Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 16 of 135
Found at i:6997150 original size:21 final size:20
Alignment explanation
Indices: 6997126--6997177 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 20
6997116 TTTTCAAATG
6997126 ATATATTAATTATTAATAATA
1 ATAT-TTAATTATTAATAATA
6997147 ATATTATAA-TA--AATAATA
1 ATATT-TAATTATTAATAATA
*
6997165 ATATTTTATTATT
1 ATATTTAATTATT
6997178 TATATTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
17 2 0.08
18 14 0.54
20 3 0.12
21 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTTAATTATTAATAATA
Found at i:6997971 original size:17 final size:17
Alignment explanation
Indices: 6997949--6997986 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6997939 TTATGATTAA
*
6997949 TTATATTGATTTTATTT
1 TTATATTGATATTATTT
*
6997966 TTATATTTATATTATTT
1 TTATATTGATATTATTT
6997983 TTAT
1 TTAT
6997987 GAGTTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTATATTGATATTATTT
Found at i:6999808 original size:20 final size:19
Alignment explanation
Indices: 6999768--6999814 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
6999758 AATAAATCTG
6999768 TTAAAAAT-AAATAAAATT
1 TTAAAAATAAAATAAAATT
6999786 TTAATAAATAAAATATAAA-T
1 TTAA-AAATAAAATA-AAATT
6999806 TTAAAAATA
1 TTAAAAATA
6999815 TACCCTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 9 0.35
20 10 0.38
21 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAAATAAAATAAAATT
Found at i:7000247 original size:35 final size:35
Alignment explanation
Indices: 7000190--7000261 Score: 119
Period size: 36 Copynumber: 2.1 Consensus size: 35
7000180 ATTTTTTATT
*
7000190 AAATAAATAATTTTTTAATATTATTTTAGTCAAATA
1 AAATAAATAATTTTTTAATATTATTTTAAT-AAATA
7000226 AAATAAATAATTTTTT-ATATTATTTTAATAAATA
1 AAATAAATAATTTTTTAATATTATTTTAATAAATA
7000260 AA
1 AA
7000262 TATTATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 7 0.20
35 12 0.34
36 16 0.46
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (35 bp):
AAATAAATAATTTTTTAATATTATTTTAATAAATA
Found at i:7000260 original size:29 final size:29
Alignment explanation
Indices: 7000179--7000276 Score: 101
Period size: 29 Copynumber: 3.2 Consensus size: 29
7000169 TATTTAATTT
*
7000179 TATT-TTTTATTAAATAAATAATTTTTTAA
1 TATTATTTTAATAAATAAATAATTTTTT-A
7000208 TATTATTTTAGTCAAATAAAATAAATAATTTTTTA
1 TATTA-TTT--T--AAT-AAATAAATAATTTTTTA
7000243 TATTATTTTAATAAATAAAT-ATTATTTTA
1 TATTATTTTAATAAATAAATAATT-TTTTA
7000272 TATTA
1 TATTA
7000277 AATTAGTAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
28 3 0.05
29 22 0.37
30 3 0.05
31 3 0.05
32 1 0.02
33 1 0.02
34 3 0.05
35 8 0.13
36 16 0.27
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (29 bp):
TATTATTTTAATAAATAAATAATTTTTTA
Found at i:7000286 original size:29 final size:29
Alignment explanation
Indices: 7000226--7000286 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
7000216 TAGTCAAATA
**
7000226 AAATAAATAATTTTTTATATTATTTTAAT
1 AAATAAATAATTTTTTATATTAAATTAAT
*
7000255 AAATAAAT-ATTATTTTATATTAAATTAGT
1 AAATAAATAATT-TTTTATATTAAATTAAT
7000284 AAA
1 AAA
7000287 AAACTCTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
AAATAAATAATTTTTTATATTAAATTAAT
Found at i:7000447 original size:27 final size:27
Alignment explanation
Indices: 7000378--7000449 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
7000368 CATCCCTTGA
*
7000378 TGCCCCCACTTGATATCCTTTCAAGGG
1 TGCCGCCACTTGATATCCTTTCAAGGG
* *
7000405 TGCCGCTACTTAATATCCTTTCAAGGG
1 TGCCGCCACTTGATATCCTTTCAAGGG
*
7000432 TGCCGCCAGTTGATATCC
1 TGCCGCCACTTGATATCC
7000450 CTCCACCAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (27 bp):
TGCCGCCACTTGATATCCTTTCAAGGG
Found at i:7004184 original size:11 final size:11
Alignment explanation
Indices: 7004170--7004194 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7004160 CATAATAATG
7004170 AAATAGTGAGA
1 AAATAGTGAGA
7004181 AAATAGTGAGA
1 AAATAGTGAGA
7004192 AAA
1 AAA
7004195 CAGTTATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AAATAGTGAGA
Found at i:7005496 original size:28 final size:28
Alignment explanation
Indices: 7005464--7005529 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
7005454 AGAACGACAA
*
7005464 CAGGACCACAATATGAGCATGAGGAAAC
1 CAGGACCACAATATAAGCATGAGGAAAC
7005492 CAGGACCACAATATAAGCATGAGGAAAC
1 CAGGACCACAATATAAGCATGAGGAAAC
7005520 CAGGACCACA
1 CAGGACCACA
7005530 TTATTCTGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.44, C:0.24, G:0.23, T:0.09
Consensus pattern (28 bp):
CAGGACCACAATATAAGCATGAGGAAAC
Found at i:7008586 original size:16 final size:16
Alignment explanation
Indices: 7008567--7008608 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7008557 AATTTTTTAA
7008567 ATTATTTATT-TTATAT
1 ATTA-TTATTATTATAT
7008583 ATTATTATTATTATAT
1 ATTATTATTATTATAT
*
7008599 A-GATTATTAT
1 ATTATTATTAT
7008609 AAAAGATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTATTATTATTATAT
Found at i:7008599 original size:18 final size:18
Alignment explanation
Indices: 7008567--7008608 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7008557 AATTTTTTAA
* *
7008567 ATTATTTATTTTATATATT
1 ATTA-TTATTATATAGATT
7008586 ATTATTATTATATAGATT
1 ATTATTATTATATAGATT
7008604 ATTAT
1 ATTAT
7008609 AAAAGATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTATTATTATATAGATT
Found at i:7010501 original size:15 final size:15
Alignment explanation
Indices: 7010483--7010512 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7010473 TCTATCTGTC
7010483 ATCTATCTATTTTTT
1 ATCTATCTATTTTTT
7010498 ATCTATCTATTTTTT
1 ATCTATCTATTTTTT
7010513 CTTTAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (15 bp):
ATCTATCTATTTTTT
Found at i:7012165 original size:16 final size:16
Alignment explanation
Indices: 7012144--7012194 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
7012134 TTTCTAGTAT
*
7012144 TTTATTTACTAACGTG
1 TTTATTTACTAACGTA
**
7012160 TTTATTTACTAGTGTA
1 TTTATTTACTAACGTA
*
7012176 TTTATTTACTAGCGTA
1 TTTATTTACTAACGTA
7012192 TTT
1 TTT
7012195 GCTCTTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (16 bp):
TTTATTTACTAACGTA
Found at i:7013575 original size:7 final size:7
Alignment explanation
Indices: 7013560--7013593 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
7013550 TTCAATTATC
7013560 AATATAAT
1 AATA-AAT
7013568 AATAAAT
1 AATAAAT
7013575 AATAAAT
1 AATAAAT
7013582 AATAAAT
1 AATAAAT
7013589 AATAA
1 AATAA
7013594 TTTTGTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.85
8 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAAAT
Found at i:7014726 original size:31 final size:31
Alignment explanation
Indices: 7014688--7014763 Score: 152
Period size: 31 Copynumber: 2.5 Consensus size: 31
7014678 GCATTGATAA
7014688 ATATATATATTATTTGCTGAGAAATATATAT
1 ATATATATATTATTTGCTGAGAAATATATAT
7014719 ATATATATATTATTTGCTGAGAAATATATAT
1 ATATATATATTATTTGCTGAGAAATATATAT
7014750 ATATATATATTATT
1 ATATATATATTATT
7014764 GTTGGCAGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (31 bp):
ATATATATATTATTTGCTGAGAAATATATAT
Found at i:7017603 original size:17 final size:17
Alignment explanation
Indices: 7017581--7017617 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7017571 TTTTTTTCTA
*
7017581 AAATTTAAACTTAATAT
1 AAATTTAAACTTAAAAT
*
7017598 AAATTTAAATTTAAAAT
1 AAATTTAAACTTAAAAT
7017615 AAA
1 AAA
7017618 AATTAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTTAAACTTAAAAT
Found at i:7018349 original size:29 final size:29
Alignment explanation
Indices: 7018317--7018495 Score: 126
Period size: 29 Copynumber: 6.1 Consensus size: 29
7018307 AAAACTTTAG
*
7018317 AAAATTACATTTTAACCCCAAAACTTCCA
1 AAAATTACATTTTAACCCCTAAACTTCCA
* *
7018346 AAAATTACCATTTT-ACCCCTAAACTTTCT
1 AAAATTA-CATTTTAACCCCTAAACTTCCA
*
7018375 AAAATCT-CATTTTTAA-CCCT-AATTTCACCA
1 AAAAT-TACA-TTTTAACCCCTAAACTT--CCA
7018405 AAAATTACCATTTT-A-CCCTAAACTTTCC-
1 AAAATTA-CATTTTAACCCCTAAAC-TTCCA
* *
7018433 AAAATTCCATTTTTAACCCC--AATTTCATCA
1 AAAATTACA-TTTTAACCCCTAAACTTC--CA
7018463 AAAATTACCATTTT-ACCCCTAAACTTTCCA
1 AAAATTA-CATTTTAACCCCTAAAC-TTCCA
7018493 AAA
1 AAA
7018496 TCCCATTTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 39
0.70 0.07 0.23
Matches are distributed among these distances:
27 5 0.04
28 18 0.15
29 47 0.39
30 38 0.32
31 8 0.07
32 3 0.03
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCTAAACTTCCA
Found at i:7018393 original size:59 final size:58
Alignment explanation
Indices: 7018326--7018687 Score: 478
Period size: 59 Copynumber: 6.2 Consensus size: 58
7018316 GAAAATTACA
* * *
7018326 TTTTAACCCCAAAACTT-CCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATCTCAT
1 TTTTAACCCC--AATTTACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCAT
* *
7018385 TTTTAACCCTAATTTCACCAAAAATTACCATTTTA-CCCTAAACTTTCCAAAATTCCAT
1 TTTTAACCCCAATTT-ACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCAT
*
7018443 TTTTAACCCCAATTTCATCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCAT
1 TTTTAACCCCAATTT-ACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCAT
* * * *
7018502 TTTTAACCCCAATTTCACCTAAAATTGCTATTTT-TCCCTCAAACTTTCCAAAATCCCAT
1 TTTTAACCCCAATTT-ACCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATCCCAT
* * *
7018561 TTTTAACCCCGATTTCACCAAAAAATACCATTTTACCCCTAAACTTTCCAAAATCCCTT
1 TTTTAACCCCAATTT-ACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCAT
* * * *
7018620 TTTTAACCCCAATTTCACCAAAAACTACCATTTTACCCCTAAACTTTCTAAGATTCCAT
1 TTTTAACCCCAATTT-ACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCAT
7018679 TTTTAACCC
1 TTTTAACCC
7018688 TAAATTTTCC
Statistics
Matches: 272, Mismatches: 26, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
57 4 0.01
58 57 0.21
59 207 0.76
60 4 0.01
ACGTcount: A:0.34, C:0.30, G:0.01, T:0.35
Consensus pattern (58 bp):
TTTTAACCCCAATTTACCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCAT
Found at i:7018607 original size:118 final size:118
Alignment explanation
Indices: 7018343--7018687 Score: 532
Period size: 118 Copynumber: 2.9 Consensus size: 118
7018333 CCCAAAACTT
* * *
7018343 CCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATCTCATTTTTAACCCTAATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAA
7018408 ATTACCATTTTACCCT-AAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
66 ATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
7018460 TCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCTAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAA
* * * * *
7018525 ATTGCTATTTTTCCCTCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
66 ATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
7018578 CCAAAAAATACCATTTTACCCCTAAACTTTCCAAAATCCCTTTTTTAACCCCAATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAA
* * *
7018643 ACTACCATTTTACCC-CTAAACTTTCTAAGATTCCATTTTTAACCC
66 ATTACCATTTTACCCTC-AAACTTTCCAAAATTCCATTTTTAACCC
7018688 TAAATTTTCC
Statistics
Matches: 205, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
117 74 0.36
118 131 0.64
ACGTcount: A:0.34, C:0.30, G:0.01, T:0.35
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAA
ATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:7018712 original size:30 final size:29
Alignment explanation
Indices: 7018650--7018712 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
7018640 AAAACTACCA
* *
7018650 TTTTACCCCTAAACTTTCTAAGATTCCAT
1 TTTTAACCCTAAACTTTCTAAGATTACAT
*
7018679 TTTTAACCCTAAATTTTCCTGAA-ATTACAT
1 TTTTAACCCTAAACTTT-CT-AAGATTACAT
7018709 TTTT
1 TTTT
7018713 GCCATCGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 15 0.52
30 12 0.41
31 2 0.07
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (29 bp):
TTTTAACCCTAAACTTTCTAAGATTACAT
Found at i:7018740 original size:177 final size:175
Alignment explanation
Indices: 7018382--7018740 Score: 472
Period size: 177 Copynumber: 2.0 Consensus size: 175
7018372 TCTAAAATCT
* * *
7018382 CATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCTAAACTTTCCAAAATTCCATTTTT
1 CATTTTTAACCCCAATTTCACCAAAAAATACCATTTTACCCTAAACTTTCCAAAATCCCATTTTT
* * *
7018447 AACCCCAATTTCATCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCC
66 AACCCCAATTTCACCAAAAACTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCA
* * * * *
7018512 AATTTCACCTAAAATTGCTATTTTTCCCTCAAACTTTCCAAAATCC
131 AATTTCACCTAAAATTACTATTTTTCCATCAAAC-GTCAAAAATAC
* *
7018558 CATTTTTAACCCCGATTTCACCAAAAAATACCATTTTACCCCTAAACTTTCCAAAATCCCTTTTT
1 CATTTTTAACCCCAATTTCACCAAAAAATACCATTTTA-CCCTAAACTTTCCAAAATCCCATTTT
* * *
7018623 TAACCCCAATTTCACCAAAAACTACCATTTTACCCCTAAACTTTCTAAGATTCCATTTTTAACCC
65 TAACCCCAATTTCACCAAAAACTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCC
* * *
7018688 TAAATTT-TCCTGAAATTAC-ATTTTTGCCATCGAGA-GTCAAAAATTAC
130 -AAATTTCACCTAAAATTACTATTTTT-CCATC-AAACGTCAAAAA-TAC
7018735 CATTTT
1 CATTTT
7018741 GCCCTCGAGA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
176 47 0.30
177 105 0.66
178 7 0.04
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (175 bp):
CATTTTTAACCCCAATTTCACCAAAAAATACCATTTTACCCTAAACTTTCCAAAATCCCATTTTT
AACCCCAATTTCACCAAAAACTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCA
AATTTCACCTAAAATTACTATTTTTCCATCAAACGTCAAAAATAC
Found at i:7018757 original size:29 final size:28
Alignment explanation
Indices: 7018700--7018753 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
7018690 AATTTTCCTG
*
7018700 AAATTACATTTTTGCCATCGAGAGTCAA
1 AAATTACATTTTTGCCATCGAGAATCAA
*
7018728 AAATTACCA-TTTTGCCCTCGAGAATC
1 AAATTA-CATTTTTGCCATCGAGAATC
7018754 CAAAGGTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (28 bp):
AAATTACATTTTTGCCATCGAGAATCAA
Found at i:7020712 original size:30 final size:29
Alignment explanation
Indices: 7020670--7020744 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
7020660 TTTAATATCT
* *
7020670 ACTTTATAATTTTTAAAAAATAAAATAAA
1 ACTTTATCATTTTTAAAAAACAAAATAAA
* * *
7020699 ATTTTTATCATTTTAAAAAAACAAAATATA
1 A-CTTTATCATTTTTAAAAAACAAAATAAA
7020729 ACTTTATC-TTTTTAAA
1 ACTTTATCATTTTTAAA
7020745 TTTAAATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 7 0.18
29 7 0.18
30 24 0.63
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (29 bp):
ACTTTATCATTTTTAAAAAACAAAATAAA
Found at i:7023015 original size:23 final size:23
Alignment explanation
Indices: 7022989--7023039 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
7022979 GATTTTTAAA
*
7022989 ATTTTCTAAAATAT-TTTTTTCGT
1 ATTTT-TAAAATATATTTTTTCAT
*
7023012 A-TTTTGAAATATATTTTTTCAT
1 ATTTTTAAAATATATTTTTTCAT
7023034 ATTTTT
1 ATTTTT
7023040 TATTTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 7 0.29
22 12 0.50
23 5 0.21
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (23 bp):
ATTTTTAAAATATATTTTTTCAT
Found at i:7023021 original size:21 final size:22
Alignment explanation
Indices: 7022997--7023038 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7022987 AAATTTTCTA
*
7022997 AAATAT-TTTTTTCGTATTTTG
1 AAATATATTTTTTCATATTTTG
7023018 AAATATATTTTTTCATATTTT
1 AAATATATTTTTTCATATTTT
7023039 TTATTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (22 bp):
AAATATATTTTTTCATATTTTG
Found at i:7023035 original size:10 final size:10
Alignment explanation
Indices: 7023022--7023057 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
7023012 ATTTTGAAAT
7023022 ATATTTTTTC
1 ATATTTTTTC
7023032 ATA-TTTTT-
1 ATATTTTTTC
7023040 -TATTTTTTC
1 ATATTTTTTC
7023049 ATATTTTTT
1 ATATTTTTT
7023058 ATTTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
7 2 0.09
8 5 0.22
9 5 0.22
10 11 0.48
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (10 bp):
ATATTTTTTC
Found at i:7023045 original size:17 final size:17
Alignment explanation
Indices: 7023023--7023061 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
7023013 TTTTGAAATA
7023023 TATTTTTTCATATTTTT
1 TATTTTTTCATATTTTT
7023040 TATTTTTTCATATTTTT
1 TATTTTTTCATATTTTT
7023057 TATTT
1 TATTT
7023062 AAAATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTTTCATATTTTT
Found at i:7023888 original size:13 final size:14
Alignment explanation
Indices: 7023865--7023894 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7023855 TTCAAATATC
7023865 AATATAATAATAAT
1 AATATAATAATAAT
7023879 AATA-AATAATAAT
1 AATATAATAATAAT
7023892 AAT
1 AAT
7023895 TTTGTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATATAATAATAAT
Found at i:7049817 original size:75 final size:74
Alignment explanation
Indices: 7049691--7049837 Score: 197
Period size: 75 Copynumber: 2.0 Consensus size: 74
7049681 TTGGAGGAAC
* *
7049691 CTACTTATATTTTTGGGAGTGTTATAGTATATATATAAAGGGGAAACTTGCAAAAATCTTAAACC
1 CTACTTATATTTTTGAGAGAGTTATAGTATATATATAAAGGGGAAACTTGCAAAAATCTTAAACC
7049756 TTGTGAAGGG
66 TTG-GAAGGG
* * ** *
7049766 CTACTTATATTTTTGAGAGAGTTATAGTATATCTATAACGAGTTAAA-TTGCAAAAATTTTAAAC
1 CTACTTATATTTTTGAGAGAGTTATAGTATATATATAAAG-GGGAAACTTGCAAAAATCTTAAAC
*
7049830 TTTGGAAG
65 CTTGGAAG
7049838 ATCATGACCC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
74 4 0.06
75 55 0.87
76 4 0.06
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (74 bp):
CTACTTATATTTTTGAGAGAGTTATAGTATATATATAAAGGGGAAACTTGCAAAAATCTTAAACC
TTGGAAGGG
Found at i:7051946 original size:7 final size:7
Alignment explanation
Indices: 7051934--7051986 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
7051924 TGCTTTTGTG
7051934 AATGGTC
1 AATGGTC
7051941 AATGGTC
1 AATGGTC
7051948 AATGGTC
1 AATGGTC
*
7051955 AATGGTA
1 AATGGTC
*
7051962 AATGGTA
1 AATGGTC
*
7051969 AATGATC
1 AATGGTC
7051976 AATGGTC
1 AATGGTC
7051983 AATG
1 AATG
7051987 CTGTTATTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.28
Consensus pattern (7 bp):
AATGGTC
Found at i:7055011 original size:29 final size:29
Alignment explanation
Indices: 7054978--7055048 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
7054968 TAATTTCCCT
7054978 GCCCTTTTCTTCCTTCGATTACTGTCATA
1 GCCCTTTTCTTCCTTCGATTACTGTCATA
7055007 GCCCTTTTCTTCCTTCGATTACTGTCATA
1 GCCCTTTTCTTCCTTCGATTACTGTCATA
7055036 GCCCTTTTCTTCC
1 GCCCTTTTCTTCC
7055049 CATGCCTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.11, C:0.34, G:0.10, T:0.45
Consensus pattern (29 bp):
GCCCTTTTCTTCCTTCGATTACTGTCATA
Found at i:7057719 original size:31 final size:31
Alignment explanation
Indices: 7057673--7057751 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
7057663 CCAATGGCTA
7057673 ATATATTT-TTTAAATAAGTTCTTAAATGATT
1 ATAT-TTTATTTAAATAAGTTCTTAAATGATT
*
7057704 ATATTTTATTTAAATAAGTTCTTAAATTATT
1 ATATTTTATTTAAATAAGTTCTTAAATGATT
* *
7057735 -T-TTGTAGTTAAATAAGT
1 ATATTTTATTTAAATAAGT
7057752 ACCTATGTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 14 0.32
30 4 0.09
31 26 0.59
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.52
Consensus pattern (31 bp):
ATATTTTATTTAAATAAGTTCTTAAATGATT
Found at i:7060983 original size:58 final size:58
Alignment explanation
Indices: 7060895--7061040 Score: 174
Period size: 58 Copynumber: 2.5 Consensus size: 58
7060885 ATATATTATA
* *
7060895 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-AT
* *
7060952 ATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
*
7061012 ATTTTTATTCAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
7061041 CATTAAAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
57 1 0.01
58 47 0.61
59 11 0.14
60 10 0.13
61 8 0.10
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
Found at i:7061178 original size:39 final size:44
Alignment explanation
Indices: 7061123--7061227 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 44
7061113 TTTCTTATGC
*
7061123 TATTACAGCATC-ATTCCATT-CAACCAA-ACACAA-GAA-TA-T
1 TATTACAGC-TCTATTCCATTCCAACCAACAAACAATGAATTACT
*
7061162 TATTACAGCTCTATTCCATTCCAATCAACCAAACAATTGAATTACT
1 TATTACAGCTCTATTCCATTCCAACCAA-CAAACAA-TGAATTACT
*
7061208 GATTACAGCTCTATTCCATT
1 TATTACAGCTCTATTCCATT
7061228 ACAGCTCTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
38 2 0.04
39 17 0.31
40 6 0.11
42 5 0.09
44 3 0.05
45 2 0.04
46 20 0.36
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (44 bp):
TATTACAGCTCTATTCCATTCCAACCAACAAACAATGAATTACT
Found at i:7061226 original size:46 final size:44
Alignment explanation
Indices: 7061134--7061227 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
7061124 ATTACAGCAT
* *
7061134 CATTCCATTCAACCAAACACAAGAATATTATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
*
7061178 CATTCCAATCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACA-AGAA-TA-TGATTACAGCTCTATTC
7061224 CATT
1 CATT
7061228 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 2 0.05
46 20 0.45
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
Found at i:7061230 original size:16 final size:16
Alignment explanation
Indices: 7061209--7061280 Score: 135
Period size: 16 Copynumber: 4.5 Consensus size: 16
7061199 TGAATTACTG
7061209 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
7061225 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
7061241 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
7061257 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
7061273 ATTACAGC
1 ATTACAGC
7061281 GAACCAAACG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 54 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:7061566 original size:61 final size:61
Alignment explanation
Indices: 7061442--7061566 Score: 135
Period size: 61 Copynumber: 2.1 Consensus size: 61
7061432 TTTTTTTTAA
* * * * * ** * * *
7061442 TTTTTAGATTTAGGACTAAATTGATAGATTTTGTAAATGTTGAGGGCCGAATTTATTAATT
1 TTTTTAGAATTAGAACTAAAATGATAAAATTTGTAAAAATTGAGGGCCAAAATGATTAATT
* *
7061503 TTTTTAGAATTAGAACTAAAATGATAAAATTTGTAAAAATTGAGGGCTAAAATGGTT-ATT
1 TTTTTAGAATTAGAACTAAAATGATAAAATTTGTAAAAATTGAGGGCCAAAATGATTAATT
7061563 TTTT
1 TTTT
7061567 ATATTTAGGA
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
60 7 0.13
61 45 0.87
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.42
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGATAAAATTTGTAAAAATTGAGGGCCAAAATGATTAATT
Found at i:7062054 original size:29 final size:29
Alignment explanation
Indices: 7061995--7062105 Score: 71
Period size: 31 Copynumber: 3.7 Consensus size: 29
7061985 ATCTCAAAAT
* * **
7061995 TATATATGAACTTTAATTTAATGTGTTATTA
1 TATATATAAACTTTAATTT--GGTGCAATTA
7062026 TATATATAAACTTTAATTTGGTGCAATTA
1 TATATATAAACTTTAATTTGGTGCAATTA
* * * * *
7062055 TAGACGTA-AAACTCTAATTGTGGTTCAAATC
1 TATA--TATAAACTTTAATT-TGGTGCAATTA
*
7062086 TATAAATGAAACTTTAATTT
1 TATATAT-AAACTTTAATTT
7062106 TGATTTAATC
Statistics
Matches: 63, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
29 11 0.17
30 11 0.17
31 41 0.65
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (29 bp):
TATATATAAACTTTAATTTGGTGCAATTA
Found at i:7077581 original size:21 final size:20
Alignment explanation
Indices: 7077543--7077586 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
7077533 TTTTATCATA
* *
7077543 ATTTGAATTTTTATTATAAT
1 ATTTAAATTTTTAATATAAT
7077563 ATTTAAATTTTTAA-AT-AT
1 ATTTAAATTTTTAATATAAT
7077581 ATTTAA
1 ATTTAA
7077587 TAATTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 2 0.09
20 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTAAATTTTTAATATAAT
Found at i:7077657 original size:14 final size:15
Alignment explanation
Indices: 7077624--7077661 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
7077614 ACTAATTATG
7077624 ATAATTAAAAATATA
1 ATAATTAAAAATATA
7077639 ATAATTAAAAA-A-A
1 ATAATTAAAAATATA
7077652 ATTAATTAAA
1 A-TAATTAAA
7077662 CATTAAGTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 9 0.41
15 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAATTAAAAATATA
Found at i:7077758 original size:3 final size:3
Alignment explanation
Indices: 7077750--7077791 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
7077740 TATATTGATT
7077750 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7077792 AGTCAATCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7080694 original size:21 final size:20
Alignment explanation
Indices: 7080655--7080703 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
7080645 AAAAAAAAGA
*
7080655 AAATT-AAAATTGAAACATG
1 AAATTAAAAATGGAAACATG
*
7080674 AAGATTAAAAATGGAAGCATG
1 AA-ATTAAAAATGGAAACATG
7080695 AAATTAAAA
1 AAATTAAAA
7080704 TAATAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 14 0.54
ACGTcount: A:0.59, C:0.04, G:0.14, T:0.22
Consensus pattern (20 bp):
AAATTAAAAATGGAAACATG
Found at i:7097895 original size:26 final size:26
Alignment explanation
Indices: 7097846--7097895 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
7097836 ATAAAAACCC
* *
7097846 AGAAAAGAAGCTAACTAACCTCCAAA
1 AGAAAAGAAGCTAACAAACATCCAAA
7097872 AGAAAAGAAGCTAGA-AAACATCCA
1 AGAAAAGAAGCTA-ACAAACATCCA
7097896 TTGGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.56, C:0.20, G:0.14, T:0.10
Consensus pattern (26 bp):
AGAAAAGAAGCTAACAAACATCCAAA
Found at i:7100639 original size:15 final size:15
Alignment explanation
Indices: 7100616--7100668 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
7100606 TTTCTTTCTC
7100616 TTATATTATATTTTAA
1 TTAT-TTATATTTTAA
* *
7100632 TTATTTATGTTTAAA
1 TTATTTATATTTTAA
*
7100647 ATA-TTATATTTTAA
1 TTATTTATATTTTAA
7100661 TTATTTAT
1 TTATTTAT
7100669 GTTATCTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 11 0.37
15 15 0.50
16 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
TTATTTATATTTTAA
Found at i:7100644 original size:14 final size:14
Alignment explanation
Indices: 7100627--7100671 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
7100617 TATATTATAT
7100627 TTTAATTATTTATG
1 TTTAATTATTTATG
*
7100641 TTTAAAATATTATAT-
1 TTT-AATTATT-TATG
7100656 TTTAATTATTTATG
1 TTTAATTATTTATG
7100670 TT
1 TT
7100672 ATCTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 3 0.12
14 11 0.42
15 9 0.35
16 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTAATTATTTATG
Found at i:7100825 original size:18 final size:18
Alignment explanation
Indices: 7100802--7100846 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
7100792 AATTGATTTT
7100802 TTAATTAAATAAATTTAA
1 TTAATTAAATAAATTTAA
***
7100820 TTAATTAAATTTTTTTAA
1 TTAATTAAATAAATTTAA
7100838 TTAATTAAA
1 TTAATTAAA
7100847 GGAAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATTAAATAAATTTAA
Found at i:7100837 original size:14 final size:14
Alignment explanation
Indices: 7100801--7100841 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
7100791 TAATTGATTT
*
7100801 TTTAATTAAATAAA
1 TTTAATTAATTAAA
7100815 TTTAATTAATTAAA
1 TTTAATTAATTAAA
**
7100829 TTTTTTTAATTAA
1 TTTAATTAATTAA
7100842 TTAAAGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:7105627 original size:20 final size:21
Alignment explanation
Indices: 7105598--7105639 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
7105588 AATTAATGAT
7105598 ATTAACAATTT-AAAAAAATA
1 ATTAACAATTTGAAAAAAATA
* *
7105618 ATTAATAATTTGAAAAATATA
1 ATTAACAATTTGAAAAAAATA
7105639 A
1 A
7105640 AAAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
ATTAACAATTTGAAAAAAATA
Found at i:7106324 original size:31 final size:30
Alignment explanation
Indices: 7106262--7106331 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
7106252 AAAAAATAAC
* *
7106262 AATTCAAGGACTTATAAATTTTTTTTGAAT
1 AATTCAATGACTTATAAATTTTTTTTAAAT
7106292 AATTCAATGACTTAAATAAA-TTTTTTTAAAT
1 AATTCAATGACTT--ATAAATTTTTTTTAAAT
7106323 AATTCAATG
1 AATTCAATG
7106332 TTTAAAATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 12 0.33
31 19 0.53
32 5 0.14
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (30 bp):
AATTCAATGACTTATAAATTTTTTTTAAAT
Found at i:7109909 original size:63 final size:64
Alignment explanation
Indices: 7109789--7109949 Score: 191
Period size: 63 Copynumber: 2.4 Consensus size: 64
7109779 GGCATCTATC
7109789 CATCCAAAATCTAATACTTATGATTTTTTTTGTTTATTTATTTATTTTCATATTATTGTTTTAAA
1 CATCCAAAATCT--T-C-TATGATTTTTTTT-TTTATTTATTTA-TTTCATATTATTGTTTTAAA
7109854 AAAGA
60 AAAGA
* * *
7109859 CATCCAAAATGTTCTATGATTTTTTTTTTTCTCTT-TTTA-TTCATATTATTGTTTTAATAAAGA
1 CATCCAAAATCTTCTATGATTTTTTTTTTTAT-TTATTTATTTCATATTATTGTTTTAAAAAAGA
* * *
7109922 CATCCAGAATCTTTTATGATTTTGTTTT
1 CATCCAAAATCTTCTATGATTTTTTTTT
7109950 GTATATTCTT
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
63 47 0.57
65 8 0.10
66 15 0.18
67 1 0.01
68 1 0.01
70 11 0.13
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.54
Consensus pattern (64 bp):
CATCCAAAATCTTCTATGATTTTTTTTTTTATTTATTTATTTCATATTATTGTTTTAAAAAAGA
Found at i:7110514 original size:4 final size:4
Alignment explanation
Indices: 7110505--7110544 Score: 53
Period size: 4 Copynumber: 9.2 Consensus size: 4
7110495 TTACATAAAA
7110505 TAAT TAAT TAAT TAAT TAAT TAAT TATATT TATAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TA-A-T TA-AT TAAT T
7110545 TAACATGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 25 0.74
5 4 0.12
6 5 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (4 bp):
TAAT
Found at i:7111345 original size:18 final size:18
Alignment explanation
Indices: 7111322--7111364 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7111312 GAATAAAATT
7111322 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
7111340 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
7111358 TTAATTA
1 TTAATTA
7111365 CAATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:7116280 original size:3 final size:3
Alignment explanation
Indices: 7116272--7116312 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7116262 TCATGTTGGT
7116272 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7116313 TTCGTATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7118421 original size:15 final size:15
Alignment explanation
Indices: 7118379--7118421 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
7118369 CTTATATTTT
7118379 ATAAATTAAGAAATA
1 ATAAATTAAGAAATA
* **
7118394 TTAGTTTAA-AAATA
1 ATAAATTAAGAAATA
7118408 ATAAATTAAGAAAT
1 ATAAATTAAGAAAT
7118422 TTTGGTTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
ATAAATTAAGAAATA
Found at i:7125669 original size:4 final size:4
Alignment explanation
Indices: 7125655--7125686 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
7125645 CAAAGCCATC
7125655 TTAA TTTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA -TTAA TTAA TTAA TTAA TTAA TTAA TTA
7125687 GAATGGTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:7126373 original size:7 final size:7
Alignment explanation
Indices: 7126361--7126385 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7126351 GTATATTAGC
7126361 ATTCACG
1 ATTCACG
7126368 ATTCACG
1 ATTCACG
7126375 ATTCACG
1 ATTCACG
7126382 ATTC
1 ATTC
7126386 GATTCAATAC
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:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (7 bp):
ATTCACG
Found at i:7127856 original size:21 final size:20
Alignment explanation
Indices: 7127809--7127859 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
7127799 ATCTTTGGTT
*
7127809 TTAATTTCACTATTATAATA
1 TTAATTTCACTATTACAATA
*
7127829 TTCAATTTCACTATTACAGTAA
1 TT-AATTTCACTATTACAAT-A
7127851 TTAATTTCA
1 TTAATTTCA
7127860 TTAACACTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (20 bp):
TTAATTTCACTATTACAATA
Found at i:7132194 original size:28 final size:28
Alignment explanation
Indices: 7132144--7132206 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
7132134 TTGTTCCCGT
*
7132144 ATTTAATGCCTTAACGTCATTT-CCTCAC
1 ATTTAATGCCTTAACATCATTTCCCT-AC
* * *
7132172 ATTTAATGTCTTAATATCTTTTCCCTAC
1 ATTTAATGCCTTAACATCATTTCCCTAC
7132200 ATTTAAT
1 ATTTAAT
7132207 CTTTAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 27 0.90
29 3 0.10
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (28 bp):
ATTTAATGCCTTAACATCATTTCCCTAC
Found at i:7133148 original size:21 final size:21
Alignment explanation
Indices: 7133110--7133149 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7133100 TGCATATAAT
7133110 AAATTATATTAGAAATATTAG
1 AAATTATATTAGAAATATTAG
*
7133131 AAATTCTATTA-AACATATT
1 AAATTATATTAGAA-ATATT
7133150 GTTAGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
AAATTATATTAGAAATATTAG
Found at i:7133632 original size:41 final size:37
Alignment explanation
Indices: 7133584--7133677 Score: 118
Period size: 38 Copynumber: 2.4 Consensus size: 37
7133574 TAAAAAGTGT
7133584 TTATATTAAAATATACCACCATAAATATAATAAATGTTTTA
1 TTATATTAAAATATA--A--ATAAATATAATAAATGTTTTA
*
7133625 TTATATTAAAAACATAAATAAATATAATAAATGTTTTA
1 TTATATT-AAAATATAAATAAATATAATAAATGTTTTA
*
7133663 TTGTATT-AAATATAA
1 TTATATTAAAATATAA
7133678 TTTTTAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
36 7 0.14
38 27 0.55
40 1 0.02
41 7 0.14
42 7 0.14
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.40
Consensus pattern (37 bp):
TTATATTAAAATATAAATAAATATAATAAATGTTTTA
Found at i:7138226 original size:3 final size:3
Alignment explanation
Indices: 7138218--7138246 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7138208 ATGGCTGTTC
7138218 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7138247 GGAACCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7139047 original size:16 final size:16
Alignment explanation
Indices: 7139026--7139059 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7139016 GAGCATTGGT
7139026 ATGAATAATACTATAA
1 ATGAATAATACTATAA
*
7139042 ATGAATAATATTATAA
1 ATGAATAATACTATAA
7139058 AT
1 AT
7139060 ATTCTTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
ATGAATAATACTATAA
Found at i:7149745 original size:13 final size:14
Alignment explanation
Indices: 7149719--7149751 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
7149709 AAATTCTTAT
7149719 AATATAGCTAAATA
1 AATATAGCTAAATA
*
7149733 AATATATCT-AATA
1 AATATAGCTAAATA
7149746 AATATA
1 AATATA
7149752 AAAAAAACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (14 bp):
AATATAGCTAAATA
Found at i:7153706 original size:6 final size:6
Alignment explanation
Indices: 7153681--7153711 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
7153671 CCTCATCCTT
*
7153681 CCCCTC CCCCTC CCCCTC CCCCTC CCACTC C
1 CCCCTC CCCCTC CCCCTC CCCCTC CCCCTC C
7153712 ATCCCTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.81, G:0.00, T:0.16
Consensus pattern (6 bp):
CCCCTC
Found at i:7153791 original size:3 final size:3
Alignment explanation
Indices: 7153783--7153831 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
7153773 GCATTTGCAG
* * * *
7153783 CTC CTC CTC CTC CTC CTC CTC CCC CTC CCC CTC CCC CTC CCC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
7153831 C
1 C
7153832 ATTTTCTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24
Consensus pattern (3 bp):
CTC
Found at i:7154070 original size:6 final size:6
Alignment explanation
Indices: 7154055--7154099 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
7154045 AGTGCCATCA
* *
7154055 CCCCCG CCCCCT CCCCCT CCCCCT CCCCCT CCCCGT CCCCCT CCC
1 CCCCCT CCCCCT CCCCCT CCCCCT CCCCCT CCCCCT CCCCCT CCC
7154100 ATGTCTAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.82, G:0.04, T:0.13
Consensus pattern (6 bp):
CCCCCT
Found at i:7154393 original size:6 final size:6
Alignment explanation
Indices: 7154382--7154410 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7154372 TGTGCCTGGT
7154382 CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
7154411 CCCATCGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.69, G:0.00, T:0.17
Consensus pattern (6 bp):
CCTCCA
Found at i:7154566 original size:33 final size:33
Alignment explanation
Indices: 7154514--7154595 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 33
7154504 TCCTCCCCCA
* * * *
7154514 CGTGGAGCTCCACCCCCACCACCTCCACCTACT-
1 CGTGGAGCACCAGCACCACCACCACCACCTA-TG
* *
7154547 CGTGGAGCACCAGCACCACCCCCACCTCCTATG
1 CGTGGAGCACCAGCACCACCACCACCACCTATG
*
7154580 CGTGGAGCACCTGCAC
1 CGTGGAGCACCAGCAC
7154596 TGCCCCCTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 1 0.02
33 40 0.98
ACGTcount: A:0.20, C:0.49, G:0.18, T:0.13
Consensus pattern (33 bp):
CGTGGAGCACCAGCACCACCACCACCACCTATG
Found at i:7154602 original size:33 final size:33
Alignment explanation
Indices: 7154547--7154614 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
7154537 TCCACCTACT
7154547 CGTGGAGCACCAGCACCACCCCCACCTCCTATG
1 CGTGGAGCACCAGCACCACCCCCACCTCCTATG
* ** * *
7154580 CGTGGAGCACCTGCACTGCCCCCTCCTCCTGTG
1 CGTGGAGCACCAGCACCACCCCCACCTCCTATG
7154613 CG
1 CG
7154615 GGGGGCTCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.15, C:0.47, G:0.22, T:0.16
Consensus pattern (33 bp):
CGTGGAGCACCAGCACCACCCCCACCTCCTATG
Found at i:7167566 original size:20 final size:20
Alignment explanation
Indices: 7167541--7167580 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7167531 CAAATACACT
7167541 AAAAAATAACTA-AAACATGA
1 AAAAAATAA-TATAAACATGA
7167561 AAAAAATAATATAAACATGA
1 AAAAAATAATATAAACATGA
7167581 TAAGAATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.17
Consensus pattern (20 bp):
AAAAAATAATATAAACATGA
Found at i:7171928 original size:35 final size:36
Alignment explanation
Indices: 7171889--7171957 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
7171879 CTTTTCCACG
*
7171889 ATTTTTTAAAATTATTATT-TTATGTTATATTTGTA
1 ATTTTTTAAAATTATTATTAATATGTTATATTTGTA
*
7171924 ATTTTTTAAAATTATTATTAATATGTTATTTTTG
1 ATTTTTTAAAATTATTATTAATATGTTATATTTG
7171958 ATCATCCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (36 bp):
ATTTTTTAAAATTATTATTAATATGTTATATTTGTA
Found at i:7173089 original size:3 final size:3
Alignment explanation
Indices: 7173081--7173113 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7173071 AACATTGGTT
7173081 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
7173114 AAGTGTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:7174688 original size:18 final size:18
Alignment explanation
Indices: 7174656--7174709 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
7174646 CGGTCTCTGT
7174656 CTTCCCTAT-ATCGATC-C
1 CTTCCCTATCA-CGATCAC
*
7174673 CTATCCCTATCCCGATCAC
1 CT-TCCCTATCACGATCAC
*
7174692 GTTCCCTATCACGATCAC
1 CTTCCCTATCACGATCAC
7174710 GATCTCTAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 2 0.06
18 27 0.87
19 2 0.06
ACGTcount: A:0.20, C:0.43, G:0.07, T:0.30
Consensus pattern (18 bp):
CTTCCCTATCACGATCAC
Found at i:7174710 original size:18 final size:18
Alignment explanation
Indices: 7174676--7174710 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7174666 TCGATCCCTA
*
7174676 TCCCTATCCCGATCACGT
1 TCCCTATCACGATCACGT
7174694 TCCCTATCACGATCACG
1 TCCCTATCACGATCACG
7174711 ATCTCTAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.43, G:0.11, T:0.26
Consensus pattern (18 bp):
TCCCTATCACGATCACGT
Found at i:7177384 original size:19 final size:17
Alignment explanation
Indices: 7177360--7177398 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7177350 AATTTTTATG
7177360 TTTTTAATCATTATAATAT
1 TTTTTAAT--TTATAATAT
*
7177379 TTTTTAATTTTTAATAT
1 TTTTTAATTTATAATAT
7177396 TTT
1 TTT
7177399 AATTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
19 8 0.42
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTAATTTATAATAT
Found at i:7177404 original size:19 final size:17
Alignment explanation
Indices: 7177338--7177409 Score: 58
Period size: 19 Copynumber: 4.0 Consensus size: 17
7177328 AAAATATAAA
7177338 AATATTTGTTATAATTTTT
1 AATATTT-TT-TAATTTTT
* *
7177357 -AT-GTTTTTAATCATTAT
1 AATATTTTTTAAT--TTTT
7177374 AATATTTTTTAATTTTT
1 AATATTTTTTAATTTTT
7177391 AATATTTTAATTAATTTTT
1 AATATTTT--TTAATTTTT
7177410 GACGTGGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
15 4 0.09
16 2 0.05
17 16 0.37
18 4 0.09
19 17 0.40
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (17 bp):
AATATTTTTTAATTTTT
Found at i:7177408 original size:26 final size:27
Alignment explanation
Indices: 7177348--7177409 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
7177338 AATATTTGTT
*
7177348 ATAATTTTTATGTTTTTAATCATTATA
1 ATAATTTTTATATTTTTAATCATTATA
* *
7177375 ATATTTTTTA-ATTTTTAAT-ATTTTA
1 ATAATTTTTATATTTTTAATCATTATA
7177400 ATTAATTTTT
1 A-TAATTTTT
7177410 GACGTGGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 6 0.20
26 15 0.50
27 9 0.30
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
ATAATTTTTATATTTTTAATCATTATA
Found at i:7196780 original size:16 final size:17
Alignment explanation
Indices: 7196754--7196786 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
7196744 TATTTTAATT
7196754 TTTTATTTAATTTTTAA
1 TTTTATTTAATTTTTAA
7196771 TTTT-TTTAATTTTTAA
1 TTTTATTTAATTTTTAA
7196787 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTTAATTTTTAA
Found at i:7196794 original size:28 final size:28
Alignment explanation
Indices: 7196741--7196796 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
7196731 TTTATAAAAA
* *
7196741 AATTATTTTAATTTTTTATTTAATTTTT
1 AATTATTTTAATTTTTAAATTAATTTTT
* *
7196769 AATTTTTTTAATTTTTAAATTGATTTTT
1 AATTATTTTAATTTTTAAATTAATTTTT
7196797 TTTCAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (28 bp):
AATTATTTTAATTTTTAAATTAATTTTT
Found at i:7209806 original size:17 final size:17
Alignment explanation
Indices: 7209774--7209820 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
7209764 AAACAATATT
*
7209774 TTAAAATGAT-AAAATC
1 TTAAAATAATAAAAATC
7209790 TTAAAATAATAAAAATC
1 TTAAAATAATAAAAATC
* *
7209807 GTAAAATAACAAAA
1 TTAAAATAATAAAA
7209821 TCACCGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (17 bp):
TTAAAATAATAAAAATC
Found at i:7214105 original size:27 final size:29
Alignment explanation
Indices: 7214066--7214129 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 29
7214056 TGTTTTAATG
*
7214066 TTTTT-AATGTATTTGATGT-AT-TATAT
1 TTTTTAAATGTATTTGATATAATATATAT
* *
7214092 TTTTTAAATTTATTTTATATAATAATATAT
1 TTTTTAAATGTATTTGATATAAT-ATATAT
7214122 TTTTTAAA
1 TTTTTAAA
7214130 AAATTAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 5 0.16
27 11 0.35
28 2 0.06
30 13 0.42
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (29 bp):
TTTTTAAATGTATTTGATATAATATATAT
Found at i:7219226 original size:29 final size:30
Alignment explanation
Indices: 7219186--7219270 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 30
7219176 TTTAATGTGT
*
7219186 AATTGTATACATG-AACTTTAATTTGGCTC
1 AATTATATACATGAAACTTTAATTTGGCTC
* *
7219215 AATTATATACATGAAACTCTAATTGTGGGTC
1 AATTATATACATGAAACTTTAATT-TGGCTC
* * *
7219246 AAATATATGCTTGAAACTTTAATTT
1 AATTATATACATGAAACTTTAATTT
7219271 TGATTTAATC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
29 12 0.26
30 10 0.21
31 25 0.53
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (30 bp):
AATTATATACATGAAACTTTAATTTGGCTC
Found at i:7219454 original size:29 final size:30
Alignment explanation
Indices: 7219412--7219492 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 30
7219402 TAATTGGATC
*
7219412 AAATCAAAATTTCATGTATAAAAT-TACACA
1 AAATC-AAAGTTCATGTATAAAATGTACACA
* **
7219442 AAATCAAAGTTCATGTATACAATTGTACATT
1 AAATCAAAGTTCATGTATA-AAATGTACACA
*
7219473 AAATCATAGTTCATGTATAA
1 AAATCAAAGTTCATGTATAA
7219493 TTTTGAGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 13 0.30
30 9 0.20
31 22 0.50
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATGTACACA
Found at i:7220862 original size:30 final size:28
Alignment explanation
Indices: 7220778--7220863 Score: 75
Period size: 30 Copynumber: 2.9 Consensus size: 28
7220768 ATTTAGCTTT
* * *
7220778 CTAATGTTTACAAATTCTATCAATTCGATC
1 CTAAT-TTTAAAAATTCTATCAATT-TAAC
* *
7220808 CTAATTCTAAAAATTC-AACAAATTTAAC
1 CTAATTTTAAAAATTCTATC-AATTTAAC
7220836 CATCAATTTTAAAAATTCTATCAATTTA
1 C-T-AATTTTAAAAATTCTATCAATTTA
7220864 GTCTTGGTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.11
29 14 0.31
30 24 0.53
31 2 0.04
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.38
Consensus pattern (28 bp):
CTAATTTTAAAAATTCTATCAATTTAAC
Found at i:7222739 original size:26 final size:24
Alignment explanation
Indices: 7222693--7222740 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
7222683 ATTATTTTAT
*
7222693 TATATAAATAATTTTAAAATATGA
1 TATATAAATAATTTAAAAATATGA
7222717 TATATCAAATATATTTAAAAATAT
1 TATAT-AAATA-ATTTAAAAATAT
7222741 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 5 0.24
26 11 0.52
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
TATATAAATAATTTAAAAATATGA
Found at i:7222750 original size:12 final size:12
Alignment explanation
Indices: 7222735--7222760 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7222725 ATATATTTAA
7222735 AAATATTAAAAC
1 AAATATTAAAAC
7222747 AAATATTAAAAC
1 AAATATTAAAAC
7222759 AA
1 AA
7222761 CAAACAAATT
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:7222798 original size:41 final size:41
Alignment explanation
Indices: 7222737--7222857 Score: 206
Period size: 41 Copynumber: 3.0 Consensus size: 41
7222727 ATATTTAAAA
* **
7222737 ATATTAAAACAAATATTAAAACAACAAACAAATTAAAAACG
1 ATATTAAAACAATTCGTAAAACAACAAACAAATTAAAAACG
7222778 ATATTAAAACAATTCGTAAAACAACAAACAAATTAAAAACG
1 ATATTAAAACAATTCGTAAAACAACAAACAAATTAAAAACG
*
7222819 ATATTAAAACAATTCGTAAAACAACAAACAAATTGAAAA
1 ATATTAAAACAATTCGTAAAACAACAAACAAATTAAAAA
7222858 TACAATAAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.63, C:0.13, G:0.04, T:0.20
Consensus pattern (41 bp):
ATATTAAAACAATTCGTAAAACAACAAACAAATTAAAAACG
Found at i:7223687 original size:28 final size:31
Alignment explanation
Indices: 7223623--7223688 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 31
7223613 TAAGTAAAAT
*
7223623 AATAACATGTCATTTCATGTACCATTGAGGAAC
1 AATAACATGTCATTTCA-GTA-CATTAAGGAAC
*
7223656 AATAACATGTCATTTCA-T-CATTAAGTAA-
1 AATAACATGTCATTTCAGTACATTAAGGAAC
7223684 AATAA
1 AATAA
7223689 AAAATAATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 5 0.16
29 8 0.26
31 1 0.03
33 17 0.55
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (31 bp):
AATAACATGTCATTTCAGTACATTAAGGAAC
Found at i:7236885 original size:6 final size:6
Alignment explanation
Indices: 7236874--7236901 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7236864 GGCACCATCT
7236874 CTATCC CTATCC CTATCC CTATCC CTAT
1 CTATCC CTATCC CTATCC CTATCC CTAT
7236902 GTCTATCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.00, T:0.36
Consensus pattern (6 bp):
CTATCC
Found at i:7236907 original size:18 final size:18
Alignment explanation
Indices: 7236874--7236921 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
7236864 GGCACCATCT
*
7236874 CTATCCCTATCCCTATCC
1 CTATCCCTATGCCTATCC
*
7236892 CTATCCCTATGTCTATCC
1 CTATCCCTATGCCTATCC
* *
7236910 TTATTCCTATGC
1 CTATCCCTATGC
7236922 TAATCCATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.40, G:0.04, T:0.40
Consensus pattern (18 bp):
CTATCCCTATGCCTATCC
Found at i:7241146 original size:29 final size:30
Alignment explanation
Indices: 7241073--7241176 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 30
7241063 GGTTAAATCA
* *
7241073 AAATTAAAATTTTAAATATATATTTAAACT
1 AAATTAAAATTTTAAATATATAATTAAACC
* **
7241103 AGCATTAAAATTTTAAATATATAATTGTACC
1 A-AATTAAAATTTTAAATATATAATTAAACC
* * **
7241134 AAATTAAAA-TTTATATATGTAATTACACATT
1 AAATTAAAATTTTAAATATATAATTA-A-ACC
7241165 AAATTAAAATTT
1 AAATTAAAATTT
7241177 CTGTATAATT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
29 13 0.22
30 8 0.14
31 35 0.60
32 2 0.03
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTAAAATTTTAAATATATAATTAAACC
Found at i:7244752 original size:10 final size:10
Alignment explanation
Indices: 7244739--7244769 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
7244729 TTAAAAATGA
7244739 CTTTGAGTTC
1 CTTTGAGTTC
7244749 CTTTGAGTTC
1 CTTTGAGTTC
7244759 CTTTGAGTTC
1 CTTTGAGTTC
7244769 C
1 C
7244770 AATTAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.10, C:0.23, G:0.19, T:0.48
Consensus pattern (10 bp):
CTTTGAGTTC
Found at i:7258924 original size:16 final size:17
Alignment explanation
Indices: 7258890--7258922 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7258880 AAATATTGAA
7258890 ATTTGTCATTATATTTT
1 ATTTGTCATTATATTTT
7258907 ATTT-TCATTGATATTT
1 ATTTGTCATT-ATATTT
7258923 ATCATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (17 bp):
ATTTGTCATTATATTTT
Found at i:7261278 original size:15 final size:16
Alignment explanation
Indices: 7261258--7261293 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
7261248 CAACTTTCTC
7261258 TATAACAAT-TATTGT
1 TATAACAATATATTGT
*
7261273 TATAACAATATTTTGT
1 TATAACAATATATTGT
7261289 TATAA
1 TATAA
7261294 TAATCAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
TATAACAATATATTGT
Found at i:7261687 original size:32 final size:32
Alignment explanation
Indices: 7261609--7261683 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
7261599 TATAAACATT
* * *
7261609 TAAATTGATTACTTAAATTTAATAACTCATGA
1 TAAATTAATTAATTTAATTTAATAACTCATGA
* *
7261641 TAAATTAATTAATTTAATTTGATAATTCAT-A
1 TAAATTAATTAATTTAATTTAATAACTCATGA
*
7261672 TTAATTAATTAA
1 TAAATTAATTAA
7261684 ATTTGTTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 12 0.32
32 25 0.68
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (32 bp):
TAAATTAATTAATTTAATTTAATAACTCATGA
Found at i:7269665 original size:50 final size:50
Alignment explanation
Indices: 7269598--7269697 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
7269588 CTTCATTACA
* *
7269598 AAAAGCGTTATGGGACAAAAACTTAATGAAGAAAGAAGAACGTACAAATT
1 AAAAGCGCTATGGGACAAAAACTTAATGAAGAAAGAAGAACATACAAATT
7269648 AAAAGCGCTATGGGACAAAAACTTAATGAAGAAAGAAGAACATACAAATT
1 AAAAGCGCTATGGGACAAAAACTTAATGAAGAAAGAAGAACATACAAATT
7269698 TTCATTATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.53, C:0.11, G:0.19, T:0.17
Consensus pattern (50 bp):
AAAAGCGCTATGGGACAAAAACTTAATGAAGAAAGAAGAACATACAAATT
Found at i:7270129 original size:18 final size:19
Alignment explanation
Indices: 7270098--7270135 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
7270088 GGATATGTTG
7270098 AGTCAATCGTCTTAACCAA
1 AGTCAATCGTCTTAACCAA
7270117 AGTCAAT-GTCTTAACCAA
1 AGTCAATCGTCTTAACCAA
7270135 A
1 A
7270136 CACACTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (19 bp):
AGTCAATCGTCTTAACCAA
Found at i:7270267 original size:26 final size:26
Alignment explanation
Indices: 7270215--7270280 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
7270205 GCTGAACACC
7270215 AAAAGAAAAAAC--AT-AAGAAAATA
1 AAAAGAAAAAACAAATAAAGAAAATA
* * *
7270238 AAAAGCAAAAAGAAATAAAGAAAATT
1 AAAAGAAAAAACAAATAAAGAAAATA
7270264 AAAAGAAAAAACAAATA
1 AAAAGAAAAAACAAATA
7270281 GACTGTGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 10 0.29
25 2 0.06
26 23 0.66
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.09
Consensus pattern (26 bp):
AAAAGAAAAAACAAATAAAGAAAATA
Found at i:7274365 original size:15 final size:15
Alignment explanation
Indices: 7274333--7274372 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
7274323 TATAATTAAC
7274333 CACATA-ATATTTCA
1 CACATATATATTTCA
* *
7274347 CACATATATTTTTCT
1 CACATATATATTTCA
7274362 CACATATATAT
1 CACATATATAT
7274373 ATATCATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (15 bp):
CACATATATATTTCA
Found at i:7274778 original size:167 final size:167
Alignment explanation
Indices: 7274575--7274911 Score: 647
Period size: 167 Copynumber: 2.0 Consensus size: 167
7274565 CAGTAAATTC
*
7274575 TTTCAATTTACCCCTTCTCTGCTACCTGACAGTTTCGACCTTTCTTTACTAAAAAATATTTATCT
1 TTTCAATTTACCCCTTCTCTGCAACCTGACAGTTTCGACCTTTCTTTACTAAAAAATATTTATCT
7274640 TTTAGTACAGAGATCCAATAATGTTCTCGTCTGTTTCTTTTGAAAATAGACTCATTAAGTATTCA
66 TTTAGTACAGAGATCCAATAATGTTCTCGTCTGTTTCTTTTGAAAATAGACTCATTAAGTATTCA
7274705 ACCACATAAATTTCAGCCTCTAATAATTTTTCTACAT
131 ACCACATAAATTTCAGCCTCTAATAATTTTTCTACAT
*
7274742 TTTCAATTTACCCCTTCTCTGCAACTTGACAGTTTCGACCTTTCTTTACTAAAAAATATTTATCT
1 TTTCAATTTACCCCTTCTCTGCAACCTGACAGTTTCGACCTTTCTTTACTAAAAAATATTTATCT
7274807 TTTAGTACAGAGATCCAATAATGTTCTCGTCTGTTTCTTTTGAAAATAGACTCATTAAGTATTCA
66 TTTAGTACAGAGATCCAATAATGTTCTCGTCTGTTTCTTTTGAAAATAGACTCATTAAGTATTCA
*
7274872 ACCATATAAATTTCAGCCTCTAATAATTTTTCTACAT
131 ACCACATAAATTTCAGCCTCTAATAATTTTTCTACAT
7274909 TTT
1 TTT
7274912 TCTATGACTT
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 167 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (167 bp):
TTTCAATTTACCCCTTCTCTGCAACCTGACAGTTTCGACCTTTCTTTACTAAAAAATATTTATCT
TTTAGTACAGAGATCCAATAATGTTCTCGTCTGTTTCTTTTGAAAATAGACTCATTAAGTATTCA
ACCACATAAATTTCAGCCTCTAATAATTTTTCTACAT
Found at i:7281783 original size:73 final size:71
Alignment explanation
Indices: 7281611--7281794 Score: 201
Period size: 73 Copynumber: 2.6 Consensus size: 71
7281601 TTATGACTTT
* * * *
7281611 TAGAAATCTTAGGTTCAAACCCT-TGAAGTACATAATTTAGAGGATGACAGAGTTAAATCGATTT
1 TAGAGATCTTAGGTTCAAACCCTGTGAAGTACATGAGTTAGAGGACGACAGAGTTAAATCGATTT
*
7281675 CCAATT
66 CCAATA
* * * * * * *
7281681 TAGAGATATTAGGTTTAGACCCTGGGAAGTTCATGGGTTAGAGGACGACAGAGAGTTAAATTGAT
1 TAGAGATCTTAGGTTCAAACCCTGTGAAGTACATGAGTTAGAGGACGAC--AGAGTTAAATCGAT
7281746 TTCCAGA-A
64 TTCCA-ATA
* *
7281754 TAGAGATCTTAGGTTCAAACCTTGTGAAGTACATGAATTAG
1 TAGAGATCTTAGGTTCAAACCCTGTGAAGTACATGAGTTAG
7281795 GAATGAGAGA
Statistics
Matches: 90, Mismatches: 20, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
70 19 0.21
71 19 0.21
73 51 0.57
74 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (71 bp):
TAGAGATCTTAGGTTCAAACCCTGTGAAGTACATGAGTTAGAGGACGACAGAGTTAAATCGATTT
CCAATA
Found at i:7288766 original size:3 final size:3
Alignment explanation
Indices: 7288739--7288783 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
7288729 ATCTTCTTCT
* * *
7288739 TCA TCA CCA TCA CCA TCA CCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
7288784 AATTCTTCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (3 bp):
TCA
Found at i:7288863 original size:15 final size:15
Alignment explanation
Indices: 7288840--7288869 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7288830 CCTTTTCGAA
7288840 TTCAACAACAGAGAG
1 TTCAACAACAGAGAG
*
7288855 TTCATCAACAGAGAG
1 TTCAACAACAGAGAG
7288870 AGTTGAAATC
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:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (15 bp):
TTCAACAACAGAGAG
Found at i:7292626 original size:37 final size:34
Alignment explanation
Indices: 7292464--7292646 Score: 108
Period size: 37 Copynumber: 5.3 Consensus size: 34
7292454 ACATTCTGAC
* * *
7292464 GTAAGACCATGGTTGGACCATGACAGTGTATATAGAT
1 GTAAGACCATAGTTGGGCTATGACA-T-T-TATAGAT
* * *
7292501 GTAAGACCATAGCTGGGTTATGACATTCA-A-AT
1 GTAAGACCATAGTTGGGCTATGACATTTATAGAT
* * *
7292533 GTTAAAACCATAGTTGGGCTATGACA-TTCT-GAC
1 G-TAAGACCATAGTTGGGCTATGACATTTATAGAT
* * * *
7292566 GTAAGACCATGGTTGGACCATGGCAGTGTATATAGAT
1 GTAAGACCATAGTTGGGCTATGACA-T-T-TATAGAT
* * *
7292603 GTAAGACCATAGCTGGGCTATGGCA-TTCT-GAT
1 GTAAGACCATAGTTGGGCTATGACATTTATAGAT
7292635 GTTAAGACCATA
1 G-TAAGACCATA
7292647 ACTGGGGTTA
Statistics
Matches: 113, Mismatches: 24, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
32 27 0.24
33 36 0.32
34 2 0.02
35 2 0.02
36 3 0.03
37 43 0.38
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (34 bp):
GTAAGACCATAGTTGGGCTATGACATTTATAGAT
Found at i:7292630 original size:102 final size:102
Alignment explanation
Indices: 7292453--7292646 Score: 334
Period size: 102 Copynumber: 1.9 Consensus size: 102
7292443 GGAGACAAGC
7292453 GACATTCTGACGTAAGACCATGGTTGGACCATGACAGTGTATATAGATGTAAGACCATAGCTGGG
1 GACATTCTGACGTAAGACCATGGTTGGACCATGACAGTGTATATAGATGTAAGACCATAGCTGGG
*
7292518 TTATGACATTCAAATGTTAAAACCATAGTTGGGCTAT
66 CTATGACATTCAAATGTTAAAACCATAGTTGGGCTAT
*
7292555 GACATTCTGACGTAAGACCATGGTTGGACCATGGCAGTGTATATAGATGTAAGACCATAGCTGGG
1 GACATTCTGACGTAAGACCATGGTTGGACCATGACAGTGTATATAGATGTAAGACCATAGCTGGG
* ** *
7292620 CTATGGCATTCTGATGTTAAGACCATA
66 CTATGACATTCAAATGTTAAAACCATA
7292647 ACTGGGGTTA
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:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (102 bp):
GACATTCTGACGTAAGACCATGGTTGGACCATGACAGTGTATATAGATGTAAGACCATAGCTGGG
CTATGACATTCAAATGTTAAAACCATAGTTGGGCTAT
Found at i:7292646 original size:33 final size:32
Alignment explanation
Indices: 7292498--7292727 Score: 145
Period size: 33 Copynumber: 6.9 Consensus size: 32
7292488 AGTGTATATA
* * *
7292498 GATGTAAGACCATAGCTGGGTTATGACATTCA
1 GATGTAAGACCATAGCTGGGCTATGGCATTCT
* * * *
7292530 AATGTTAAAACCATAGTTGGGCTATGACATTCT
1 GATG-TAAGACCATAGCTGGGCTATGGCATTCT
* * * * * *
7292563 GACGTAAGACCATGGTTGGACCATGGCAGTGTATAT
1 GATGTAAGACCATAGCTGGGCTATGGCA---T-TCT
7292599 AGATGTAAGACCATAGCTGGGCTATGGCATTCT
1 -GATGTAAGACCATAGCTGGGCTATGGCATTCT
* * *
7292632 GATGTTAAGACCATAACTGGGGTTATGGCATTAT
1 GATG-TAAGACCATAGCT-GGGCTATGGCATTCT
* * * * * *
7292666 GAATGTAAGACCATGGCCGAGCCATGGCAATGCA
1 G-ATGTAAGACCATAGCTGGGCTATGGC-ATTCT
* * *
7292700 CATGTAAGACCATAGTTGGACTATGGCA
1 GATGTAAGACCATAGCTGGGCTATGGCA
7292728 CAATATGAAA
Statistics
Matches: 150, Mismatches: 38, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
32 27 0.18
33 67 0.45
34 27 0.18
35 4 0.03
36 2 0.01
37 23 0.15
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (32 bp):
GATGTAAGACCATAGCTGGGCTATGGCATTCT
Found at i:7292675 original size:34 final size:32
Alignment explanation
Indices: 7292600--7292679 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 32
7292590 AGTGTATATA
* *
7292600 GATGTAAGACCATAGCTGGGCTATGGCATTCT
1 GATGTAAGACCATAACTGGGCTATGGCATTAT
*
7292632 GATGTTAAGACCATAACTGGGGTTATGGCATTAT
1 GATG-TAAGACCATAACT-GGGCTATGGCATTAT
7292666 GAATGTAAGACCAT
1 G-ATGTAAGACCAT
7292680 GGCCGAGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 4 0.10
33 12 0.29
34 23 0.55
35 3 0.07
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (32 bp):
GATGTAAGACCATAACTGGGCTATGGCATTAT
Found at i:7294069 original size:46 final size:46
Alignment explanation
Indices: 7294019--7294132 Score: 156
Period size: 46 Copynumber: 2.5 Consensus size: 46
7294009 AGTGCTGGAG
* * *
7294019 AAACAGTAAGCATACACAGTGCAAATAAATAGGCACACGTAATGCA
1 AAACAGTAAGCACACACAGTGCAAATAAATAAGCACACATAATGCA
* * * *
7294065 AAACAGTAAGCACACACAGTGCAAATCAGTAAGCACATATAGTGCA
1 AAACAGTAAGCACACACAGTGCAAATAAATAAGCACACATAATGCA
*
7294111 AATCAGTAAGCACACACAGTGC
1 AAACAGTAAGCACACACAGTGC
7294133 TGAACAGTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.46, C:0.22, G:0.18, T:0.15
Consensus pattern (46 bp):
AAACAGTAAGCACACACAGTGCAAATAAATAAGCACACATAATGCA
Found at i:7294144 original size:23 final size:23
Alignment explanation
Indices: 7294022--7294132 Score: 132
Period size: 23 Copynumber: 4.8 Consensus size: 23
7294012 GCTGGAGAAA
*
7294022 CAGTAAGCATACACAGTGCAAAT
1 CAGTAAGCACACACAGTGCAAAT
* * * ** * *
7294045 AAATAGGCACACGTAATGCAAAA
1 CAGTAAGCACACACAGTGCAAAT
7294068 CAGTAAGCACACACAGTGCAAAT
1 CAGTAAGCACACACAGTGCAAAT
* *
7294091 CAGTAAGCACATATAGTGCAAAT
1 CAGTAAGCACACACAGTGCAAAT
7294114 CAGTAAGCACACACAGTGC
1 CAGTAAGCACACACAGTGC
7294133 TGAACAGTAA
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.15
Consensus pattern (23 bp):
CAGTAAGCACACACAGTGCAAAT
Found at i:7296062 original size:21 final size:21
Alignment explanation
Indices: 7296032--7296088 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
7296022 TCTGGAGTTT
*
7296032 ATTGTGTCGGTAGAAGTAATA
1 ATTGTATCGGTAGAAGTAATA
** *
7296053 ATTGTATCGGTACTAGTCATA
1 ATTGTATCGGTAGAAGTAATA
* *
7296074 CTTGTATCGGCAGAA
1 ATTGTATCGGTAGAA
7296089 CCTTCCCAAC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (21 bp):
ATTGTATCGGTAGAAGTAATA
Found at i:7302403 original size:32 final size:33
Alignment explanation
Indices: 7302340--7302408 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 33
7302330 GTAACTCGTA
7302340 AATTGATACCAAAACTATATTTCTTTGATTA-C
1 AATTGATACCAAAACTATATTTCTTTGATTACC
** * *
7302372 AATTGATACTTAAATTATTATTT-TTTTATTACC
1 AATTGATACCAAAACTA-TATTTCTTTGATTACC
7302405 AATT
1 AATT
7302409 TTACACCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (33 bp):
AATTGATACCAAAACTATATTTCTTTGATTACC
Found at i:7302521 original size:28 final size:28
Alignment explanation
Indices: 7302483--7302548 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
7302473 ATTCTTTTAT
7302483 TTCCC-TT-TTTTTCTTTTATATTATTTC
1 TTCCCTTTATTTTTCTTTTATATT-TTTC
* *
7302510 -TCTCTTTATTTTTTTTTTATATTTTTC
1 TTCCCTTTATTTTTCTTTTATATTTTTC
7302537 TTCCCTTTATTT
1 TTCCCTTTATTT
7302549 CTTATAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 3 0.09
27 6 0.18
28 24 0.73
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.73
Consensus pattern (28 bp):
TTCCCTTTATTTTTCTTTTATATTTTTC
Found at i:7313567 original size:23 final size:23
Alignment explanation
Indices: 7313522--7313581 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
7313512 TTTAATATTC
**
7313522 ACGAACATATTCATTTAACTTAA
1 ACGAACATATTCATCGAACTTAA
*
7313545 TCGAACATATTCA-CGAACATTAA
1 ACGAACATATTCATCGAAC-TTAA
*
7313568 ACGAACATGTTCAT
1 ACGAACATATTCAT
7313582 AATGTTCATG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 3 0.10
23 27 0.90
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (23 bp):
ACGAACATATTCATCGAACTTAA
Found at i:7313722 original size:12 final size:12
Alignment explanation
Indices: 7313693--7313725 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
7313683 ATCATTAATA
*
7313693 AATAAATGAGTC
1 AATAAACGAGTC
7313705 -ATAAACGAGTC
1 AATAAACGAGTC
7313716 AATAAACGAG
1 AATAAACGAG
7313726 CTTGTTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:7317119 original size:18 final size:18
Alignment explanation
Indices: 7317078--7317124 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7317068 CTACGATCGT
*
7317078 GGTCACGATCACGTCCAC
1 GGTCACGATCACGACCAC
* *
7317096 GATCACGATCACGACTAC
1 GGTCACGATCACGACCAC
*
7317114 GGTCACCATCA
1 GGTCACGATCA
7317125 TAATCTCTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.17
Consensus pattern (18 bp):
GGTCACGATCACGACCAC
Found at i:7319742 original size:19 final size:21
Alignment explanation
Indices: 7319699--7319743 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7319689 CGAAAAAAAA
7319699 TTTCT-GAAAAATGAATTACT
1 TTTCTGGAAAAATGAATTACT
*
7319719 TTTCTGGAAAAATTAA-TA-T
1 TTTCTGGAAAAATGAATTACT
7319738 TTTCTG
1 TTTCTG
7319744 ATGTTTGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 7 0.30
21 9 0.39
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (21 bp):
TTTCTGGAAAAATGAATTACT
Found at i:7321816 original size:6 final size:7
Alignment explanation
Indices: 7321794--7321818 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7321784 GCAATGAAAA
7321794 GGGAAGG
1 GGGAAGG
7321801 GGGAAGG
1 GGGAAGG
7321808 GGGAAGG
1 GGGAAGG
7321815 GGGA
1 GGGA
7321819 TTTTCCCGAA
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:0.28, C:0.00, G:0.72, T:0.00
Consensus pattern (7 bp):
GGGAAGG
Found at i:7322427 original size:26 final size:26
Alignment explanation
Indices: 7322376--7322440 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
7322366 CTATTAAATC
7322376 AAAC-TTTTT-AAAAGTACTTCTCAA
1 AAACATTTTTCAAAAGTACTTCTCAA
* * *
7322400 AATCATTTTTTCAAAA-TACTTTTTAA
1 AAACA-TTTTTCAAAAGTACTTCTCAA
*
7322426 AAACACTTTTCAAAA
1 AAACATTTTTCAAAA
7322441 ACAATATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 3 0.09
25 9 0.27
26 17 0.52
27 4 0.12
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.40
Consensus pattern (26 bp):
AAACATTTTTCAAAAGTACTTCTCAA
Found at i:7324204 original size:10 final size:10
Alignment explanation
Indices: 7324181--7324232 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
7324171 GATAATAACC
7324181 TTTAATAATAT
1 TTTAATAAT-T
*
7324192 TTTTATAATT
1 TTTAATAATT
*
7324202 TTTAATAAAT
1 TTTAATAATT
*
7324212 TTAAATAATT
1 TTTAATAATT
7324222 TTCT-ATAATT
1 TT-TAATAATT
7324232 T
1 T
7324233 GAATTTAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 26 0.76
11 8 0.24
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTAATAATT
Found at i:7324219 original size:20 final size:21
Alignment explanation
Indices: 7324181--7324223 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
7324171 GATAATAACC
**
7324181 TTTAATAATATTTTTATAATT
1 TTTAATAATATTTAAATAATT
7324202 TTTAATAA-ATTTAAATAATT
1 TTTAATAATATTTAAATAATT
7324222 TT
1 TT
7324224 CTATAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAATAATATTTAAATAATT
Done.