Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 233 of 235
Found at i:77829461 original size:16 final size:15
Alignment explanation
Indices: 77829440--77829469 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
77829430 TAAATTCATA
77829440 TAAGAATTTTGATTAT
1 TAAGAATTTT-ATTAT
77829456 TAAGAATTTTATTA
1 TAAGAATTTTATTA
77829470 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAAGAATTTTATTAT
Found at i:77829465 original size:120 final size:120
Alignment explanation
Indices: 77829340--77829755 Score: 676
Period size: 120 Copynumber: 3.5 Consensus size: 120
77829330 AATTATTTTA
* * * *
77829340 AATTTTATTAAATCATATATTTTAATTAAAATATTTTTAATATTAATTACT-TCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTA-TGTTAAATTATATTT
* *
77829404 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATTTTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
77829460 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
77829525 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
77829580 AATTTTACTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
77829645 ATAGTATCATATATTATGATTTGAGTAAATTC-TATAAG-ATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
77829698 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
77829756 ATAATTAAAT
Statistics
Matches: 278, Mismatches: 16, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
118 62 0.22
119 13 0.05
120 203 0.73
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:77829477 original size:59 final size:60
Alignment explanation
Indices: 77829413--77829718 Score: 167
Period size: 59 Copynumber: 5.1 Consensus size: 60
77829403 TTATAGTATC
* *
77829413 ATATATTATGATTTTAGTAAATTCATATAAGAATTTTGATTATTAAGAATTTTATTAAAT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * ** * * * *
77829473 -TATA-TAT--TTTAATTAAAAT-ATAT-TTAATAATAATTATGTTA-AATTATCTTTTATAGTA
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTAT-TAAGAATT-T-TATTA-A--A
77829531 T
60 T
* * *
77829532 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAGAATTTTACTAAATT
1 -ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA-T
* * * * * * * *
77829594 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAAATT-A-TATTTTA-TAGTAT
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT--ATTAAGAATTTTATTA-AAT
77829652 CATATATTATGATTTGAGTAAATTC-TATAAG-ATATTGATTATTAAGAATTTTATTAAATT
1 -ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA-T
77829712 ATATATT
1 ATATATT
77829719 TTAATTATAA
Statistics
Matches: 179, Mismatches: 38, Indels: 59
0.65 0.14 0.21
Matches are distributed among these distances:
54 13 0.07
55 7 0.04
56 13 0.07
57 4 0.02
58 12 0.07
59 54 0.30
60 12 0.07
61 25 0.14
62 5 0.03
63 1 0.01
64 12 0.07
65 7 0.04
66 14 0.08
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (60 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
Found at i:77829489 original size:18 final size:17
Alignment explanation
Indices: 77829461--77829495 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77829451 ATTATTAAGA
*
77829461 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
77829478 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
77829496 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:77829615 original size:16 final size:16
Alignment explanation
Indices: 77829594--77829640 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
77829584 TTACTAAATT
77829594 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
77829610 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
77829625 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
77829641 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:77829620 original size:15 final size:15
Alignment explanation
Indices: 77829590--77829640 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
77829580 AATTTTACTA
77829590 AATTAT-ATAT-TTT
1 AATTATAATATATTT
77829603 AATTATAATATATTT
1 AATTATAATATATTT
*
77829618 AATAATAAT-TATGTT
1 AATTATAATATAT-TT
77829633 AAATTATA
1 -AATTATA
77829641 TTTTATAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 7 0.22
15 13 0.41
16 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATTATAATATATTT
Found at i:77829990 original size:16 final size:16
Alignment explanation
Indices: 77829969--77830004 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
77829959 AATTTGCTAT
*
77829969 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
77829985 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
77830001 TACA
1 TACA
77830005 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:77841792 original size:21 final size:21
Alignment explanation
Indices: 77841754--77841794 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
77841744 TTGTCTAGGA
*
77841754 TATGAATTGGATTGAATTGAC
1 TATGAATTGGATTAAATTGAC
* *
77841775 TATGATTTGTATTAAATTGA
1 TATGAATTGGATTAAATTGA
77841795 TGTTAAATTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (21 bp):
TATGAATTGGATTAAATTGAC
Found at i:77842335 original size:24 final size:25
Alignment explanation
Indices: 77842265--77842328 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
77842255 AAAGATATTT
77842265 TATGAGCTTCCCGTTATTAGCTCAC
1 TATGAGCTTCCCGTTATTAGCTCAC
* * *
77842290 T-TGAACTTCCCGATATTAGCTC-G
1 TATGAGCTTCCCGTTATTAGCTCAC
77842313 TATGAGCTTCCCGTTA
1 TATGAGCTTCCCGTTA
77842329 ATGGCTCTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 1 0.03
24 31 0.94
25 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (25 bp):
TATGAGCTTCCCGTTATTAGCTCAC
Found at i:77845375 original size:31 final size:31
Alignment explanation
Indices: 77845338--77845430 Score: 134
Period size: 31 Copynumber: 3.0 Consensus size: 31
77845328 CTTGTCACTT
* *
77845338 GTAGCCGAAGCTACCACTACTCACTGATCAG
1 GTAGCCGAAGCTACCACTTCTCACTGATCAA
*
77845369 GTAGCCGGAGCTACCACTTCTCACTGATCAA
1 GTAGCCGAAGCTACCACTTCTCACTGATCAA
*
77845400 GTAGCC-AGAGGTACCACTTCTCACTGATCAA
1 GTAGCCGA-AGCTACCACTTCTCACTGATCAA
77845431 ATTACTTATT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTCTCACTGATCAA
Found at i:77845585 original size:35 final size:35
Alignment explanation
Indices: 77845525--77845861 Score: 413
Period size: 35 Copynumber: 9.6 Consensus size: 35
77845515 TCCTCATTGA
* **
77845525 AATACCATACCTACATTTCACAACTCGGTATGGGC
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
** ** *
77845560 AATGTCATACCTACGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* * *
77845595 AATACCATACCTACGTTTCACAACTCAGTACGGTT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* ** *
77845630 AATACCATACCTACGTTTCACATCTCGGTACAGTT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
77845665 AATACCATACCTACGTTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* * *
77845700 GATATCATACCTACGTTTCATAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
*
77845735 GATACCATACCTACGTTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* * * *
77845770 GATACCATGCCTACGTTTCAAAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* * * * *
77845805 GATTCCATGCCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
*
77845840 AATACTATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
77845862 CTTTGCCATG
Statistics
Matches: 266, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 266 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCGGTATGGAT
Found at i:77848396 original size:10 final size:11
Alignment explanation
Indices: 77848379--77848419 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
77848369 AAATTTTATA
77848379 TTATTTTTACT
1 TTATTTTTACT
*
77848390 TTATTTTTTAAT
1 TTA-TTTTTACT
77848402 ATTATTTTTACT
1 -TTATTTTTACT
77848414 TTATTT
1 TTATTT
77848420 ACGTATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 9 0.35
12 14 0.54
13 3 0.12
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTTACT
Found at i:77848408 original size:24 final size:23
Alignment explanation
Indices: 77848372--77848419 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
77848362 ATATTATAAA
77848372 TTTTATATTATTTTTACTTTATT
1 TTTTATATTATTTTTACTTTATT
77848395 TTTTAATATTATTTTTACTTTATT
1 TTTT-ATATTATTTTTACTTTATT
77848419 T
1 T
77848420 ACGTATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTATATTATTTTTACTTTATT
Found at i:77849792 original size:91 final size:91
Alignment explanation
Indices: 77849690--77849875 Score: 354
Period size: 91 Copynumber: 2.0 Consensus size: 91
77849680 ACATGTCATG
77849690 ATTTGATTTTAATTTTTGGTACTTTCATAGAAATTATCTTTATCATACTAATATTATTATAGTAA
1 ATTTGATTTTAATTTTTGGTACTTTCATAGAAATTATCTTTATCATACTAATATTATTATAGTAA
*
77849755 TTAATATTTTTTTAAAAATATAAATT
66 TTAATATTTTTTAAAAAATATAAATT
*
77849781 ATTTGATTTTAATTTTTGGTACTTTCATAGAAATTATTTTTATCATACTAATATTATTATAGTAA
1 ATTTGATTTTAATTTTTGGTACTTTCATAGAAATTATCTTTATCATACTAATATTATTATAGTAA
77849846 TTAATATTTTTTAAAAAATATAAATT
66 TTAATATTTTTTAAAAAATATAAATT
77849872 ATTT
1 ATTT
77849876 AACTATGTAA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (91 bp):
ATTTGATTTTAATTTTTGGTACTTTCATAGAAATTATCTTTATCATACTAATATTATTATAGTAA
TTAATATTTTTTAAAAAATATAAATT
Found at i:77855051 original size:26 final size:27
Alignment explanation
Indices: 77855017--77855096 Score: 87
Period size: 26 Copynumber: 3.1 Consensus size: 27
77855007 TTAATAAGGT
*
77855017 TATTATTAAATATAATTCAATAATAAA
1 TATTATTAAATATAATTTAATAATAAA
* *
77855044 TATT-TT-AATCATATTTTAAT-ATAAT
1 TATTATTAAAT-ATAATTTAATAATAAA
*
77855069 TATTATCAAATATAATTTAATAA-AAA
1 TATTATTAAATATAATTTAATAATAAA
77855095 TA
1 TA
77855097 AAAATATATA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
25 11 0.26
26 24 0.56
27 8 0.19
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
TATTATTAAATATAATTTAATAATAAA
Found at i:77866505 original size:23 final size:20
Alignment explanation
Indices: 77866468--77866517 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 20
77866458 TCTTATTAGA
*
77866468 TTTATAAAATCAATATAATTTAT
1 TTTATAAAAGCAATAT--TTT-T
*
77866491 TTTATAAAAGGAATATTTTT
1 TTTATAAAAGCAATATTTTT
77866511 TTTATAA
1 TTTATAA
77866518 TTTCCCATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 3 0.12
23 14 0.56
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTATAAAAGCAATATTTTT
Found at i:77866688 original size:11 final size:11
Alignment explanation
Indices: 77866674--77866698 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77866664 AAAAAAAAAG
77866674 AAATAATTACA
1 AAATAATTACA
77866685 AAATAATTACA
1 AAATAATTACA
77866696 AAA
1 AAA
77866699 ACAATTGTAA
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAATTACA
Found at i:77871274 original size:14 final size:14
Alignment explanation
Indices: 77871255--77871283 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
77871245 TGGGAAGGCA
77871255 CACTTTCTCTCTCT
1 CACTTTCTCTCTCT
77871269 CACTTTCTCTCTCT
1 CACTTTCTCTCTCT
77871283 C
1 C
77871284 TACTAGTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.45, G:0.00, T:0.48
Consensus pattern (14 bp):
CACTTTCTCTCTCT
Found at i:77873424 original size:8 final size:8
Alignment explanation
Indices: 77873372--77873425 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
77873362 GTTAAATAGA
*
77873372 ATAAAATT
1 ATAAAAAT
77873380 ATAAAAACT
1 ATAAAAA-T
77873389 AT-AAAAT
1 ATAAAAAT
77873396 AT-AAAAT
1 ATAAAAAT
*
77873403 -TAAAATT
1 ATAAAAAT
*
77873410 AAAAAAAT
1 ATAAAAAT
77873418 ATAAAAAT
1 ATAAAAAT
77873426 TGTTTAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 1 0.03
7 12 0.32
8 22 0.58
9 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (8 bp):
ATAAAAAT
Found at i:77877628 original size:47 final size:47
Alignment explanation
Indices: 77877576--77877832 Score: 304
Period size: 47 Copynumber: 5.4 Consensus size: 47
77877566 TGGTTAGACC
* * *
77877576 ATGGCAACA-TGTGATATGTGATTTCCGTATAAGACCATAGT-TGGGCT
1 ATGGCATCAGTGTGATATGTG-CTTCCGTATAAGACCATA-TCTGGGAT
*
77877623 ATGGCATCAGTGTGATATGAGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATATCTGGGAT
* *
77877670 ATGACATCAGTGTGATATGAGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATATCTGGGAT
* * *
77877717 ATGGCATCGGTGTGATATGTGCTTCTGTGTAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATATCTGGGAT
* * * ** *
77877764 ATGGCATCAGTGTGATCTGTG-ATCCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATATCTGGGAT
* *
77877810 ATGGCTTCGGTGTGTGATATGTG
1 ATGGCATC--AGTGTGATATGTG
77877833 ACTATGTGCA
Statistics
Matches: 186, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
46 28 0.15
47 137 0.74
48 21 0.11
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATATCTGGGAT
Found at i:77895367 original size:16 final size:16
Alignment explanation
Indices: 77895327--77895384 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
77895317 ATTTTAATCA
77895327 TAATTAAACATA-ATTAT
1 TAATTAAA-ATATATT-T
77895344 T-ATT-AAATATATTT
1 TAATTAAAATATATTT
77895358 TAATTAAAATATATAATT
1 TAATTAAAATATAT--TT
77895376 TAA-TAAAAT
1 TAATTAAAAT
77895385 TCTTATAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 11 0.31
17 7 0.19
18 5 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTAAAATATATTT
Found at i:77895371 original size:18 final size:17
Alignment explanation
Indices: 77895350--77895384 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77895340 TTATTATTAA
*
77895350 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
77895368 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
77895385 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:77895500 original size:156 final size:160
Alignment explanation
Indices: 77895231--77895552 Score: 544
Period size: 156 Copynumber: 2.0 Consensus size: 160
77895221 TAGAATACCC
*
77895231 TTAGCATAAATTTGTTTTGGTAAATAATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATAATTATTGTTATTGTTATTTAAATTTTAATAAG--TATTA
* *
77895296 TTATTATTATCAGTAATAAATATTTTAATCATAATTAAACATAATTATTATTAAATATATTTTAA
64 TTA-TATTATCAATAATAAATAATTTAATCATAATTAAACATAATTATTATTAAATATATTTTAA
77895361 TTAAAATATATAATTTAATAAAATTCTT-ATAA
128 TTAAAATATATAATTTAATAAAATTCTTAATAA
*
77895393 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAG-ATTATT
1 TTAGCAGAAATTTGTTTTGGTAAATAATTATTGTTATTGTTATTTAAATTTTAATAAGTATTATT
*
77895457 A-A-TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTA
66 ATATTATCAATAATAAATAATTTAATCATAATTAAACATAATTATTATTAAATATATTTTAATTA
77895520 AAATATATAATTTAATAAAATTCTTAATAA
131 AAATATATAATTTAATAAAATTCTTAATAA
77895550 TTA
1 TTA
77895553 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
156 83 0.54
157 8 0.05
159 7 0.05
162 56 0.36
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (160 bp):
TTAGCAGAAATTTGTTTTGGTAAATAATTATTGTTATTGTTATTTAAATTTTAATAAGTATTATT
ATATTATCAATAATAAATAATTTAATCATAATTAAACATAATTATTATTAAATATATTTTAATTA
AAATATATAATTTAATAAAATTCTTAATAA
Found at i:77895527 original size:18 final size:17
Alignment explanation
Indices: 77895506--77895540 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
77895496 TTATTATTAA
*
77895506 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
77895524 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
77895541 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:77895754 original size:92 final size:91
Alignment explanation
Indices: 77895677--77895885 Score: 217
Period size: 92 Copynumber: 2.3 Consensus size: 91
77895667 TAATTATAAC
* * * *
77895677 TAATAAATTATATTTTATGAATTTGTATAATCTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATCTAAAATAATTAA-TATTAAATATAATTTAATAA
* *
77895741 TTAATATTAAATTTCATAAAATACTTGA
65 TTAATATTAAATTTCAAAAAATAC-TAA
* * * *
77895769 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAAT-AG
1 TAATAAATTATATTATATGAATTTATACAATCTAAAATAATTAATATTAAATATAATTTAATAAT
* * *
77895833 TGATA-TATAATTTCATAAAATTCTCAA
66 TAATATTA-AATTTCAAAAAATACT-AA
* *
77895860 TAATAAATTGTTCTTATATGAATTTA
1 TAATAAATT-ATATTATATGAATTTA
77895886 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
90 3 0.03
91 29 0.28
92 67 0.66
93 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATCTAAAATAATTAATATTAAATATAATTTAATAAT
TAATATTAAATTTCAAAAAATACTAA
Found at i:77903555 original size:13 final size:15
Alignment explanation
Indices: 77903529--77903568 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
77903519 CCTTAATTTA
77903529 TTAATATTTATTAAT
1 TTAATATTTATTAAT
77903544 TTAAT-TTT-TTAAT
1 TTAATATTTATTAAT
77903557 TTAATATTTATT
1 TTAATATTTATT
77903569 TAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTATTAAT
Found at i:77906354 original size:14 final size:14
Alignment explanation
Indices: 77906335--77906363 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
77906325 ACAGATGGAT
77906335 TCGTATAATTCTTA
1 TCGTATAATTCTTA
77906349 TCGTATAATTCTTA
1 TCGTATAATTCTTA
77906363 T
1 T
77906364 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:77910847 original size:15 final size:16
Alignment explanation
Indices: 77910827--77910861 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
77910817 AAAAGTGTTT
77910827 TTTAATATT-TAAATA
1 TTTAATATTATAAATA
*
77910842 TTTAATATTATAAATT
1 TTTAATATTATAAATA
77910858 TTTA
1 TTTA
77910862 TTTATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAATATTATAAATA
Found at i:77914257 original size:21 final size:21
Alignment explanation
Indices: 77914199--77914285 Score: 86
Period size: 21 Copynumber: 4.1 Consensus size: 21
77914189 CCTGATCAGA
77914199 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
77914219 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
* *
77914240 CTGCGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
77914261 AAATATGACACATAAAGTGCCTG
1 --ATACGACACATAAAGTGCCTG
77914284 AT
1 AT
77914286 CAGAAAAGCC
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
20 9 0.17
21 25 0.48
23 18 0.35
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:77914501 original size:23 final size:24
Alignment explanation
Indices: 77914475--77914569 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
77914465 AAATGTCCAA
77914475 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
77914498 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
77914526 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
77914555 CCAAAACACACCAGA
1 CCAAAACACACCAGA
77914570 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:77914571 original size:29 final size:28
Alignment explanation
Indices: 77914489--77914572 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
77914479 AACACACCAG
* *
77914489 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
77914517 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
77914545 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
77914573 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:77919307 original size:46 final size:46
Alignment explanation
Indices: 77919247--77919612 Score: 644
Period size: 46 Copynumber: 8.0 Consensus size: 46
77919237 TTTGACATGA
* * * * * *
77919247 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
77919293 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
77919339 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
77919385 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
77919431 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
77919477 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
77919523 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
77919569 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
77919613 AGAGCACACT
Statistics
Matches: 309, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
45 4 0.01
46 305 0.99
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:77921903 original size:123 final size:123
Alignment explanation
Indices: 77921681--77921925 Score: 454
Period size: 123 Copynumber: 2.0 Consensus size: 123
77921671 ACTGTAAAAA
77921681 TTCGGGTTATTACATCTCGTTTTTAACACGAGCCAATGATATTCACCCAACATAGCGATGAAATC
1 TTCGGGTTATTACATCTCGTTTTTAACACGAGCCAATGATATTCACCCAACATAGCGATGAAATC
* * *
77921746 AGCGACTTAGTGTTGAAATCGGTACGTTGCCTTATTTATTGAAATTAATTAAAAATAT
66 AGCAACCTAGTGTTGAAATCAGTACGTTGCCTTATTTATTGAAATTAATTAAAAATAT
77921804 TTCGGGTTATTACATCTCGTTTTTAACACGAGCCAATGATATTCACCCAACATAGCGATGAAATC
1 TTCGGGTTATTACATCTCGTTTTTAACACGAGCCAATGATATTCACCCAACATAGCGATGAAATC
*
77921869 AGCAACCTAGTGTTGAAATCAGTACGTTGTCTTATTTATTGAAATTAATTAAAAATA
66 AGCAACCTAGTGTTGAAATCAGTACGTTGCCTTATTTATTGAAATTAATTAAAAATA
77921926 AAAAAAATAT
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 118 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (123 bp):
TTCGGGTTATTACATCTCGTTTTTAACACGAGCCAATGATATTCACCCAACATAGCGATGAAATC
AGCAACCTAGTGTTGAAATCAGTACGTTGCCTTATTTATTGAAATTAATTAAAAATAT
Found at i:77922398 original size:12 final size:11
Alignment explanation
Indices: 77922381--77922455 Score: 50
Period size: 12 Copynumber: 6.8 Consensus size: 11
77922371 AAGTAATTAA
77922381 ATATAATACTAT
1 ATATAATA-TAT
77922393 ATATAA-ATAT
1 ATATAATATAT
77922403 ATATACATATAT
1 ATATA-ATATAT
* * *
77922415 AATAAAAAACAT
1 -ATATAATATAT
*
77922427 ACACTAATATAT
1 ATA-TAATATAT
77922439 A-ATAATA-AT
1 ATATAATATAT
77922448 A-ATAATAT
1 ATATAATAT
77922456 TGAAATACAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
9 9 0.18
10 13 0.25
11 5 0.10
12 20 0.39
13 4 0.08
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAATATAT
Found at i:77922399 original size:18 final size:18
Alignment explanation
Indices: 77922378--77922416 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
77922368 ATAAAGTAAT
77922378 TAAATATA-ATACTATATA
1 TAAATATATATAC-ATATA
77922396 TAAATATATATACATATA
1 TAAATATATATACATATA
77922414 TAA
1 TAA
77922417 TAAAAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATATATATACATATA
Found at i:77922400 original size:131 final size:131
Alignment explanation
Indices: 77922190--77922585 Score: 637
Period size: 129 Copynumber: 3.1 Consensus size: 131
77922180 TAATATTAGC
*
77922190 AATAATAATGAAATACAAAAAAGCAAATATAATATAAT---AATATTAAAATAAAGTAATTAAAA
1 AATAATATTGAAATAC-AAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAAA
*
77922252 ATAATACTATATTTAAATATATATACATATACATAGATAATAAAAAATATACACTAATAATAATA
65 ATAATACTATATATAAATATATATACATATACATAGATAATAAAAAATATACACTAATAATAATA
77922317 AT
130 AT
* *
77922319 AATAATATTGAAATACAACAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAATA
1 AATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAAAA
* * *
77922384 TAATACTATATATAAATATATATACATAT--ATA-ATAA-AAAACATACACTAATATATAATAAT
66 TAATACTATATATAAATATATATACATATACATAGATAATAAAAAATATAC-ACTA-ATAATAAT
77922445 AAT
129 AAT
77922448 AATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAAAA
1 AATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAAAA
77922513 TAATACTATATATAAATATATATACATATACATAGATAAT-AAAAATATACACTAATATATAATA
66 TAATACTATATATAAATATATATACATATACATAGATAATAAAAAATATACACTAATA-ATAATA
77922577 AT
130 AT
77922579 AATAATA
1 AATAATA
77922586 ATAGTGTTAA
Statistics
Matches: 245, Mismatches: 12, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
127 9 0.04
128 27 0.11
129 121 0.49
130 3 0.01
131 73 0.30
132 12 0.05
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (131 bp):
AATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAAAA
TAATACTATATATAAATATATATACATATACATAGATAATAAAAAATATACACTAATAATAATAA
T
Found at i:77922451 original size:9 final size:10
Alignment explanation
Indices: 77922346--77922588 Score: 56
Period size: 10 Copynumber: 24.6 Consensus size: 10
77922336 ACAAGCAAAT
77922346 ATAATATAATA
1 ATAATAT-ATA
*
77922357 AAAATAT-TA
1 ATAATATATA
*
77922366 A-AATAAAGTA
1 ATAATATA-TA
77922376 ATTAA-ATATA
1 A-TAATATATA
*
77922386 ATACTATAT-
1 ATAATATATA
77922395 ATAA-ATATA
1 ATAATATATA
77922404 TATACATATATA
1 -ATA-ATATATA
* *
77922416 ATAAAAAACATA
1 AT--AATATATA
77922428 CACTAATATATA
1 -A-TAATATATA
77922440 ATAATA-ATA
1 ATAATATATA
*
77922449 ATAATAT-TG
1 ATAATATATA
*
77922458 A-AATACA-A
1 ATAATATATA
* *
77922466 A-AAGCAAAT-
1 ATAA-TATATA
77922475 ATAATATAATA
1 ATAATAT-ATA
*
77922486 AAAATAT-TA
1 ATAATATATA
*
77922495 A-AATAAAGTA
1 ATAATATA-TA
*
77922505 ATTAA-AAATA
1 A-TAATATATA
*
77922515 ATACTATAT-
1 ATAATATATA
77922524 ATAA-ATATA
1 ATAATATATA
*
77922533 TATACATATA-C
1 -ATA-ATATATA
77922544 ATAGATA-ATA
1 ATA-ATATATA
* *
77922554 AAAATATACA
1 ATAATATATA
*
77922564 CTAATATATA
1 ATAATATATA
77922574 ATAATA-ATA
1 ATAATATATA
77922583 ATAATA
1 ATAATA
77922589 GTGTTAATAT
Statistics
Matches: 171, Mismatches: 30, Indels: 64
0.65 0.11 0.24
Matches are distributed among these distances:
8 23 0.13
9 44 0.26
10 56 0.33
11 22 0.13
12 23 0.13
13 2 0.01
14 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (10 bp):
ATAATATATA
Found at i:77924128 original size:44 final size:45
Alignment explanation
Indices: 77924025--77924135 Score: 111
Period size: 45 Copynumber: 2.5 Consensus size: 45
77924015 TTCGATCTAA
* * *
77924025 TCCGCTGGAACTTCAGGGAAATAAGATTTGCTATCTTCAGGCTGC
1 TCCGCTGAAACTTCAGGGAGATAAGACTTGCTATCTTCAGGCTGC
* * * *
77924070 TCCACTGCAACTTCAGGGAGATAAGACTTG-TGA-CTTCAATG-TTC
1 TCCGCTGAAACTTCAGGGAGATAAGACTTGCT-ATCTTC-AGGCTGC
*
77924114 TCCGCTGAAACTTCAAGGAGAT
1 TCCGCTGAAACTTCAGGGAGAT
77924136 CTTGTTGTGG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 26 0.47
45 29 0.53
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (45 bp):
TCCGCTGAAACTTCAGGGAGATAAGACTTGCTATCTTCAGGCTGC
Found at i:77924204 original size:26 final size:26
Alignment explanation
Indices: 77924168--77924229 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
77924158 CCAATGCCAT
* *
77924168 TTCAGGGAGAAGAGATCTACTGAAAC
1 TTCAAGGAGAAGAGATCCACTGAAAC
*
77924194 TTCAAGGAGAAGAGATCCATTGAAAC
1 TTCAAGGAGAAGAGATCCACTGAAAC
77924220 TTCAAGGAGA
1 TTCAAGGAGA
77924230 TCTTTTGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (26 bp):
TTCAAGGAGAAGAGATCCACTGAAAC
Found at i:77924729 original size:77 final size:77
Alignment explanation
Indices: 77924596--77924893 Score: 379
Period size: 77 Copynumber: 3.9 Consensus size: 77
77924586 ATATAAGTTG
* * * * * *
77924596 ATAGAAACTAAAAATACCTTAACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ATAGGAACTAAAGATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA
77924661 TTTTTTTGAAAA
66 TTTTTTTGAAAA
*
77924673 ATAGGAACTAAAGATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTTACAATATGAGTTGA
1 ATAGGAACTAAAGATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA
**
77924738 TTTTTTTGAATC
66 TTTTTTTGAAAA
* * * * ***
77924750 ATA--AATTGAAA-ATACCTTAGTGCGTGATTTGAGGCTCAACTCACCTCTCACAATATGAGTTG
1 ATAGGAACT-AAAGATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTG
77924812 ATTTTTTTTG-AAA
65 A-TTTTTTTGAAAA
** *
77924825 ATAGGAACTAAAGATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTCA
1 ATAGGAACTAAAGATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA
77924890 TTTT
66 TTTT
77924894 AAAAAAAAAC
Statistics
Matches: 187, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
75 52 0.28
76 18 0.10
77 117 0.63
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (77 bp):
ATAGGAACTAAAGATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA
TTTTTTTGAAAA
Found at i:77927084 original size:39 final size:39
Alignment explanation
Indices: 77927039--77927115 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
77927029 TCTTTTTCAA
77927039 TATTGAAACAATGTGTAGGGACTTCATATATGCTCATTG
1 TATTGAAACAATGTGTAGGGACTTCATATATGCTCATTG
77927078 TATTGAAACAATGTGTAGGGACTTCATATATGCTCATT
1 TATTGAAACAATGTGTAGGGACTTCATATATGCTCATT
77927116 TGAAGAGGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (39 bp):
TATTGAAACAATGTGTAGGGACTTCATATATGCTCATTG
Found at i:77932989 original size:38 final size:38
Alignment explanation
Indices: 77932947--77933022 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
77932937 CCCTTTTCTT
77932947 TGACCAAAGCTGTCATCATCTCCATCATTTTGGCCATC
1 TGACCAAAGCTGTCATCATCTCCATCATTTTGGCCATC
77932985 TGACCAAAGCTGTCATCATCTCCATCATTTTGGCCATC
1 TGACCAAAGCTGTCATCATCTCCATCATTTTGGCCATC
77933023 AGATCTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.32
Consensus pattern (38 bp):
TGACCAAAGCTGTCATCATCTCCATCATTTTGGCCATC
Found at i:77938476 original size:22 final size:21
Alignment explanation
Indices: 77938451--77938499 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
77938441 TTTGTAAAAG
*
77938451 TTTTAATTTTCTT-TTATTTACT
1 TTTTAA-TTTCTTATTATTT-CA
*
77938473 TTTTTATTTCTTATTATTTCA
1 TTTTAATTTCTTATTATTTCA
77938494 TTTTAA
1 TTTTAA
77938500 CATTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTAATTTCTTATTATTTCA
Found at i:77939570 original size:15 final size:17
Alignment explanation
Indices: 77939550--77939582 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
77939540 AAAAATGAAA
77939550 ATAA-TTTTA-TAATAT
1 ATAATTTTTATTAATAT
77939565 ATAATTTTTATTAATAT
1 ATAATTTTTATTAATAT
77939582 A
1 A
77939583 AATATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 5 0.31
17 7 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATAATTTTTATTAATAT
Found at i:77939814 original size:25 final size:26
Alignment explanation
Indices: 77939781--77939836 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
77939771 TTAAATAAAT
77939781 AAATATTAAATAT-TTTTGATCATTTA
1 AAATATTAAATATATTTTGATCA-TTA
*
77939807 AAAT-TTAAATTTATTTTGATCATTA
1 AAATATTAAATATATTTTGATCATTA
77939832 AAATA
1 AAATA
77939837 AATTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (26 bp):
AAATATTAAATATATTTTGATCATTA
Found at i:77939838 original size:23 final size:25
Alignment explanation
Indices: 77939780--77939846 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
77939770 TTTAAATAAA
*
77939780 TAAATATTAAA-TATTTTTGATCATT
1 TAAA-ATTAAATTAATTTTGATCATT
*
77939805 TAAAATTTAAATTTATTTTGATCA-T
1 TAAAA-TTAAATTAATTTTGATCATT
77939830 TAAAA-TAAATTAATTTT
1 TAAAATTAAATTAATTTT
77939847 AATTTGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 11 0.30
24 1 0.03
25 15 0.41
26 10 0.27
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (25 bp):
TAAAATTAAATTAATTTTGATCATT
Found at i:77943292 original size:19 final size:20
Alignment explanation
Indices: 77943268--77943311 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
77943258 ATATTTAAAA
77943268 TAAAATTATATTTATAT-AT
1 TAAAATTATATTTATATAAT
*
77943287 TAAAATTATATTTATTTAAT
1 TAAAATTATATTTATATAAT
77943307 TAAAA
1 TAAAA
77943312 ACTTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAATTATATTTATATAAT
Found at i:77947688 original size:5 final size:5
Alignment explanation
Indices: 77947680--77947705 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
77947670 TTTTATCTCT
77947680 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
77947706 TATAAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:77953207 original size:22 final size:23
Alignment explanation
Indices: 77953168--77953210 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
77953158 TTATAATAAT
* *
77953168 AAAAATATAATTTTAATTTTTTA
1 AAAAATATAAATTAAATTTTTTA
77953191 AAAAAT-TAAATTAAATTTTT
1 AAAAATATAAATTAAATTTTT
77953211 ATATTTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAAATATAAATTAAATTTTTTA
Found at i:77953392 original size:23 final size:25
Alignment explanation
Indices: 77953351--77953397 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
77953341 GACTAAAATT
*
77953351 ATGCAGCACTAAAAAATAA-CTAAA
1 ATGCAACACTAAAAAATAATCTAAA
*
77953375 ATGCAACAC-AAAATATAATCTAA
1 ATGCAACACTAAAAAATAATCTAA
77953398 TTCTATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.19
Consensus pattern (25 bp):
ATGCAACACTAAAAAATAATCTAAA
Found at i:77954410 original size:17 final size:17
Alignment explanation
Indices: 77954388--77954422 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
77954378 CTTGAAAAAA
77954388 TATTTTATAAAAATTAT
1 TATTTTATAAAAATTAT
* *
77954405 TATTTTTTAAATATTAT
1 TATTTTATAAAAATTAT
77954422 T
1 T
77954423 TTTAATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTATAAAAATTAT
Found at i:77956763 original size:12 final size:12
Alignment explanation
Indices: 77956746--77956786 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
77956736 ATACCAGACT
77956746 TTTTTTAATAGA
1 TTTTTTAATAGA
*
77956758 TTTTTTAAATTG-
1 TTTTTT-AATAGA
77956770 TTTTTTAATA-A
1 TTTTTTAATAGA
77956781 TTTTTT
1 TTTTTT
77956787 TTTATTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 9 0.36
12 12 0.48
13 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (12 bp):
TTTTTTAATAGA
Found at i:77956878 original size:87 final size:87
Alignment explanation
Indices: 77956779--77957008 Score: 318
Period size: 87 Copynumber: 2.6 Consensus size: 87
77956769 GTTTTTTAAT
* * *
77956779 AATTTTTTTTTATTTTGGTGGAGTCATTCTCTTTGGCGTGGCCACTTTGGTGGTGCCATTGAGAA
1 AATTTTTTTTTATTTTGGTGGAGCCATTCTCTTTGGCGTGACCACTTTGGTGGTGCCATTGAAAA
**
77956844 TGGTGTGACCACCATAAAAATTA
66 TAATGTGACCACCATAAAAA-TA
* *
77956867 AA-TTTTTTTTATTTTGATGGAGCCATTCTCTTTGGCGTGACCACTTTGATGGTGCCATTGAAAA
1 AATTTTTTTTTATTTTGGTGGAGCCATTCTCTTTGGCGTGACCACTTTGGTGGTGCCATTGAAAA
77956931 TAATGTGACCACCATAAAAATA
66 TAATGTGACCACCATAAAAATA
* * *
77956953 AAGTTTTTATTTTTTATTTTGGTAGAGCCATTCTCTTTGGCATGACCACCTTGGTG
1 AA---TTT-TTTTTTATTTTGGTGGAGCCATTCTCTTTGGCGTGACCACTTTGGTG
77957009 ATGCTACATA
Statistics
Matches: 125, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
86 4 0.03
87 75 0.60
88 2 0.02
90 2 0.02
91 42 0.34
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (87 bp):
AATTTTTTTTTATTTTGGTGGAGCCATTCTCTTTGGCGTGACCACTTTGGTGGTGCCATTGAAAA
TAATGTGACCACCATAAAAATA
Found at i:77959834 original size:6 final size:6
Alignment explanation
Indices: 77959823--77959880 Score: 89
Period size: 6 Copynumber: 9.5 Consensus size: 6
77959813 GAAAAGTAAA
* *
77959823 CATGGT CATGGT CATGGT AATGGT CATGGT CATGGT TATGGT CATGGT
1 CATGGT CATGGT CATGGT CATGGT CATGGT CATGGT CATGGT CATGGT
77959871 CATGGAT CAT
1 CATGG-T CAT
77959881 ATGTCTTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
6 43 0.91
7 4 0.09
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (6 bp):
CATGGT
Found at i:77960157 original size:15 final size:15
Alignment explanation
Indices: 77960137--77960167 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77960127 TTCATGGCTG
77960137 AATAATATTATAATT
1 AATAATATTATAATT
*
77960152 AATAATGTTATAATT
1 AATAATATTATAATT
77960167 A
1 A
77960168 TTTAAGCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
AATAATATTATAATT
Found at i:77960582 original size:20 final size:22
Alignment explanation
Indices: 77960557--77960607 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
77960547 AACAATTAAT
*
77960557 TTAATAAAAAA-ATATATT-GG
1 TTAATAAAAAATAAATATTAGG
77960577 TTAATAAAAAATAAATATTAGG
1 TTAATAAAAAATAAATATTAGG
77960599 TTAGATAAA
1 TTA-ATAAA
77960608 TTATTAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.41
21 6 0.22
22 5 0.19
23 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (22 bp):
TTAATAAAAAATAAATATTAGG
Found at i:77969939 original size:68 final size:68
Alignment explanation
Indices: 77969789--77969946 Score: 169
Period size: 68 Copynumber: 2.3 Consensus size: 68
77969779 CTAGCCAATT
* * *
77969789 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
77969854 TTTA
65 CATA
* * *
77969858 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
77969920 CTACATA
63 C-ACATA
77969927 GTATCTCGTAGCTCTCTTGT
1 -TATCTCGTAGCTCTCTTGT
77969947 ACACATGATG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
68 36 0.48
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:77971495 original size:31 final size:30
Alignment explanation
Indices: 77971459--77971529 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 30
77971449 ATTATTCATT
*
77971459 AATTTTGATTTAATGTGCAATT-TGATACAT-A
1 AATTTTGATTTAA--TGCAATTAT-ACACATGA
*
77971490 AATTTTAATTTAATGCAATTATACACATGA
1 AATTTTGATTTAATGCAATTATACACATGA
77971520 AATTTTGATT
1 AATTTTGATT
77971530 GTGGTTCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 12 0.34
30 11 0.31
31 12 0.34
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (30 bp):
AATTTTGATTTAATGCAATTATACACATGA
Found at i:77984047 original size:46 final size:46
Alignment explanation
Indices: 77983980--77984326 Score: 353
Period size: 46 Copynumber: 7.6 Consensus size: 46
77983970 TCTTTCTGAA
* * * *
77983980 ATGAAAAGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
77984026 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
77984072 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-TGGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAT-GAC
* ** * * *
77984118 ATAAAATGTCTAAGACCAT-GTTGAAAGATAGCATGACAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * ** *
77984163 ATGAAAAGAATAAGACCATAATTAAAAGATACCATGGCAACATG--
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * ** *
77984207 ATGAGAATGAATAAGACCAAGGTTGAAAGATACCATAGTAATGTAAC
1 ATGA-AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
77984254 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
77984300 A-GAAAATGAGTAAGACCATAGTTGAAA
1 ATG-AAATGAGTAAGACCATGGTTGAAA
77984327 AACACTATGG
Statistics
Matches: 256, Mismatches: 38, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
44 4 0.02
45 68 0.27
46 180 0.70
47 4 0.02
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:77984199 original size:91 final size:92
Alignment explanation
Indices: 77983980--77984326 Score: 364
Period size: 91 Copynumber: 3.8 Consensus size: 92
77983970 TCTTTCTGAA
** * *
77983980 ATGAAAAGTGTAAGACCATGGTTGAAAGATACCATGACAACATGATATG-AAATGTGTAAGACCA
1 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAATGAGTAAGACCA
* * * * *
77984044 TGGTTGAAAGACACCATGGCAACATGAT
65 TAGTTGAAAGATACCATGACAACGTGAC
* ** * **
77984072 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-TGGATATAAAATGTCTAAGACCA
1 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACAT-GATAGAAAATGAGTAAGACCA
*
77984136 T-GTTGAAAGATAGCATGACAACGTGAC
65 TAGTTGAAAGATACCATGACAACGTGAC
** * * *
77984163 ATGAAAAGAATAAGACCATAATTAAAAGATACCATGGCAACATGAT-GAGAATGAATAAGACCA-
1 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGTAAGACCAT
* * *
77984226 AGGTTGAAAGATACCAT-AGTAATGTAAC
66 A-GTTGAAAGATACCATGA-CAACGTGAC
* * * *
77984254 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAGTAAGACCAT
1 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGTAAGACCAT
77984319 AGTTGAAA
66 AGTTGAAA
77984327 AACACTATGG
Statistics
Matches: 215, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
90 14 0.07
91 119 0.55
92 81 0.38
93 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.21
Consensus pattern (92 bp):
ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGTAAGACCAT
AGTTGAAAGATACCATGACAACGTGAC
Found at i:77984278 original size:137 final size:138
Alignment explanation
Indices: 77983990--77984343 Score: 398
Period size: 137 Copynumber: 2.6 Consensus size: 138
77983980 ATGAAAAGTG
* * * ** *
77983990 TAAGACCATGGTTGAAAGATACCATGACAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACATGAAAAGAGTAAGACCATAATTAAAAGA
** * * * *
77984055 CACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTGGATAT
66 CACCATGGCAACATGATATGAAATGAATAAGACCAAGGTTGAAAGATACCATAGCAACTGAACAT
*
77984120 AAAATGTC
131 AAAATGAC
* * *
77984128 TAAGACCAT-GTTGAAAGATAGCATGACAACGTGACATGAAAAGAATAAGACCATAATTAAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACATGAAAAGAGTAAGACCATAATTAAAAGA
* *
77984192 TACCATGGCAACATG--ATGAGAATGAATAAGACCAAGGTTGAAAGATACCATAGTAA-TGTAAC
66 CACCATGGCAACATGATATGA-AATGAATAAGACCAAGGTTGAAAGATACCATAGCAACTG-AAC
*
77984254 ATGAAATGAAC
129 ATAAAATG-AC
* * *
77984265 -AAGACCATGGTTGAAAGATACCATGGCAACCTGACA-GAAAATGAGTAAGACCATAGTTGAAAA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACATGAAAA-GAGTAAGACCATAATT-AAAA
* *
77984328 -ACACTATGGCATCATG
64 GACACCATGGCAACATG
77984344 TTTAAGATAA
Statistics
Matches: 183, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
135 6 0.03
136 52 0.28
137 112 0.61
138 13 0.07
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGACAACATGACATGAAAAGAGTAAGACCATAATTAAAAGA
CACCATGGCAACATGATATGAAATGAATAAGACCAAGGTTGAAAGATACCATAGCAACTGAACAT
AAAATGAC
Found at i:77984476 original size:24 final size:25
Alignment explanation
Indices: 77984442--77984489 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
77984432 CCCAACAATC
77984442 AAACCCAAATATACC-CTAACCCAAA
1 AAACCCAAATA-ACCACTAACCCAAA
77984467 AAACCC-AATAACCACTAACCCAA
1 AAACCCAAATAACCACTAACCCAA
77984490 GAACCAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 13 0.59
25 6 0.27
ACGTcount: A:0.52, C:0.38, G:0.00, T:0.10
Consensus pattern (25 bp):
AAACCCAAATAACCACTAACCCAAA
Found at i:77985155 original size:11 final size:11
Alignment explanation
Indices: 77985139--77985167 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
77985129 CGACGGTGGT
77985139 CCGGTGACGGA
1 CCGGTGACGGA
77985150 CCGGTGACGGA
1 CCGGTGACGGA
77985161 CCGGTGA
1 CCGGTGA
77985168 TCGGTCCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.45, T:0.10
Consensus pattern (11 bp):
CCGGTGACGGA
Found at i:77985711 original size:14 final size:15
Alignment explanation
Indices: 77985686--77985718 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
77985676 TTTTGTTTTT
*
77985686 TTATATTTATTATTA
1 TTATATTTATTACTA
77985701 TTATA-TTATTACTA
1 TTATATTTATTACTA
77985715 TTAT
1 TTAT
77985719 TCTCATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATATTTATTACTA
Found at i:77986760 original size:31 final size:31
Alignment explanation
Indices: 77986721--77986789 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
77986711 GTATATTTTC
77986721 ACAT-TACAAGTTATATTTTTATTATCTTAG
1 ACATATACAAGTTATATTTTTATTATCTTAG
77986751 ACATATACAAGTTATATTTTTATTATCTTAG
1 ACATATACAAGTTATATTTTTATTATCTTAG
77986782 ACATATAC
1 ACATATAC
77986790 TTCAAACACT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 34 0.89
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (31 bp):
ACATATACAAGTTATATTTTTATTATCTTAG
Found at i:77987445 original size:20 final size:18
Alignment explanation
Indices: 77987404--77987439 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
77987394 TTTGGCCTTC
*
77987404 ATTTTTTTCAAAAAATAA
1 ATTTTTTTCAAAAAAGAA
77987422 ATTTCTTTTCAAAAAAGA
1 ATTT-TTTTCAAAAAAGA
77987440 TGATTTACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTTTTTTCAAAAAAGAA
Found at i:77987869 original size:17 final size:16
Alignment explanation
Indices: 77987840--77987872 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
77987830 ATTATGGTGC
77987840 ATGAAATAATGATATA
1 ATGAAATAATGATATA
77987856 ATGAAATGAATGATATA
1 ATGAAAT-AATGATATA
77987873 TGCTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (16 bp):
ATGAAATAATGATATA
Found at i:77991856 original size:23 final size:25
Alignment explanation
Indices: 77991810--77991857 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
77991800 CACTAACGTC
* *
77991810 AGTTAATCTTCTGTTTGTTTATTTG
1 AGTTAATCTTCTGATTGTTGATTTG
77991835 AGTTAAT-TTC-GATTGTTGATTTG
1 AGTTAATCTTCTGATTGTTGATTTG
77991858 TTTTCCTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 3 0.14
25 7 0.33
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.56
Consensus pattern (25 bp):
AGTTAATCTTCTGATTGTTGATTTG
Found at i:77997620 original size:11 final size:11
Alignment explanation
Indices: 77997604--77997629 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
77997594 TTTACTCAAG
77997604 TAAGGATTCCT
1 TAAGGATTCCT
77997615 TAAGGATTCCT
1 TAAGGATTCCT
77997626 TAAG
1 TAAG
77997630 AACTCCTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (11 bp):
TAAGGATTCCT
Found at i:77997996 original size:36 final size:36
Alignment explanation
Indices: 77997949--77998020 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
77997939 GATTCCCTCA
77997949 ATCTTTTAAAATTAGTTACCAAAATAGCCTAAGTTG
1 ATCTTTTAAAATTAGTTACCAAAATAGCCTAAGTTG
77997985 ATCTTTTAAAATTAGTTACCAAAATAGCCTAAGTTG
1 ATCTTTTAAAATTAGTTACCAAAATAGCCTAAGTTG
77998021 TCATATCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (36 bp):
ATCTTTTAAAATTAGTTACCAAAATAGCCTAAGTTG
Found at i:77999147 original size:24 final size:24
Alignment explanation
Indices: 77999120--77999171 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
77999110 TTAGTAAGTC
*
77999120 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
77999144 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
77999168 AAAT
1 AAAT
77999172 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:78001117 original size:24 final size:24
Alignment explanation
Indices: 78001090--78001141 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
78001080 TTAGTAAGTC
*
78001090 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
78001114 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
78001138 AAAT
1 AAAT
78001142 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:78003087 original size:24 final size:24
Alignment explanation
Indices: 78003060--78003111 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
78003050 TTAGTAAGTC
*
78003060 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
78003084 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
78003108 AAAT
1 AAAT
78003112 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:78005057 original size:24 final size:24
Alignment explanation
Indices: 78005030--78005081 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
78005020 TTAGTAAGTC
*
78005030 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
78005054 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
78005078 AAAT
1 AAAT
78005082 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:78008122 original size:24 final size:24
Alignment explanation
Indices: 78008090--78008138 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
78008080 CTTTTCTTAG
78008090 AAGTTTTTCATTTTTCCTTTTATC
1 AAGTTTTTCATTTTTCCTTTTATC
*
78008114 AAGTTTTTCATTTTTCTTTTTATC
1 AAGTTTTTCATTTTTCCTTTTATC
78008138 A
1 A
78008139 TTCTAGATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.04, T:0.63
Consensus pattern (24 bp):
AAGTTTTTCATTTTTCCTTTTATC
Found at i:78017324 original size:15 final size:15
Alignment explanation
Indices: 78017304--78017333 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
78017294 TCTCAGGGAA
78017304 CAAAATCAAGTTGCT
1 CAAAATCAAGTTGCT
78017319 CAAAATCAAGTTGCT
1 CAAAATCAAGTTGCT
78017334 GATTGCATGG
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:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
CAAAATCAAGTTGCT
Found at i:78019044 original size:20 final size:19
Alignment explanation
Indices: 78019004--78019057 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
78018994 AATGTGATTA
78019004 TAAAA-ATAAAAA-TAA-T
1 TAAAATATAAAAATTAATT
78019020 TAAAATATTAAAAATTAATT
1 TAAAATA-TAAAAATTAATT
*
78019040 TAAAATATACAAATTAAT
1 TAAAATATAAAAATTAAT
78019058 ATTAGTTAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 5 0.15
17 1 0.03
18 6 0.18
19 13 0.39
20 8 0.24
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATATAAAAATTAATT
Found at i:78021932 original size:20 final size:20
Alignment explanation
Indices: 78021909--78021954 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
78021899 AAAGGCGCCT
* *
78021909 AAGTGCAAACAGAGGCATTG
1 AAGTGCAAACAGAGACATCG
*
78021929 AAGTGCAATCAGAGACATCG
1 AAGTGCAAACAGAGACATCG
78021949 AAGTGC
1 AAGTGC
78021955 TAAATAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.15
Consensus pattern (20 bp):
AAGTGCAAACAGAGACATCG
Found at i:78024632 original size:50 final size:50
Alignment explanation
Indices: 78024556--78024655 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
78024546 AACTTAAAAC
* *
78024556 ATTTACATACTTTAAACATACGTGGTGGATGATG-CTGTGGACTAATAGAT
1 ATTTACATACTTTAAACATACATGGTGGATGATGTC-ATGGACTAATAGAT
78024606 ATTTACATACTTTAAACATACATGGTGGATGATGTCATGGACTAATAGAT
1 ATTTACATACTTTAAACATACATGGTGGATGATGTCATGGACTAATAGAT
78024656 GGCAGATCGC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (50 bp):
ATTTACATACTTTAAACATACATGGTGGATGATGTCATGGACTAATAGAT
Found at i:78026344 original size:46 final size:46
Alignment explanation
Indices: 78026294--78026387 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
78026284 TACAATGAAG
* * *
78026294 TATGGAAGTACTCCGAAGATCGTACCCAGGGGAGGCGAGACTAAAC
1 TATGGAAGTACTCCGAAGATCATACCCAAGGGAGGCAAGACTAAAC
*
78026340 TATGGAAGTACTCCGATGATCATACCCAAGGGAGGCAAGACTAAAC
1 TATGGAAGTACTCCGAAGATCATACCCAAGGGAGGCAAGACTAAAC
78026386 TA
1 TA
78026388 ATCCTAATCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (46 bp):
TATGGAAGTACTCCGAAGATCATACCCAAGGGAGGCAAGACTAAAC
Found at i:78026513 original size:22 final size:22
Alignment explanation
Indices: 78026473--78026514 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
78026463 AAATAATAAT
* *
78026473 TTAAAAACTACTAAAAAAAAAC
1 TTAAAAACAAATAAAAAAAAAC
*
78026495 TTAAAAACAAATAAGAAAAA
1 TTAAAAACAAATAAAAAAAA
78026515 TAATTTATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.71, C:0.10, G:0.02, T:0.17
Consensus pattern (22 bp):
TTAAAAACAAATAAAAAAAAAC
Found at i:78026955 original size:11 final size:11
Alignment explanation
Indices: 78026924--78026956 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
78026914 AGCAAAAGGG
*
78026924 GTGAAAAACAA
1 GTGAAAAACGA
78026935 GTGAAAAACGA
1 GTGAAAAACGA
78026946 GTGAAAAACGA
1 GTGAAAAACGA
78026957 AAAATAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.58, C:0.09, G:0.24, T:0.09
Consensus pattern (11 bp):
GTGAAAAACGA
Found at i:78038681 original size:168 final size:168
Alignment explanation
Indices: 78038403--78038738 Score: 672
Period size: 168 Copynumber: 2.0 Consensus size: 168
78038393 CTGGGTCTAC
78038403 TTATTCATATATTTGCACTATGCTAGTATCTGAAAAGAAATTATCTGTTGAGTCCACTAATTATG
1 TTATTCATATATTTGCACTATGCTAGTATCTGAAAAGAAATTATCTGTTGAGTCCACTAATTATG
78038468 ATATACAAGTCACTAATCCATTAGGTCAAAGTGTGATGGTGAATTTAAAATGTCGTAATTGTCCA
66 ATATACAAGTCACTAATCCATTAGGTCAAAGTGTGATGGTGAATTTAAAATGTCGTAATTGTCCA
78038533 CTGAAAGTGAAAGGCTGTGAATTCCCTGCTGATTTGAT
131 CTGAAAGTGAAAGGCTGTGAATTCCCTGCTGATTTGAT
78038571 TTATTCATATATTTGCACTATGCTAGTATCTGAAAAGAAATTATCTGTTGAGTCCACTAATTATG
1 TTATTCATATATTTGCACTATGCTAGTATCTGAAAAGAAATTATCTGTTGAGTCCACTAATTATG
78038636 ATATACAAGTCACTAATCCATTAGGTCAAAGTGTGATGGTGAATTTAAAATGTCGTAATTGTCCA
66 ATATACAAGTCACTAATCCATTAGGTCAAAGTGTGATGGTGAATTTAAAATGTCGTAATTGTCCA
78038701 CTGAAAGTGAAAGGCTGTGAATTCCCTGCTGATTTGAT
131 CTGAAAGTGAAAGGCTGTGAATTCCCTGCTGATTTGAT
78038739 GTTGTTACCC
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (168 bp):
TTATTCATATATTTGCACTATGCTAGTATCTGAAAAGAAATTATCTGTTGAGTCCACTAATTATG
ATATACAAGTCACTAATCCATTAGGTCAAAGTGTGATGGTGAATTTAAAATGTCGTAATTGTCCA
CTGAAAGTGAAAGGCTGTGAATTCCCTGCTGATTTGAT
Found at i:78045480 original size:16 final size:17
Alignment explanation
Indices: 78045449--78045481 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
78045439 TTCATAAGTA
78045449 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
78045466 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
78045482 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:78045762 original size:46 final size:46
Alignment explanation
Indices: 78045712--78045970 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
78045702 TGCCATATTG
* *
78045712 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGTTGCCATGGTA
* **
78045758 TCTTTCAACCATGGTCTTATTCATTTCATGTCACACTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* ** *
78045804 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* * *
78045850 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* * *
78045896 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
*
78045942 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
78045971 ATCAGAGAGC
Statistics
Matches: 193, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 189 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
Found at i:78045859 original size:92 final size:92
Alignment explanation
Indices: 78045712--78045974 Score: 400
Period size: 92 Copynumber: 2.9 Consensus size: 92
78045702 TGCCATATTG
* *
78045712 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
78045777 TTCATTTCATGTCACACTGCCATGGTA
66 TTCATTTCATATCACACTGCCATGGTA
* *
78045804 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** *
78045869 TTCATTTCATATCACGTTGTCATGGTA
66 TTCATTTCATATCACACTGCCATGGTA
* * * *
78045896 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
**
78045961 CACATTTCATATCA
66 TTCATTTCATATCA
78045975 GAGAGCACAC
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 155 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.41
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCATTTCATATCACACTGCCATGGTA
Found at i:78052550 original size:26 final size:28
Alignment explanation
Indices: 78052514--78052570 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 28
78052504 TTAAGTATTC
* *
78052514 ATATTTTTTAAAATT-TATAATA-TAAT
1 ATATATTTTAAAATTATATAAAACTAAT
78052540 ATATATTTTAAAATTATATAAAACTAAT
1 ATATATTTTAAAATTATATAAAACTAAT
78052568 ATA
1 ATA
78052571 AAAATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 14 0.52
27 6 0.22
28 7 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATATTTTAAAATTATATAAAACTAAT
Found at i:78053113 original size:5 final size:6
Alignment explanation
Indices: 78053096--78053125 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
78053086 ATTTTCACCC
78053096 TATTTT TATTTT TATTTT TA-TTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT T
78053126 GGTTTACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:78053113 original size:11 final size:12
Alignment explanation
Indices: 78053096--78053125 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
78053086 ATTTTCACCC
78053096 TATTTTTATTTT
1 TATTTTTATTTT
78053108 TATTTTTA-TTT
1 TATTTTTATTTT
78053119 TATTTTT
1 TATTTTT
78053126 GGTTTACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TATTTTTATTTT
Found at i:78059215 original size:22 final size:20
Alignment explanation
Indices: 78059188--78059239 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
78059178 ATACAGTACC
78059188 ATAAATATAACACAAATCATAA
1 ATAAATATAACACAAA--ATAA
* *
78059210 ATAAATAAAATACAAAATAA
1 ATAAATATAACACAAAATAA
78059230 ATATAATATA
1 ATA-AATATA
78059240 TTAATTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.27
21 5 0.19
22 14 0.54
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (20 bp):
ATAAATATAACACAAAATAA
Found at i:78059220 original size:16 final size:18
Alignment explanation
Indices: 78059187--78059232 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
78059177 TATACAGTAC
*
78059187 CATAAATATAACACAAAT-
1 CATAAATA-AATACAAATA
78059205 CATAAATAAATA-AAATA
1 CATAAATAAATACAAATA
78059222 CA-AAATAAATA
1 CATAAATAAATA
78059233 TAATATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 13 0.50
17 5 0.19
18 8 0.31
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (18 bp):
CATAAATAAATACAAATA
Found at i:78059785 original size:41 final size:41
Alignment explanation
Indices: 78059749--78059830 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
78059739 TTTTAGTTTA
* *
78059749 AGGTTTTTAGGGTTAGGGTTTTGTTAAAATAATTTAGGGTT
1 AGGTTTGTAGGGTTAAGGTTTTGTTAAAATAATTTAGGGTT
*
78059790 AGGTTTGTAGGGTTAAGGTTTTGTTAAAATAATTTAAGGTT
1 AGGTTTGTAGGGTTAAGGTTTTGTTAAAATAATTTAGGGTT
78059831 TTCGGTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (41 bp):
AGGTTTGTAGGGTTAAGGTTTTGTTAAAATAATTTAGGGTT
Found at i:78059927 original size:34 final size:32
Alignment explanation
Indices: 78059877--78059939 Score: 99
Period size: 34 Copynumber: 1.9 Consensus size: 32
78059867 TAGTGTTCTT
78059877 TTTTAAAAATTAATTAAATTAGGGTTTAGGGG
1 TTTTAAAAATTAATTAAATTAGGGTTTAGGGG
*
78059909 TTTTAAATTAATTAATTAAATTTGGGTTTAG
1 TTTTAAA--AATTAATTAAATTAGGGTTTAG
78059940 TTTTTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 7 0.25
34 21 0.75
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (32 bp):
TTTTAAAAATTAATTAAATTAGGGTTTAGGGG
Found at i:78060446 original size:127 final size:126
Alignment explanation
Indices: 78060025--78060548 Score: 701
Period size: 126 Copynumber: 4.1 Consensus size: 126
78060015 GATTTTGGTT
* * *
78060025 TTTTTCCTACAGTAGTTCCTGAAAAAAAAAATTTGAGAAGACGGTTC-AGAATAAATAGTGTCAA
1 TTTTT-CTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTA-AACAAATAGTGTCAA
* * * * * * *
78060089 AAAAGCTTTAAGCAAGATGCACTGTCAGCCAAATTGATGAAAAAAGCTTCCATGTGGACGCTA
64 AAACGCTTCAAGCAAGATGCACTGTCAGCAAAATTGATAAAAAAAGCTCCCACGTGGACGCTC
* * * * *
78060152 TTTTTCTACAGTAGTTCCTAAAAAAATGATTTTGAGAAGGCGGTTCTGAACAAATAGTATCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAAAA
* * * * *
78060217 ACGCTTCAAACAGGATGTACTGTCAGCAAAATTGATTAAAAAAGCTCCCACATGGACGCTC
66 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTGATAAAAAAAGCTCCCACGTGGACGCTC
* * *
78060278 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAC
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAAAA
* * *
78060343 ACGCTTCAAGCAGGATACACTGTCAGCAAAATTGATAAAAAAAAGCTCCCACGTGTACGCTC
66 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTGAT-AAAAAAAGCTCCCACGTGGACGCTC
* * * *
78060405 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTC-AAA
*
78060470 AACGCTTCAAGCAAGATGCACTGTCAGCAAAATT-ACTAAAAAAAGCTCCCACGTGGATGCTC
65 AACGCTTCAAGCAAGATGCACTGTCAGCAAAATTGA-TAAAAAAAGCTCCCACGTGGACGCTC
*
78060532 TTTTTCTATAGTAGTTC
1 TTTTTCTACAGTAGTTC
78060549 ATGTTTGGCC
Statistics
Matches: 349, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
126 191 0.55
127 123 0.35
128 35 0.10
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAAAA
ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTGATAAAAAAAGCTCCCACGTGGACGCTC
Found at i:78062060 original size:14 final size:14
Alignment explanation
Indices: 78062041--78062072 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
78062031 TAAGCAGAAG
78062041 GCATTAGAAAATAT
1 GCATTAGAAAATAT
78062055 GCATTAGAAAATAT
1 GCATTAGAAAATAT
78062069 GCAT
1 GCAT
78062073 AGTGGGTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (14 bp):
GCATTAGAAAATAT
Found at i:78068048 original size:30 final size:28
Alignment explanation
Indices: 78068009--78068070 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
78067999 ATGGATTTAA
78068009 ATTACTTATTATTTAAGTAAATAGATATTT
1 ATTACTTATTA-TTAAGTAAA-AGATATTT
*
78068039 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
78068067 ATTA
1 ATTA
78068071 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:78076816 original size:20 final size:20
Alignment explanation
Indices: 78076788--78076832 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
78076778 CTAGAACTTA
78076788 GTTTAAAATGA-TTCTAAAGT
1 GTTTAAAATGACTTCTAAA-T
* *
78076808 GTTTTAAATGACTTTTAAAT
1 GTTTAAAATGACTTCTAAAT
78076828 GTTTA
1 GTTTA
78076833 TAGACCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (20 bp):
GTTTAAAATGACTTCTAAAT
Found at i:78090762 original size:18 final size:18
Alignment explanation
Indices: 78090737--78090829 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
78090727 ACCGTTTACG
78090737 GTACTATTCACGTATACA
1 GTACTATTCACGTATACA
* * *
78090755 GAACTATTTACGTATACG
1 GTACTATTCACGTATACA
78090773 GTACTATTCACGTATACA
1 GTACTATTCACGTATACA
* *
78090791 GTACTATTCACATATACG
1 GTACTATTCACGTATACA
*
78090809 GTACTGTTCACGTATACA
1 GTACTATTCACGTATACA
78090827 GTA
1 GTA
78090830 GTTGGGATTG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (18 bp):
GTACTATTCACGTATACA
Found at i:78090828 original size:36 final size:36
Alignment explanation
Indices: 78090733--78090829 Score: 158
Period size: 36 Copynumber: 2.7 Consensus size: 36
78090723 TACGACCGTT
* * *
78090733 TACGGTACTATTCACGTATACAGAACTATTTACGTA
1 TACGGTACTATTCACGTATACAGTACTATTCACATA
78090769 TACGGTACTATTCACGTATACAGTACTATTCACATA
1 TACGGTACTATTCACGTATACAGTACTATTCACATA
*
78090805 TACGGTACTGTTCACGTATACAGTA
1 TACGGTACTATTCACGTATACAGTA
78090830 GTTGGGATTG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACAGTACTATTCACATA
Found at i:78115379 original size:15 final size:16
Alignment explanation
Indices: 78115359--78115388 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78115349 TGGTGTAGTA
78115359 AAATA-TTAAAAAAAT
1 AAATATTTAAAAAAAT
78115374 AAATATTTAAAAAAA
1 AAATATTTAAAAAAA
78115389 GAAAGATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATATTTAAAAAAAT
Found at i:78139373 original size:26 final size:25
Alignment explanation
Indices: 78139316--78139375 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
78139306 ATATTCTATC
*
78139316 TAGTTTTA--ATTTTAATCCTTACT
1 TAGTTTTATTATTTTAATCCTTAAT
*
78139339 TATTATTTATTATTTTAATCCTTAAT
1 TAGT-TTTATTATTTTAATCCTTAAT
78139365 TCAGTTTTATT
1 T-AGTTTTATT
78139376 CCTTTCAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 3 0.10
24 4 0.13
26 21 0.70
27 2 0.07
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (25 bp):
TAGTTTTATTATTTTAATCCTTAAT
Found at i:78139619 original size:17 final size:18
Alignment explanation
Indices: 78139587--78139623 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
78139577 TTTACATCTC
*
78139587 TTTCATATATTATTATAT
1 TTTCACATATTATTATAT
78139605 TTTCACATA-TATTATAT
1 TTTCACATATTATTATAT
78139622 TT
1 TT
78139624 ATTAATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTCACATATTATTATAT
Found at i:78139746 original size:21 final size:20
Alignment explanation
Indices: 78139722--78139766 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 20
78139712 TATGCAATCT
78139722 TTATTATGTTTTATTTTTATA
1 TTATTATGTTTT-TTTTTATA
78139743 TTATTTATTGTTTTTTTTATATA
1 TTA-TTA-TGTTTTTTTT-TATA
78139766 T
1 T
78139767 ATATGTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 3 0.14
22 7 0.33
23 11 0.52
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (20 bp):
TTATTATGTTTTTTTTTATA
Found at i:78139765 original size:23 final size:25
Alignment explanation
Indices: 78139728--78139775 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
78139718 ATCTTTATTA
78139728 TGTTTTATTTTTATAT-TAT-TTAT
1 TGTTTTATTTTTATATATATGTTAT
78139751 TGTTTT-TTTTATATATATATGTTAT
1 TGTTTTATTTT-TATATATATGTTAT
78139776 GTATATCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 3 0.14
25 4 0.18
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (25 bp):
TGTTTTATTTTTATATATATGTTAT
Found at i:78140306 original size:16 final size:17
Alignment explanation
Indices: 78140285--78140318 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
78140275 CATTTTTTTG
*
78140285 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
78140301 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
78140318 C
1 C
78140319 ATTTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:78140401 original size:14 final size:14
Alignment explanation
Indices: 78140382--78140408 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78140372 AATTCTCCAC
78140382 GCATCATCTTTAAT
1 GCATCATCTTTAAT
78140396 GCATCATCTTTAA
1 GCATCATCTTTAA
78140409 AGAGACAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (14 bp):
GCATCATCTTTAAT
Found at i:78150640 original size:40 final size:40
Alignment explanation
Indices: 78150587--78150666 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
78150577 GGGATTTTGA
*
78150587 GTTGAAAACCCGAAAGGGCAGCTCAAATTTTGAAGGGCAC
1 GTTGAAAACCCGAAAGGGCAGCTCAAATTTTGAAAGGCAC
78150627 GTTGAAAACCCGAAAGGGCAGCTCAAATTTTGAAAGGCAC
1 GTTGAAAACCCGAAAGGGCAGCTCAAATTTTGAAAGGCAC
78150667 ACAGCAACCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.17
Consensus pattern (40 bp):
GTTGAAAACCCGAAAGGGCAGCTCAAATTTTGAAAGGCAC
Found at i:78150663 original size:20 final size:20
Alignment explanation
Indices: 78150598--78150663 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
78150588 TTGAAAACCC
78150598 GAAAGGGCAGCTCAAATTTT
1 GAAAGGGCAGCTCAAATTTT
* * ****
78150618 G-AAGGGCACGTTGAAAACCC
1 GAAAGGGCA-GCTCAAATTTT
78150638 GAAAGGGCAGCTCAAATTTT
1 GAAAGGGCAGCTCAAATTTT
78150658 GAAAGG
1 GAAAGG
78150664 CACACAGCAA
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (20 bp):
GAAAGGGCAGCTCAAATTTT
Found at i:78151615 original size:83 final size:83
Alignment explanation
Indices: 78151460--78151615 Score: 213
Period size: 83 Copynumber: 1.9 Consensus size: 83
78151450 GAGGCAGATC
* * * * * *
78151460 CAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACGTTGTAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCA
*
78151525 AATGTTCTTAAACAAACT
66 AACGTTCTTAAACAAACT
* * *
78151543 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCA
*
78151608 GACGTTCT
66 AACGTTCT
78151616 CAAATATAGC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 62 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (83 bp):
CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCA
AACGTTCTTAAACAAACT
Found at i:78151765 original size:202 final size:202
Alignment explanation
Indices: 78151419--78151821 Score: 646
Period size: 202 Copynumber: 2.0 Consensus size: 202
78151409 CAAATTGAAA
* * * * *
78151419 ATAGCAGATCTAGCCTTTAGATGTTTATACTGAGGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATCCTTGTGC
* * *
78151484 TTACAAGGAACAAATCGAGGACGTTGTAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGAT
66 TTACAAGGAACAAATCGAGGACGTTGCAGATATAACTCTCAAATGTTCTCAAACAAACTCAAGAT
* * * *
78151549 GGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTT
131 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAACGTT
78151614 CTCAAAT
196 CTCAAAT
*
78151621 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATGATTTGGTATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATCCTTGTGC
*
78151686 TTACAAGGAACAAATCGAAGG-CGTTGCAGATATAACTCTCAAATGTTCTCAAACAGACTCAAGA
66 TTACAAGGAACAAATCG-AGGACGTTGCAGATATAACTCTCAAATGTTCTCAAACAAACTCAAGA
* *
78151750 TGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGT
130 TGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAACGT
78151815 TCTCAAA
195 TCTCAAA
78151822 CAGACTCAAG
Statistics
Matches: 184, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
202 181 0.98
203 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (202 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATCCTTGTGC
TTACAAGGAACAAATCGAGGACGTTGCAGATATAACTCTCAAATGTTCTCAAACAAACTCAAGAT
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAACGTT
CTCAAAT
Found at i:78151767 original size:83 final size:83
Alignment explanation
Indices: 78151663--78151847 Score: 318
Period size: 83 Copynumber: 2.2 Consensus size: 83
78151653 AAGCAGATCT
* *
78151663 AAGATGATTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGG-CGTTGCAGATATAACTCTCA
1 AAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCG-AGGACATTGCAGATATAACTCTCA
78151727 AATGTTCTCAAACAGACTC
65 AATGTTCTCAAACAGACTC
*
78151746 AAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATAACTCTCAA
78151811 ATGTTCTCAAACAGACTC
66 ATGTTCTCAAACAGACTC
*
78151829 AAGATGATTTGACATCCTT
1 AAGATGATTTGGCATCCTT
78151848 ACAAATCGAA
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
82 3 0.03
83 94 0.97
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (83 bp):
AAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATAACTCTCAA
ATGTTCTCAAACAGACTC
Found at i:78153530 original size:26 final size:25
Alignment explanation
Indices: 78153471--78153530 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
78153461 ATATTCTATC
*
78153471 TAGTTTTA--ATTTTAATCCTTACT
1 TAGTTTTATTATTTTAATCCTTAAT
78153494 TA-TTATCTATTATTTTAATCCTTAAT
1 TAGTT-T-TATTATTTTAATCCTTAAT
78153520 TCAGTTTTATT
1 T-AGTTTTATT
78153531 CCTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
22 2 0.07
23 3 0.10
24 2 0.07
26 19 0.63
27 2 0.07
28 2 0.07
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (25 bp):
TAGTTTTATTATTTTAATCCTTAAT
Found at i:78153776 original size:17 final size:18
Alignment explanation
Indices: 78153744--78153780 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
78153734 TTTACATCTC
*
78153744 TTTCATATATTATTATAT
1 TTTCACATATTATTATAT
78153762 TTTCACATA-TATTATAT
1 TTTCACATATTATTATAT
78153779 TT
1 TT
78153781 ATTAATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTCACATATTATTATAT
Found at i:78154460 original size:16 final size:17
Alignment explanation
Indices: 78154439--78154472 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
78154429 CATTTTTTTG
*
78154439 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
78154455 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
78154472 C
1 C
78154473 ATTTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:78156653 original size:20 final size:20
Alignment explanation
Indices: 78156628--78156667 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
78156618 GGCTTCATCA
78156628 CTATCACTCATAGTCTCCAT
1 CTATCACTCATAGTCTCCAT
78156648 CTATCACTCATAGTCTCCAT
1 CTATCACTCATAGTCTCCAT
78156668 GTTCACTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.35, G:0.05, T:0.35
Consensus pattern (20 bp):
CTATCACTCATAGTCTCCAT
Found at i:78160530 original size:43 final size:43
Alignment explanation
Indices: 78160482--78160563 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
78160472 GTGATTGATT
* *
78160482 TTGAAATGGAAAAGATGATAAATGAATATGAGATGAGAAAATA
1 TTGAAATGGAAAAGATGAGAAATGAATATAAGATGAGAAAATA
* *
78160525 TTGAAATGGAAAATATGAGAAATGATTATAAGATGAGAA
1 TTGAAATGGAAAAGATGAGAAATGAATATAAGATGAGAA
78160564 TTGAAATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.24
Consensus pattern (43 bp):
TTGAAATGGAAAAGATGAGAAATGAATATAAGATGAGAAAATA
Found at i:78160548 original size:16 final size:16
Alignment explanation
Indices: 78160484--78160548 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
78160474 GATTGATTTT
*
78160484 GAAATGGAAAAGATGA
1 GAAATGGAAAATATGA
*
78160500 TAAAT-G--AATATGA
1 GAAATGGAAAATATGA
*
78160513 G--ATGAGAAAATAT-T
1 GAAATG-GAAAATATGA
78160527 GAAATGGAAAATATGA
1 GAAATGGAAAATATGA
78160543 GAAATG
1 GAAATG
78160549 ATTATAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
11 2 0.05
13 7 0.19
14 1 0.03
15 14 0.38
16 13 0.35
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.22
Consensus pattern (16 bp):
GAAATGGAAAATATGA
Found at i:78161477 original size:17 final size:17
Alignment explanation
Indices: 78161452--78161490 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
78161442 CTGGCCATAG
*
78161452 GGGCGTATGTCACACAC
1 GGGCATATGTCACACAC
78161469 GGGCATATGTCACACAC
1 GGGCATATGTCACACAC
78161486 GGGCA
1 GGGCA
78161491 ACACACATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.28, G:0.31, T:0.15
Consensus pattern (17 bp):
GGGCATATGTCACACAC
Found at i:78170833 original size:28 final size:28
Alignment explanation
Indices: 78170780--78170837 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
78170770 ACCCTCAAAT
**
78170780 AATTAGATACAATCTTTTTTATTTGAAG
1 AATTAGATACAATCTTTAATATTTGAAG
*
78170808 AATTAGGTACAATCTTTGAATA-TTGAAG
1 AATTAGATACAATCTTT-AATATTTGAAG
78170836 AA
1 AA
78170838 ATAAAAGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (28 bp):
AATTAGATACAATCTTTAATATTTGAAG
Found at i:78172143 original size:29 final size:30
Alignment explanation
Indices: 78172078--78172142 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
78172068 AAAAAGGCCC
* *
78172078 ATTTTTAAATATATTTATAAAAATGGATTA
1 ATTTTTAAATATATTTAGAAAAATGGACTA
78172108 ATTTTTAAAT-TATTTACCGAAAAA-GGACTA
1 ATTTTTAAATATATTTA--GAAAAATGGACTA
78172138 ATTTT
1 ATTTT
78172143 ATTGACTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 6 0.19
30 20 0.65
31 5 0.16
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.45
Consensus pattern (30 bp):
ATTTTTAAATATATTTAGAAAAATGGACTA
Done.