Indices: 7209518--7209583 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 22
7209508 TCTAGCCGAT
7209518 GCAGCAGAGAGGGAGGCAGCGA
1 GCAGCAGAGAGGGAGGCAGCGA
*
7209540 -CAGCAGCGAGGGAGGCAGCG-
1 GCAGCAGAGAGGGAGGCAGCGA
* *
7209560 GCAGCAGCGAGAGAGGC-G-GA
1 GCAGCAGAGAGGGAGGCAGCGA
7209580 GCAG
1 GCAG
7209584 AGCAGAAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.03
20 5 0.12
21 34 0.85
ACGTcount: A:0.29, C:0.21, G:0.50, T:0.00
Consensus pattern (22 bp):
GCAGCAGAGAGGGAGGCAGCGA
Found at i:7209997 original size:44 final size:43
Alignment explanation
Indices: 7209908--7210080 Score: 159
Period size: 44 Copynumber: 4.0 Consensus size: 43
7209898 TATAAATTTA
* * *
7209908 GCGGCGTTTGTGGGGAAAGCGCCGA-TAAAGGACTCTACTTTTG
1 GCGGCGTTTGTGGAGAAAGCGCC-ACTAAAGGTCTGTACTTTTG
*
7209951 GCGGCATTTGTGGAGAAAGCGCCACTAAAAGGTCTGTACTTTTG
1 GCGGCGTTTGTGGAGAAAGCGCCACT-AAAGGTCTGTACTTTTG
* * * * * ** *
7209995 GCGGCGTTTTTGGTGTAAGCGCCGCTATAGGTCTGTAAATTTA
1 GCGGCGTTTGTGGAGAAAGCGCCACTAAAGGTCTGTACTTTTG
* * * * *
7210038 GCGGCTTTTTTGGGAAAAAGCTCCGCTAAAGGTCTGTACTTTT
1 GCGGCGTTTGT-GGAGAAAGCGCCACTAAAGGTCTGTACTTTT
7210081 AACGGTGCTT
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 45 0.42
44 60 0.57
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (43 bp):
GCGGCGTTTGTGGAGAAAGCGCCACTAAAGGTCTGTACTTTTG
Found at i:7210042 original size:43 final size:43
Alignment explanation
Indices: 7209900--7210241 Score: 156
Period size: 43 Copynumber: 7.9 Consensus size: 43
7209890 TTTCAATCTA
* * * *
7209900 TAAATTTAGCGGCGTTTGTGGGGAAAGCGCCGATAAAGGACTC
1 TAAATTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGTCTG
** * * *
7209943 TACTTTTGGCGGCATTTGTGGAGAAAGCGCCACTAAAAGGTCTG
1 TAAATTTAGCGGCGTTTGTGGAGAAAGCGCCGCT-AAAGGTCTG
** * * * * *
7209987 TACTTTTGGCGGCGTTTTTGGTGTAAGCGCCGCTATAGGTCTG
1 TAAATTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGTCTG
* * * *
7210030 TAAATTTAGCGGCTTTTTTGGGAAAAAGCTCCGCTAAAGGTCTG
1 TAAATTTAGCGGCGTTTGT-GGAGAAAGCGCCGCTAAAGGTCTG
** * * * * * **
7210074 TACTTTTAACGGTGCTT-TGCAAACAAAAGCCGCTAAAGGTCTG
1 TAAATTTAGCGGCGTTTGTGGAGA-AAGCGCCGCTAAAGGTCTG
* ** * * * *
7210117 CACTTTTAGCGGCGCTTTCCTCGA-AAA-TGCCGCTAAAGGTCTA
1 TAAATTTAGCGGCG-TTT-GTGGAGAAAGCGCCGCTAAAGGTCTG
* ** * ** *
7210160 CACCTTTAGCGGCGTTTGTTTGCTAAA-CGCCGCTAAAGGTCTA
1 TAAATTTAGCGGCGTTTG-TGGAGAAAGCGCCGCTAAAGGTCTG
* * * *
7210203 T-ACTATGAGCGGCGTTTATGG-TAAAGCGCCGCTAAAGGT
1 TAAAT-TTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGT
7210242 ATCTACTTTT
Statistics
Matches: 237, Mismatches: 52, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
41 4 0.02
42 26 0.11
43 134 0.57
44 70 0.30
45 1 0.00
46 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (43 bp):
TAAATTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGTCTG
Found at i:7216156 original size:17 final size:16
Alignment explanation
Indices: 7216131--7216169 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
7216121 AATTTTTAAG
* *
7216131 TTTTAAAAATTATATA
1 TTTTTAAAATGATATA
7216147 TATTTTAAAATGATATA
1 T-TTTTAAAATGATATA
7216164 TTTTTA
1 TTTTTA
7216170 TTTTTTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TTTTTAAAATGATATA
Found at i:7223602 original size:45 final size:44
Alignment explanation
Indices: 7223539--7223631 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 44
7223529 ACTTTAATTG
*
7223539 ACTTAGTGCAATCCAATGGCTCTGTTTTAGGTGACTTATTATCA
1 ACTTAGTACAATCCAATGGCTCTGTTTTAGGTGACTTATTATCA
7223583 ACTTAAGTACAATCCAATGGCTCTGTTTTAGGTGACTTATTATCA
1 ACTT-AGTACAATCCAATGGCTCTGTTTTAGGTGACTTATTATCA
7223628 ACTT
1 ACTT
7223632 CGACCCAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 4 0.09
45 43 0.91
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (44 bp):
ACTTAGTACAATCCAATGGCTCTGTTTTAGGTGACTTATTATCA
Found at i:7223901 original size:69 final size:69
Alignment explanation
Indices: 7223783--7224017 Score: 290
Period size: 69 Copynumber: 3.4 Consensus size: 69
7223773 ACTTATAATG
* * *
7223783 TCAGCTGGGAGCATAGGTCCGCTAGCTGCTTTGAAGGTTGTGATCTTAAATCGTCAAACCTTTAT
1 TCAGTTGGGAGCGTAGGTCCGCTAGCTGCTTTGGAGGTTGTGATCTTAAATCGTCAAACCTTTAT
7223848 GACA
66 GACA
* * * *
7223852 TCAGTTGGGAACGTAGGTCCGTTAGCTGCTTTGGAGGTTGTGATATTAAATCATCAAACCTTTAT
1 TCAGTTGGGAGCGTAGGTCCGCTAGCTGCTTTGGAGGTTGTGATCTTAAATCGTCAAACCTTTAT
7223917 GACA
66 GACA
* ** * ** ** *
7223921 TCAGTTAGGAGCGTAGGTTTGCTACCTATTTTGGAGGTTACGATCTTAAATTGTCAAACCTTTAT
1 TCAGTTGGGAGCGTAGGTCCGCTAGCTGCTTTGGAGGTTGTGATCTTAAATCGTCAAACCTTTAT
7223986 GACA
66 GACA
* * * *
7223990 TAAATTGGGAGCGTAGATTCGCTAGCTG
1 TCAGTTGGGAGCGTAGGTCCGCTAGCTG
7224018 TGTCAGAGTT
Statistics
Matches: 139, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 139 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (69 bp):
TCAGTTGGGAGCGTAGGTCCGCTAGCTGCTTTGGAGGTTGTGATCTTAAATCGTCAAACCTTTAT
GACA
Found at i:7230136 original size:47 final size:49
Alignment explanation
Indices: 7230078--7230185 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 49
7230068 ACATAACAAT
* *
7230078 ATTTTATATTTTATAT-TTTAAATATTATGATTTAAATAAGATTTTTAG
1 ATTTTAGATTTTATATCTTTAAATATTAGGATTTAAATAAGATTTTTAG
* * * * * *
7230126 ATTTTA-ATTTT-TGTCTTTATATATTAGGTTTTGAATTAGCTTTTTAG
1 ATTTTAGATTTTATATCTTTAAATATTAGGATTTAAATAAGATTTTTAG
7230173 ATTTTAGATTTTA
1 ATTTTAGATTTTA
7230186 AATATTAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
46 2 0.04
47 37 0.74
48 11 0.22
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (49 bp):
ATTTTAGATTTTATATCTTTAAATATTAGGATTTAAATAAGATTTTTAG
Found at i:7230191 original size:41 final size:40
Alignment explanation
Indices: 7230141--7230240 Score: 119
Period size: 41 Copynumber: 2.5 Consensus size: 40
7230131 AATTTTTGTC
* *
7230141 TTTATATATTAGGTTTTGAATTAGCTTTTTAGATTTTAGA
1 TTTAAATATTAGGTTTTGAATTAGATTTTTAGATTTTAGA
* * * *
7230181 TTTTAAATATTAAGTTTTAAATTAGATTTTTGGTTTTTAGA
1 -TTTAAATATTAGGTTTTGAATTAGATTTTTAGATTTTAGA
*
7230222 TTTAAATAATAAGGTTTTG
1 TTTAAAT-ATTAGGTTTTG
7230241 TTTTCAAAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 7 0.14
41 42 0.86
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (40 bp):
TTTAAATATTAGGTTTTGAATTAGATTTTTAGATTTTAGA
Found at i:7231710 original size:44 final size:44
Alignment explanation
Indices: 7231649--7231735 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
7231639 GCTGACGATC
*
7231649 CCCGAGCTCGTAACTTGATTCCAAAATTTATAAAACAAAGACAT
1 CCCGAGCTCGTAACTTGATCCCAAAATTTATAAAACAAAGACAT
7231693 CCCGAGCTCGTAACTTGATCCCAAAATTTATAAAACAAAGACA
1 CCCGAGCTCGTAACTTGATCCCAAAATTTATAAAACAAAGACA
7231736 AACATATACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.23
Consensus pattern (44 bp):
CCCGAGCTCGTAACTTGATCCCAAAATTTATAAAACAAAGACAT
Found at i:7232419 original size:45 final size:40
Alignment explanation
Indices: 7232304--7232424 Score: 100
Period size: 41 Copynumber: 2.8 Consensus size: 40
7232294 ATGCTATCTC
* *
7232304 ATATCAATGCCACTGTCCCAGACAGGGTCTTACACGAATCAA
1 ATATCGATGCCAC-GTCCCAGAC-GGGTCTTACACGAACCAA
* * * *
7232346 ATA-CGATGTCGATGTCTCAGACACGGTCTTACACGTAACCACA
1 ATATCGATG-CCACGTCCCAGAC-GGGTCTTACACG-AACCA-A
7232389 TATATCGATGCCAACGTCCCAGACGTGGTCTTACAC
1 -ATATCGATGCC-ACGTCCCAGACG-GGTCTTACAC
7232425 AAAAACACAT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
41 24 0.39
42 9 0.15
43 1 0.02
44 4 0.06
45 24 0.39
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (40 bp):
ATATCGATGCCACGTCCCAGACGGGTCTTACACGAACCAA
Found at i:7236328 original size:29 final size:29
Alignment explanation
Indices: 7236286--7236345 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
7236276 GTGACGTGAC
7236286 CCCTGTCTTACAACAAAGACCAATTTGTA
1 CCCTGTCTTACAACAAAGACCAATTTGTA
7236315 CCCTGTCTTACAACAAAGACCAATTTGTA
1 CCCTGTCTTACAACAAAGACCAATTTGTA
7236344 CC
1 CC
7236346 TATTTAACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.27
Consensus pattern (29 bp):
CCCTGTCTTACAACAAAGACCAATTTGTA
Found at i:7237313 original size:25 final size:23
Alignment explanation
Indices: 7237261--7237318 Score: 84
Period size: 21 Copynumber: 2.5 Consensus size: 23
7237251 AACAATCATT
7237261 TTGTTAAAAATTTCATTCATTTC
1 TTGTTAAAAATTTCATTCATTTC
7237284 -T-TTAAAAATTTCATTCATTTC
1 TTGTTAAAAATTTCATTCATTTC
7237305 TATTGTTAAAAATT
1 --TTGTTAAAAATT
7237319 AATCCATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 20 0.65
22 1 0.03
24 1 0.03
25 9 0.29
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.52
Consensus pattern (23 bp):
TTGTTAAAAATTTCATTCATTTC
Found at i:7238412 original size:19 final size:21
Alignment explanation
Indices: 7238388--7238429 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
7238378 TTTCAACTCA
7238388 TAAAAAT-A-AAAATAATAAT
1 TAAAAATAAGAAAATAATAAT
7238407 TAAAAATAATGAAAATAATAAT
1 TAAAAATAA-GAAAATAATAAT
7238429 T
1 T
7238430 TCATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
22 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAATAAGAAAATAATAAT
Found at i:7246832 original size:37 final size:37
Alignment explanation
Indices: 7246783--7246857 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
7246773 TGACCATATG
7246783 TATGTAACTCATGTGCTTTGATATAAGTCGAGGCTTA
1 TATGTAACTCATGTGCTTTGATATAAGTCGAGGCTTA
*
7246820 TATGTAACTCATGTGCTTTGATATAAGTCGAGGTTTA
1 TATGTAACTCATGTGCTTTGATATAAGTCGAGGCTTA
7246857 T
1 T
7246858 GCTTTACAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (37 bp):
TATGTAACTCATGTGCTTTGATATAAGTCGAGGCTTA
Found at i:7248076 original size:68 final size:69
Alignment explanation
Indices: 7248004--7248131 Score: 222
Period size: 69 Copynumber: 1.9 Consensus size: 69
7247994 TTATTTTTAA
*
7248004 TAAATTTAATTTAATATTTATATTG-ATAGTATTTTATTAATTTAATATTAAAATAATTATCTTA
1 TAAATTTAATTTAATATTTATATTGAAAAGTATTTTATTAATTTAATATTAAAATAATTATCTTA
7248068 ATAT
66 ATAT
* *
7248072 TAAATTTAATTTAATATTTATCTTGAAAAGTATTTTATTAATTTAATATTAAAGTAATTA
1 TAAATTTAATTTAATATTTATATTGAAAAGTATTTTATTAATTTAATATTAAAATAATTA
7248132 AGTTTAATTA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
68 24 0.43
69 32 0.57
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (69 bp):
TAAATTTAATTTAATATTTATATTGAAAAGTATTTTATTAATTTAATATTAAAATAATTATCTTA
ATAT
Found at i:7259029 original size:45 final size:45
Alignment explanation
Indices: 7258951--7259041 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 45
7258941 AATTTTCATT
*
7258951 TCCATTTTGAGGAAACCACATAATTTTCCAAATG-ATTCCATTTC
1 TCCATTTTGAGGAAAACACATAATTTTCCAAATGTATTCCATTTC
* *
7258995 TCCATTTCTGA-GAAAAC-CATAATCATTTCTAAATGTTTTCCATTTC
1 TCCATTT-TGAGGAAAACACATAAT--TTTCCAAATGTATTCCATTTC
7259041 T
1 T
7259042 TTATTTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 6 0.15
44 12 0.30
45 12 0.30
46 10 0.25
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (45 bp):
TCCATTTTGAGGAAAACACATAATTTTCCAAATGTATTCCATTTC
Found at i:7264605 original size:14 final size:14
Alignment explanation
Indices: 7264582--7264611 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7264572 TTGAAATTAT
7264582 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
7264596 GTTGATTTGGATTG
1 GTTGAATTGGATTG
7264610 GT
1 GT
7264612 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:7267504 original size:43 final size:41
Alignment explanation
Indices: 7267427--7267511 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 41
7267417 TTTATCTTAG
* * *
7267427 AAAAAAAATTTAAAAATGAGAAGATAATCTTGGGTTGTTGA
1 AAAAAAAATTAAAAAAGGAGAAGATAATCATGGGTTGTTGA
7267468 AAAAAGAAATTAAAAAGAGGAGAAGATACA-CATGGGTTGTTGA
1 AAAAA-AAATTAAAAA-AGGAGAAGATA-ATCATGGGTTGTTGA
7267511 A
1 A
7267512 TTTACCCTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 5 0.13
42 9 0.24
43 23 0.61
44 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.24
Consensus pattern (41 bp):
AAAAAAAATTAAAAAAGGAGAAGATAATCATGGGTTGTTGA
Found at i:7274093 original size:57 final size:58
Alignment explanation
Indices: 7274022--7274161 Score: 142
Period size: 57 Copynumber: 2.4 Consensus size: 58
7274012 GTTATGGATT
* * * *
7274022 GGATTTAACTTAGACGGGTAATCCAGA-TCAAGCTCT-TTAGAGCAT-ATGTCATAAAAA
1 GGATTTAGCCTAGACTGGTAATCCAGACT-AAGCTCTATT-GAGCATAATATCATAAAAA
* * * * * *
7274079 GGATTTAGCCTAGACTGATAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGACA
1 GGATTTAGCCTAGACTGGTAATCCAGACTAAGCTCTATTGAGCAT-AATATCATAAAAA
7274138 GGATTTAGCCTAGACTGGTAATCC
1 GGATTTAGCCTAGACTGGTAATCC
7274162 TATTGCATAC
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
57 34 0.50
58 3 0.04
59 31 0.46
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (58 bp):
GGATTTAGCCTAGACTGGTAATCCAGACTAAGCTCTATTGAGCATAATATCATAAAAA
Found at i:7276047 original size:48 final size:48
Alignment explanation
Indices: 7275992--7276096 Score: 210
Period size: 48 Copynumber: 2.2 Consensus size: 48
7275982 CCACTTATCA
7275992 AAATCCACTATAAGAGATTGGGAGTATATATATGGTGAAGGGGTTTTT
1 AAATCCACTATAAGAGATTGGGAGTATATATATGGTGAAGGGGTTTTT
7276040 AAATCCACTATAAGAGATTGGGAGTATATATATGGTGAAGGGGTTTTT
1 AAATCCACTATAAGAGATTGGGAGTATATATATGGTGAAGGGGTTTTT
7276088 AAATCCACT
1 AAATCCACT
7276097 TCCGATTACA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (48 bp):
AAATCCACTATAAGAGATTGGGAGTATATATATGGTGAAGGGGTTTTT
Found at i:7277002 original size:25 final size:25
Alignment explanation
Indices: 7276945--7277011 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
7276935 AAATGGATTA
* * * *
7276945 TCTGTAAAGTCTTTATGGCAATCTC
1 TCTGGAAAGCCTTTGTGACAATCTC
**
7276970 TCAAGAAAGCCTTTGTGACAATCTC
1 TCTGGAAAGCCTTTGTGACAATCTC
7276995 TCTGGAAAGCCTTTGTG
1 TCTGGAAAGCCTTTGTG
7277012 GTATATTATC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (25 bp):
TCTGGAAAGCCTTTGTGACAATCTC
Found at i:7284077 original size:50 final size:49
Alignment explanation
Indices: 7283939--7284078 Score: 147
Period size: 50 Copynumber: 2.8 Consensus size: 49
7283929 CTTTGTGGCA
* * * * *
7283939 ATCTCTCTGGAAAGCCTTTGTGGCAAATTCCCTATAAAACCTTATGGTG
1 ATCTCTCTGGAAAGCCTTTGTGGCGATTTCTCTATAAAGCCTTATGATG
* * * * *
7283988 ATCTCTCTGAAAAGCCTTTGCGGCGATATCTTTGA-AAAGCTTTTATGATG
1 ATCTCTCTGGAAAGCCTTTGTGGCGATTTCTCT-ATAAAGC-CTTATGATG
* *
7284038 ATCTCTCTGGAAAGGCTTTTTGGCGATTTCTCTATAAAGCC
1 ATCTCTCTGGAAAGCCTTTGTGGCGATTTCTCTATAAAGCC
7284079 ATTGTGGGAT
Statistics
Matches: 71, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
49 31 0.44
50 40 0.56
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (49 bp):
ATCTCTCTGGAAAGCCTTTGTGGCGATTTCTCTATAAAGCCTTATGATG
Found at i:7293998 original size:102 final size:102
Alignment explanation
Indices: 7293819--7294012 Score: 334
Period size: 102 Copynumber: 1.9 Consensus size: 102
7293809 TCTACGATCT
* *
7293819 CAAAAATATAAAAATTAAAATAAAATGATTAAATTGCACTAAATAATATTGTAGAATAAAAACTT
1 CAAAAATATAAAAATTAAAATAAAATGACTAAATTGCACTAAACAATATTGTAGAATAAAAACTT
* *
7293884 GGTATTCGGCTATGGCGTTTTCTCCTTTATTTTTTCC
66 GATATTCCGCTATGGCGTTTTCTCCTTTATTTTTTCC
* *
7293921 CAAAAATATAAAAATTACAATAAAATGACTAAGTTGCACTAAACAATATTGTAGAATAAAAACTT
1 CAAAAATATAAAAATTAAAATAAAATGACTAAATTGCACTAAACAATATTGTAGAATAAAAACTT
7293986 GATATTCCGCTATGGCGTTTTCTCCTT
66 GATATTCCGCTATGGCGTTTTCTCCTT
7294013 CAATTTCTCT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 86 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (102 bp):
CAAAAATATAAAAATTAAAATAAAATGACTAAATTGCACTAAACAATATTGTAGAATAAAAACTT
GATATTCCGCTATGGCGTTTTCTCCTTTATTTTTTCC
Found at i:7294475 original size:25 final size:26
Alignment explanation
Indices: 7294441--7294496 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 26
7294431 ACTTTCGGGT
7294441 TGTTACATTTCTAACATGAAAGGGC-
1 TGTTACATTTCTAACATGAAAGGGCA
7294466 TGTTACATTTCTAACATGAAAGGGCA
1 TGTTACATTTCTAACATGAAAGGGCA
7294492 TGTTA
1 TGTTA
7294497 AAAAATTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (26 bp):
TGTTACATTTCTAACATGAAAGGGCA
Found at i:7295597 original size:17 final size:18
Alignment explanation
Indices: 7295567--7295600 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7295557 ATTTAAATTG
7295567 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
7295585 CGGTCGC-GTCGCGTTT
1 CGGTCGCGGTCGCGTTT
7295601 GTCGTGGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.00, C:0.29, G:0.38, T:0.32
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:7299948 original size:21 final size:21
Alignment explanation
Indices: 7299906--7299948 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7299896 TTCAGGTGGA
*
7299906 TCAGCTCTTATGAGATTTTGT
1 TCAGCTCTTATGAGATTCTGT
* *
7299927 TCAGTTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGATTCTGT
7299948 T
1 T
7299949 GGCGTGTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (21 bp):
TCAGCTCTTATGAGATTCTGT
Done.