Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 242 of 255
Found at i:78869508 original size:11 final size:10
Alignment explanation
Indices: 78869441--78869508 Score: 57
Period size: 11 Copynumber: 6.5 Consensus size: 10
78869431 TATTTATTAT
*
78869441 ATTTTATTTA
1 ATTTTATATA
*
78869451 TATTTTTTATA
1 -ATTTTATATA
78869462 ATTTTTAATATA
1 A-TTTT-ATATA
*
78869474 ATTTTTTATA
1 ATTTTATATA
*
78869484 GTTTTA-ATA
1 ATTTTATATA
78869493 ATTTTATATCA
1 ATTTTATAT-A
78869504 ATTTT
1 ATTTT
78869509 TTTCTTGTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
9 8 0.17
10 11 0.24
11 22 0.48
12 5 0.11
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (10 bp):
ATTTTATATA
Found at i:78869511 original size:31 final size:30
Alignment explanation
Indices: 78869433--78869531 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
78869423 ATTTATTATA
* *
78869433 TTTAT-TATATTTTATTTATATTTTTTATAATT
1 TTTATATA-ATTTT-TTTATAGTTTTAATAA-T
78869465 TTTAATATAA-TTTTTTATAGTTTTAATAAT
1 TTT-ATATAATTTTTTTATAGTTTTAATAAT
* * *
78869495 TTTATATCAATTTTTTTCTTGTTTTTAATCAT
1 TTTATAT-AATTTTTTTATAG-TTTTAATAAT
78869527 TTTAT
1 TTTAT
78869532 GGGAAAACTA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
29 4 0.07
30 6 0.11
31 22 0.39
32 20 0.35
33 3 0.05
34 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (30 bp):
TTTATATAATTTTTTTATAGTTTTAATAAT
Found at i:78870640 original size:14 final size:16
Alignment explanation
Indices: 78870621--78870654 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
78870611 GGATATAGTA
78870621 AAATA-TTT-AAAAAT
1 AAATATTTTAAAAAAT
78870635 AAATATTTTAAAAAAT
1 AAATATTTTAAAAAAT
78870651 AAAT
1 AAAT
78870655 TATTAATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 3 0.17
16 10 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATTTTAAAAAAT
Found at i:78874369 original size:15 final size:15
Alignment explanation
Indices: 78874349--78874456 Score: 51
Period size: 15 Copynumber: 7.2 Consensus size: 15
78874339 TTTATGGAAA
78874349 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
78874364 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
78874378 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * * **
78874394 ATTAAATAT-TAGAA
1 ATCAAAGATATGGGT
*
78874408 AGTCAAAGATATAGGT
1 A-TCAAAGATATGGGT
* **
78874424 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
78874438 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
78874454 ATC
1 ATC
78874457 GAGATATTGG
Statistics
Matches: 63, Mismatches: 24, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
14 10 0.16
15 41 0.65
16 12 0.19
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:78874386 original size:30 final size:30
Alignment explanation
Indices: 78874345--78874456 Score: 179
Period size: 30 Copynumber: 3.7 Consensus size: 30
78874335 CATATTTATG
* *
78874345 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
78874375 GAAAGTCAAAGATATGGGTATTAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
* *
78874405 GAAAGTCAAAGATATAGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATATTA
78874435 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
78874457 GAGATATTGG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATATTA
Found at i:78879059 original size:15 final size:15
Alignment explanation
Indices: 78879039--78879146 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
78879029 TTTATGGAAA
78879039 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
78879054 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
78879068 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
78879084 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
78879098 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
78879114 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
78879128 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
78879144 ATC
1 ATC
78879147 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:78879076 original size:30 final size:30
Alignment explanation
Indices: 78879033--78879156 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
78879023 TCCATATTTA
* *
78879033 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
78879063 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
78879093 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
78879123 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
78879154 TGG
1 TGG
78879157 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:78883309 original size:18 final size:19
Alignment explanation
Indices: 78883275--78883315 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
78883265 CATTCCATCA
*
78883275 ATAAAAACTTAATTTTA-C
1 ATAAAAACCTAATTTTATC
78883293 ATAAAAATCCTAA-TTTATC
1 ATAAAAA-CCTAATTTTATC
78883312 ATAA
1 ATAA
78883316 GCAAGCCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAAAACCTAATTTTATC
Found at i:78883736 original size:22 final size:23
Alignment explanation
Indices: 78883698--78883740 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
78883688 GTATTAATAA
78883698 ATTAAAAAATTTATTGAAATTTC
1 ATTAAAAAATTTATTGAAATTTC
*
78883721 ATTAAATAA-TTATTGAAATT
1 ATTAAAAAATTTATTGAAATT
78883741 ATGGAGGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (23 bp):
ATTAAAAAATTTATTGAAATTTC
Found at i:78893121 original size:14 final size:14
Alignment explanation
Indices: 78893102--78893133 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
78893092 CAAAATAGTT
*
78893102 TATGCATATGTATG
1 TATGCAAATGTATG
78893116 TATGCAAATGTATG
1 TATGCAAATGTATG
78893130 TATG
1 TATG
78893134 TAGATAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (14 bp):
TATGCAAATGTATG
Found at i:78896939 original size:43 final size:43
Alignment explanation
Indices: 78896875--78896974 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
78896865 CTTCGGTTCA
* * * *
78896875 TCCGATGATACAATGTATGTGCCAGTATAATTGCTTT-GGCTTG
1 TCCGATGATGCACTGTATGTGCCAATATAATTG-TTTCGACTTG
* *
78896918 TCCGATGATGCACTGTGTGTGCCAATATAATTGTTTCGACTTT
1 TCCGATGATGCACTGTATGTGCCAATATAATTGTTTCGACTTG
78896961 TCCGATGATGCACT
1 TCCGATGATGCACT
78896975 ACGTGTGCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 3 0.06
43 47 0.94
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCCGATGATGCACTGTATGTGCCAATATAATTGTTTCGACTTG
Found at i:78903486 original size:28 final size:29
Alignment explanation
Indices: 78903452--78903508 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
78903442 ACATTTAATC
78903452 AATTACTAAATATTT-T-TATTTCTAATTT
1 AATTACTAAA-ATTTCTATATTTCTAATTT
*
78903480 AATTACTAAAATTTCTATTTTTCTAATTT
1 AATTACTAAAATTTCTATATTTCTAATTT
78903509 CACAATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.15
28 11 0.42
29 11 0.42
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (29 bp):
AATTACTAAAATTTCTATATTTCTAATTT
Found at i:78908169 original size:87 final size:87
Alignment explanation
Indices: 78908023--78908196 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
78908013 TGTCAATGAG
78908023 ACATTTGACTGACAAGTGCAGCATTGCATCCTAATTTGACAACCACTTATAGTTAGACATATTTG
1 ACATTTGACTGACAAGTGCAGCATTGCATCCTAATTTGACAACCACTTATAGTTAGACATATTTG
78908088 ACATCCAGATTCCTCTTTGATT
66 ACATCCAGATTCCTCTTTGATT
*
78908110 ACATTTGACTGACAAGTGCAGCATTGCATCCTAATTTGACAACCACTTGTAGTTAGACATATTTG
1 ACATTTGACTGACAAGTGCAGCATTGCATCCTAATTTGACAACCACTTATAGTTAGACATATTTG
78908175 ACATCCAGATTCCTCTTTGATT
66 ACATCCAGATTCCTCTTTGATT
78908197 TTGCTTGTCA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (87 bp):
ACATTTGACTGACAAGTGCAGCATTGCATCCTAATTTGACAACCACTTATAGTTAGACATATTTG
ACATCCAGATTCCTCTTTGATT
Found at i:78913828 original size:6 final size:6
Alignment explanation
Indices: 78913817--78913841 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
78913807 GGATCAGTCA
78913817 CTGTCC CTGTCC CTGTCC CTGTCC C
1 CTGTCC CTGTCC CTGTCC CTGTCC C
78913842 CTCTCCTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.16, T:0.32
Consensus pattern (6 bp):
CTGTCC
Found at i:78917049 original size:25 final size:25
Alignment explanation
Indices: 78917020--78917070 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
78917010 TGAATGAATG
78917020 AATGTTCAAGTTCATTACAGTAAAC
1 AATGTTCAAGTTCATTACAGTAAAC
78917045 AATGTTCAAGTTCATTACAGTAAAC
1 AATGTTCAAGTTCATTACAGTAAAC
78917070 A
1 A
78917071 TTTTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (25 bp):
AATGTTCAAGTTCATTACAGTAAAC
Found at i:78919709 original size:9 final size:9
Alignment explanation
Indices: 78919695--78919743 Score: 53
Period size: 9 Copynumber: 5.0 Consensus size: 9
78919685 TTTTTTAAAA
78919695 TTAAAAATT
1 TTAAAAATT
78919704 TTAAAATTATT
1 TTAAAA--ATT
*
78919715 TAAAATATATT
1 TTAAA-A-ATT
78919726 TTAAAAATT
1 TTAAAAATT
78919735 TTAAAAATT
1 TTAAAAATT
78919744 AATTTATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 18 0.51
10 1 0.03
11 15 0.43
12 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TTAAAAATT
Found at i:78919741 original size:22 final size:22
Alignment explanation
Indices: 78919701--78919742 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
78919691 AAAATTAAAA
*
78919701 ATTTTAAAATTATTTAAAATAT
1 ATTTTAAAATTATTAAAAATAT
78919723 ATTTTAAAAATT-TTAAAAAT
1 ATTTT-AAAATTATTAAAAAT
78919743 TAATTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTAAAATTATTAAAAATAT
Found at i:78919748 original size:22 final size:21
Alignment explanation
Indices: 78919700--78919748 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
78919690 TAAAATTAAA
*
78919700 AATTTTAAAATTATTTAAAAT
1 AATTTTAAAATTATTAAAAAT
78919721 ATATTTTAAAAATT-TTAAAAATT
1 A-ATTTT-AAAATTATTAAAAA-T
78919744 AATTT
1 AATTT
78919749 ATTGTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTTTAAAATTATTAAAAAT
Found at i:78919749 original size:21 final size:23
Alignment explanation
Indices: 78919700--78919749 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
78919690 TAAAATTAAA
* *
78919700 AATTTTAAAATTATTTAAAATAT
1 AATTTAAAAATTATTAAAAATAT
*
78919723 ATTTTAAAAATT-TTAAAAAT-T
1 AATTTAAAAATTATTAAAAATAT
78919744 AATTTA
1 AATTTA
78919750 TTGTTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 6 0.26
22 7 0.30
23 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AATTTAAAAATTATTAAAAATAT
Found at i:78941736 original size:15 final size:14
Alignment explanation
Indices: 78941708--78941734 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78941698 TCATATATCT
78941708 TTTTTTAATATTTA
1 TTTTTTAATATTTA
78941722 TTTTTTAATATTT
1 TTTTTTAATATTT
78941735 TACTATAACA
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:78950756 original size:31 final size:31
Alignment explanation
Indices: 78950721--78950781 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
78950711 GATTCTCAAA
78950721 TATCATTCTTTTATTTCTTCTTCTTTTTTTT
1 TATCATTCTTTTATTTCTTCTTCTTTTTTTT
*
78950752 TATCATTCTTTTATTTCTTTTTCTTTTTTT
1 TATCATTCTTTTATTTCTTCTTCTTTTTTT
78950782 CTTTTTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (31 bp):
TATCATTCTTTTATTTCTTCTTCTTTTTTTT
Found at i:78950760 original size:16 final size:17
Alignment explanation
Indices: 78950721--78950769 Score: 68
Period size: 15 Copynumber: 3.1 Consensus size: 17
78950711 GATTCTCAAA
78950721 TATCATTCTTTTATTTC
1 TATCATTCTTTTATTTC
*
78950738 T-TC-TTCTTTT-TTTT
1 TATCATTCTTTTATTTC
78950752 TATCATTCTTTTATTTC
1 TATCATTCTTTTATTTC
78950769 T
1 T
78950770 TTTTCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.15
15 9 0.33
16 9 0.33
17 5 0.19
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.71
Consensus pattern (17 bp):
TATCATTCTTTTATTTC
Found at i:78950787 original size:15 final size:15
Alignment explanation
Indices: 78950726--78950787 Score: 67
Period size: 15 Copynumber: 4.1 Consensus size: 15
78950716 TCAAATATCA
*
78950726 TTCTTTTATTTCTTC
1 TTCTTTTATTTCTTT
78950741 TTCTTTT-TTT-TTAT
1 TTCTTTTATTTCTT-T
78950755 CATTCTTTTATTTCTTT
1 --TTCTTTTATTTCTTT
78950772 TTCTTTT-TTTCTTT
1 TTCTTTTATTTCTTT
78950786 TT
1 TT
78950788 AAGGGTGTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
13 2 0.05
14 12 0.29
15 14 0.34
16 7 0.17
17 4 0.10
18 2 0.05
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (15 bp):
TTCTTTTATTTCTTT
Found at i:78957344 original size:30 final size:28
Alignment explanation
Indices: 78957288--78957353 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 28
78957278 TAGAATATAT
*
78957288 ATTTTTTAAATTTAAGTTTTGCTTTTACAA
1 ATTTTTTAAATTTAAATTTT-CTTTTA-AA
78957318 ATTTTTTAAATTTAAATACTTT-TTTTAAA
1 ATTTTTTAAATTTAAAT--TTTCTTTTAAA
*
78957347 TTTTTTT
1 ATTTTTT
78957354 TAAAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
32 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (28 bp):
ATTTTTTAAATTTAAATTTTCTTTTAAA
Found at i:78960978 original size:8 final size:8
Alignment explanation
Indices: 78960965--78960993 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
78960955 ATGGAAGAAA
78960965 CTTTTATT
1 CTTTTATT
78960973 CTTTTATT
1 CTTTTATT
78960981 CTTTTATT
1 CTTTTATT
78960989 CTTTT
1 CTTTT
78960994 TTAGGCAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (8 bp):
CTTTTATT
Found at i:78973445 original size:17 final size:17
Alignment explanation
Indices: 78973423--78973467 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
78973413 GTTTTATAAA
*
78973423 TTTATATTTATGTTGAG
1 TTTATATTTATATTGAG
* * *
78973440 TTTATAATTAAATTTAG
1 TTTATATTTATATTGAG
78973457 TTTATATTTAT
1 TTTATATTTAT
78973468 TTTTTTAGGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTATATTTATATTGAG
Found at i:78977355 original size:33 final size:33
Alignment explanation
Indices: 78977318--78977387 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
78977308 TATACATGTA
78977318 AAAACTTTGAATTTAGAATATTAAGATGTATTT
1 AAAACTTTGAATTTAGAATATTAAGATGTATTT
*
78977351 AAAACTTTGAATTTAGAATATTAAGGTGTATTT
1 AAAACTTTGAATTTAGAATATTAAGATGTATTT
78977384 AAAA
1 AAAA
78977388 ATCAGATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.40
Consensus pattern (33 bp):
AAAACTTTGAATTTAGAATATTAAGATGTATTT
Found at i:78983573 original size:26 final size:26
Alignment explanation
Indices: 78983559--78983634 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 26
78983549 CAATGACTGG
*
78983559 TTTGACCAACCGATTCTATTAACTAA
1 TTTGACCAACCGATTCTAATAACTAA
*
78983585 TTTGACCAACCGATTCTATTAACTAA
1 TTTGACCAACCGATTCTAATAACTAA
* *
78983611 ATTGACCAACAC-ATTCTATTAACT
1 TTTGACCAAC-CGATTCTAATAACT
78983635 GTTTATTTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 47 0.98
27 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TTTGACCAACCGATTCTAATAACTAA
Found at i:78984588 original size:22 final size:21
Alignment explanation
Indices: 78984546--78984588 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
78984536 AAGGTTATCA
*
78984546 AAATAATAATTATTTAAAATT
1 AAATAATAATTATTCAAAATT
* *
78984567 AAATAATTATATATTCATAATT
1 AAATAATAAT-TATTCAAAATT
78984589 TATATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATAATTATTCAAAATT
Found at i:78988862 original size:44 final size:45
Alignment explanation
Indices: 78988809--78988911 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
78988799 TGTCTTTGAC
* ** * *
78988809 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATATTATAAT
* *
78988853 ATGGACTTACATGACTCAACCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATA-TTATAAT
78988899 ATGGACTTACATG
1 ATGGACTTACATG
78988912 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAACCCTGTCTCCAAAGCCATATTATAAT
Found at i:78988910 original size:46 final size:44
Alignment explanation
Indices: 78988831--78988916 Score: 127
Period size: 46 Copynumber: 1.9 Consensus size: 44
78988821 GAATTATTCT
*
78988831 TGTCTCCAATGCCATATATAATATGGACTTACATGACTCAACCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGACTCAACCC
* *
78988875 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGACTCA
78988917 TTTCTGTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 15 0.41
46 22 0.59
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGACTCAACCC
Found at i:78990439 original size:33 final size:33
Alignment explanation
Indices: 78990397--78990462 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
78990387 GCAATGGTTG
*
78990397 GATTTAGAAGGCAGCCTTAGAGACATTTGCTTA
1 GATTTAGAAGGCAACCTTAGAGACATTTGCTTA
78990430 GATTTAGAAGGCAACCTTAGAGACATTTGCTTA
1 GATTTAGAAGGCAACCTTAGAGACATTTGCTTA
78990463 TTGGGATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (33 bp):
GATTTAGAAGGCAACCTTAGAGACATTTGCTTA
Found at i:78993565 original size:15 final size:15
Alignment explanation
Indices: 78993545--78993576 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
78993535 CTTGTTTTTG
78993545 TTAATCTAATTAGTC
1 TTAATCTAATTAGTC
78993560 TTAATCTAATTAGTC
1 TTAATCTAATTAGTC
78993575 TT
1 TT
78993577 TTGATCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (15 bp):
TTAATCTAATTAGTC
Found at i:78999813 original size:12 final size:12
Alignment explanation
Indices: 78999796--78999836 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
78999786 GGAGATAGGA
78999796 AAAACAGGTTCC
1 AAAACAGGTTCC
*
78999808 AAAACAGG---A
1 AAAACAGGTTCC
78999817 AAAACAGGTTCC
1 AAAACAGGTTCC
78999829 AAAACAGG
1 AAAACAGG
78999837 AAAAACAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (12 bp):
AAAACAGGTTCC
Found at i:78999817 original size:21 final size:21
Alignment explanation
Indices: 78999792--78999844 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
78999782 CAGTGGAGAT
78999792 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
78999813 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
78999834 AGGAAAAACAG
1 AGGAAAAACAG
78999845 TGGCTGTAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.55, C:0.17, G:0.21, T:0.08
Consensus pattern (21 bp):
AGGAAAAACAGGTTCCAAAAC
Found at i:79005247 original size:22 final size:22
Alignment explanation
Indices: 79005221--79005262 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
79005211 TATAAAATTA
* * *
79005221 TAAAATATATAATTATATATTT
1 TAAAAAATAAAATAATATATTT
79005243 TAAAAAATAAAATAATATAT
1 TAAAAAATAAAATAATATAT
79005263 AAAAATTGAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAAATAAAATAATATATTT
Found at i:79005528 original size:21 final size:21
Alignment explanation
Indices: 79005504--79005547 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
79005494 TATTTATTTA
79005504 TTTTCT-AGATTTTATATATAT
1 TTTTCTGAG-TTTTATATATAT
*
79005525 TTTTCTGAGTTTTTTATATAT
1 TTTTCTGAGTTTTATATATAT
79005546 TT
1 TT
79005548 ATTTCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTTCTGAGTTTTATATATAT
Found at i:79011638 original size:15 final size:15
Alignment explanation
Indices: 79011628--79011678 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
79011618 CCAGGATATT
79011628 CTCCTCAAGGATACC
1 CTCCTCAAGGATACC
79011643 CTCCTCAAGGATACC
1 CTCCTCAAGGATACC
* *
79011658 CTGCTCAGGGATACC
1 CTCCTCAAGGATACC
79011673 CTCCTC
1 CTCCTC
79011679 CTTATGCTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.22, C:0.41, G:0.16, T:0.22
Consensus pattern (15 bp):
CTCCTCAAGGATACC
Found at i:79013039 original size:9 final size:11
Alignment explanation
Indices: 79013013--79013037 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
79013003 TTTAAGTAAA
79013013 AATATTTTTTT
1 AATATTTTTTT
79013024 AATATTTTTTT
1 AATATTTTTTT
79013035 AAT
1 AAT
79013038 TTGTTGGGAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:79015324 original size:33 final size:33
Alignment explanation
Indices: 79015287--79015357 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
79015277 ATCATGGAAG
79015287 GATAAACTTCTGGGGGTCAATCCTGGAGCGACC
1 GATAAACTTCTGGGGGTCAATCCTGGAGCGACC
79015320 GATAAACTTCTGGGGGTCAATCCTGGAGCGACC
1 GATAAACTTCTGGGGGTCAATCCTGGAGCGACC
79015353 GATAA
1 GATAA
79015358 TGAAAAGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.21
Consensus pattern (33 bp):
GATAAACTTCTGGGGGTCAATCCTGGAGCGACC
Found at i:79017214 original size:16 final size:17
Alignment explanation
Indices: 79017193--79017235 Score: 72
Period size: 16 Copynumber: 2.6 Consensus size: 17
79017183 TTATTGTGGC
79017193 TTTTTTCTTTTTTGGA-
1 TTTTTTCTTTTTTGGAT
79017209 TTTTTTC-TTTTTGGAT
1 TTTTTTCTTTTTTGGAT
79017225 TTTTTTCTTTT
1 TTTTTTCTTTT
79017236 GCTTTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.32
16 14 0.56
17 3 0.12
ACGTcount: A:0.05, C:0.07, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTTTCTTTTTTGGAT
Found at i:79017429 original size:15 final size:15
Alignment explanation
Indices: 79017409--79017442 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
79017399 TATTCTATCA
79017409 TTGAAAAATTGGGGT
1 TTGAAAAATTGGGGT
79017424 TTGAAAAATTGGGGT
1 TTGAAAAATTGGGGT
79017439 TTGA
1 TTGA
79017443 TTTTTCTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (15 bp):
TTGAAAAATTGGGGT
Found at i:79032657 original size:67 final size:63
Alignment explanation
Indices: 79032584--79032913 Score: 256
Period size: 67 Copynumber: 5.2 Consensus size: 63
79032574 CATCATGTGT
79032584 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATGT
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATGT
79032649 AG
62 AG
** *
79032651 ACAAGAGAGCTACGGGATATATGTAGCTA-GT---AT-GGTG---CTGA-GTGCACATCATGT-G
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGATACT-ATGTG-ACACCATGTAG
79032706 TACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATG
1 -ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATG
79032771 TAG
61 TAG
** * * * *
79032774 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGT-GATACTA--TG--TGACACCATG
79032838 TAG
61 TAG
* * * * * *
79032841 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGATACT-ATGTG-ACACCATGTAG
79032903 TACAAGAGAGC
1 -ACAAGAGAGC
79032914 CGAACTCTAT
Statistics
Matches: 216, Mismatches: 21, Indels: 56
0.74 0.07 0.19
Matches are distributed among these distances:
55 6 0.03
56 22 0.10
58 6 0.03
59 5 0.02
60 9 0.04
61 2 0.01
62 4 0.02
63 49 0.23
64 11 0.05
65 12 0.06
66 16 0.07
67 68 0.31
68 6 0.03
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATGTAG
Found at i:79032776 original size:123 final size:123
Alignment explanation
Indices: 79032557--79032803 Score: 494
Period size: 123 Copynumber: 2.0 Consensus size: 123
79032547 TAGGCCACAT
79032557 GTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCG
1 GTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCG
79032622 CATGGGTGATACTATGTGACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTA
66 CATGGGTGATACTATGTGACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTA
79032680 GTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCG
1 GTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCG
79032745 CATGGGTGATACTATGTGACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTA
66 CATGGGTGATACTATGTGACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTA
79032803 G
1 G
79032804 GTCGCATGCG
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (123 bp):
GTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCG
CATGGGTGATACTATGTGACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTA
Found at i:79032811 original size:63 final size:63
Alignment explanation
Indices: 79032731--79032913 Score: 176
Period size: 63 Copynumber: 2.8 Consensus size: 63
79032721 AGACATTATG
* *
79032731 ATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
79032794 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG--TGACACCATGTAGACAAGAGAGCTACGAGA
79032858 TAA
61 TAA
* * * *
79032861 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTG-ACACCATGTAG-ACAAGAGAGC
79032914 CGAACTCTAT
Statistics
Matches: 98, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
62 2 0.02
63 40 0.41
64 3 0.03
65 4 0.04
66 16 0.16
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:79036505 original size:24 final size:24
Alignment explanation
Indices: 79036474--79036523 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
79036464 ATATTAAAGT
79036474 TAAATTTAATAATAATGTGAATGA
1 TAAATTTAATAATAATGTGAATGA
79036498 TAAATTTAATAATAATGTGAATGA
1 TAAATTTAATAATAATGTGAATGA
79036522 TA
1 TA
79036524 CAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (24 bp):
TAAATTTAATAATAATGTGAATGA
Found at i:79036537 original size:24 final size:23
Alignment explanation
Indices: 79036474--79036533 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 23
79036464 ATATTAAAGT
79036474 TAAATTTAATAATAATGTGAATGA
1 TAAA-TTAATAATAATGTGAATGA
79036498 TAAATTTAATAATAATGTGAATGA
1 TAAA-TTAATAATAATGTGAATGA
79036522 TACAA-TAATAAT
1 TA-AATTAATAAT
79036534 TAATAACATG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.20
24 26 0.74
25 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (23 bp):
TAAATTAATAATAATGTGAATGA
Found at i:79037115 original size:13 final size:13
Alignment explanation
Indices: 79037071--79037124 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
79037061 TAGTTCTCTA
*
79037071 TTTTTGCTAACTC
1 TTTTAGCTAACTC
* * *
79037084 TTCTAGCTAGTCCC
1 TTTTAGCTA-ACTC
79037098 TTTTAGCTAACTC
1 TTTTAGCTAACTC
*
79037111 TTTTAGTTAACTC
1 TTTTAGCTAACTC
79037124 T
1 T
79037125 CATTTTAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
13 22 0.69
14 10 0.31
ACGTcount: A:0.19, C:0.24, G:0.09, T:0.48
Consensus pattern (13 bp):
TTTTAGCTAACTC
Found at i:79039836 original size:4 final size:4
Alignment explanation
Indices: 79039827--79039853 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
79039817 GAAAAATAAA
79039827 ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACA
79039854 GTTAGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:79044306 original size:8 final size:8
Alignment explanation
Indices: 79044295--79044324 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
79044285 TTCAAAATTA
79044295 TCAAATAT
1 TCAAATAT
79044303 TCAAATAT
1 TCAAATAT
*
79044311 TCAAATAC
1 TCAAATAT
79044319 TCAAAT
1 TCAAAT
79044325 TTTATCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (8 bp):
TCAAATAT
Found at i:79047478 original size:6 final size:6
Alignment explanation
Indices: 79047467--79047512 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
79047457 TTTCAAAAAA
*
79047467 ATATAC ATATAC ATATATAC ATATAC ATATAA ATATAC ATATAC AT
1 ATATAC ATATAC --ATATAC ATATAC ATATAC ATATAC ATATAC AT
79047513 TCTCATGTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 30 0.83
8 6 0.17
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:79047486 original size:14 final size:14
Alignment explanation
Indices: 79047467--79047509 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
79047457 TTTCAAAAAA
79047467 ATATACATATACAT
1 ATATACATATACAT
79047481 ATATACATATACAT
1 ATATACATATACAT
79047495 ATA-A-ATATACAT
1 ATATACATATACAT
79047507 ATA
1 ATA
79047510 CATTCTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.38
13 1 0.03
14 17 0.59
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATACATATACAT
Found at i:79051933 original size:323 final size:327
Alignment explanation
Indices: 79051436--79052053 Score: 1041
Period size: 323 Copynumber: 1.9 Consensus size: 327
79051426 AGCCCAAATG
*
79051436 ATAATTCACGTATACTTCATGCTATTCTTTTTTTTTTAAAATTTTTATACCTTTTTTGGATTTTT
1 ATAATTCACGTATACTTCATGCTATTC--TTTTTTTTAAAATTTTTATACCTTTTTTGGACTTTT
* * *
79051501 AAAATTTTGATATTTTAAAAATCATTTTGATATTTTAAAATTTTTCTTAAAAATAATTCTAACAA
64 AAAATTTTAATATTTTAAAAATCATTTTCATATTTTAAAATTTTTCTTAAAAATAATTCTAAAAA
79051566 AATAAATCTTAAACTAAAAACTATTAGAAAATCTATAAAAATAATT-AAAAATACAAAATTTTTA
129 AATAAATCTTAAACTAAAAACTATTAGAAAATCTATAAAAATAATTAAAAAATAC--AATTTTTA
* *
79051630 AAAAATATA-AAAAAAATTAAATATTTATAAATCTAAAAAATTCTTAAA-TTTAAAAGTAT-AAT
192 AAAAATATATAAAAAAATTAAATATGTAGAAATCTAAAAAATTCTTAAATTTTAAAAGTATAAAT
79051692 ACTATTAGAAAATCTAT-AAAATAATGAAAAAATAATTTTTTTTAAAAAAAATATAAAAAATTAA
257 ACTATTAGAAAATCTATAAAAATAATGAAAAAATAATTTTTTTTAAAAAAAATATAAAAAATTAA
79051756 ATATGT
322 ATATGT
* *
79051762 ATAATTCACGTATTCTTCATGCTATTC-TTTTTTTAAAATTTTTATACTTTTTTTGGACTTTTAA
1 ATAATTCACGTATACTTCATGCTATTCTTTTTTTTAAAATTTTTATACCTTTTTTGGACTTTTAA
79051826 AATTTTAATATTTTAAAAATCATTTTCATATTTTAAAATTTTTCTTAAAAATAATTCTAAAAAAA
66 AATTTTAATATTTTAAAAATCATTTTCATATTTTAAAATTTTTCTTAAAAATAATTCTAAAAAAA
* * *
79051891 TAAATCTTAAACTAAAAACTATTAGAAAATGTATAAAAATAATTAAAAAATACATTTTTTTAAAA
131 TAAATCTTAAACTAAAAACTATTAGAAAATCTATAAAAATAATTAAAAAATACAATTTTTAAAAA
79051956 ATATATAAAAAAATTAAATATGTAGAAATCTAAAAAATTCTTAAATTTTAAAAGTATAAAATACT
196 ATATATAAAAAAATTAAATATGTAGAAATCTAAAAAATTCTTAAATTTTAAAAGTAT-AAATACT
*
79052021 ATTAGAAAATCTATAAAAATAATTAAAAAATAA
260 ATTAGAAAATCTATAAAAATAATGAAAAAATAA
79052054 AAAAATTAAA
Statistics
Matches: 274, Mismatches: 12, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
322 15 0.05
323 177 0.65
324 19 0.07
326 46 0.17
327 17 0.06
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (327 bp):
ATAATTCACGTATACTTCATGCTATTCTTTTTTTTAAAATTTTTATACCTTTTTTGGACTTTTAA
AATTTTAATATTTTAAAAATCATTTTCATATTTTAAAATTTTTCTTAAAAATAATTCTAAAAAAA
TAAATCTTAAACTAAAAACTATTAGAAAATCTATAAAAATAATTAAAAAATACAATTTTTAAAAA
ATATATAAAAAAATTAAATATGTAGAAATCTAAAAAATTCTTAAATTTTAAAAGTATAAATACTA
TTAGAAAATCTATAAAAATAATGAAAAAATAATTTTTTTTAAAAAAAATATAAAAAATTAAATAT
GT
Found at i:79052483 original size:20 final size:21
Alignment explanation
Indices: 79052458--79052499 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
79052448 TAATAATTAT
79052458 AAAAATAA-AAAAAAGGAGAA
1 AAAAATAATAAAAAAGGAGAA
* *
79052478 AAAAATAATAAAGAAGGGGAA
1 AAAAATAATAAAAAAGGAGAA
79052499 A
1 A
79052500 GAGAAATGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (21 bp):
AAAAATAATAAAAAAGGAGAA
Found at i:79061658 original size:19 final size:19
Alignment explanation
Indices: 79061623--79061660 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
79061613 AAAAATAAAA
*
79061623 TAAAATAATTTTTAAAATT
1 TAAAATAATTTTAAAAATT
79061642 TAAAAT-ATTTATAAAAATT
1 TAAAATAATTT-TAAAAATT
79061661 CCAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATAATTTTAAAAATT
Found at i:79061697 original size:17 final size:17
Alignment explanation
Indices: 79061677--79061712 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
79061667 TTTATATTTT
79061677 TAAAAAATTATAAAAAA
1 TAAAAAATTATAAAAAA
* *
79061694 TAAAAAATTCTAAAGAA
1 TAAAAAATTATAAAAAA
79061711 TA
1 TA
79061713 TATGAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (17 bp):
TAAAAAATTATAAAAAA
Found at i:79086313 original size:24 final size:24
Alignment explanation
Indices: 79086287--79086330 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
79086277 CACGTTATTT
79086287 TTTTTA-TCCTGT-TTCTTCTTGG
1 TTTTTATTCCTGTATTCTTCTTGG
*
79086309 TTTTTATTCTTGTATTCTTCTT
1 TTTTTATTCCTGTATTCTTCTT
79086331 TTTACTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 5 0.26
24 8 0.42
ACGTcount: A:0.07, C:0.16, G:0.09, T:0.68
Consensus pattern (24 bp):
TTTTTATTCCTGTATTCTTCTTGG
Found at i:79088083 original size:17 final size:17
Alignment explanation
Indices: 79088063--79088101 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
79088053 GTGACTGTCT
79088063 GATTGACTGAGGAGTCA
1 GATTGACTGAGGAGTCA
79088080 GATTGACTGAGGAGTCA
1 GATTGACTGAGGAGTCA
79088097 GATTG
1 GATTG
79088102 TACTATTTGA
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:0.28, C:0.10, G:0.36, T:0.26
Consensus pattern (17 bp):
GATTGACTGAGGAGTCA
Found at i:79090040 original size:21 final size:22
Alignment explanation
Indices: 79089993--79090040 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
79089983 GGTACGTTAT
*
79089993 TTTTTTGTTCTGTCTCTTCTTG
1 TTTTTTGTTCTGTCTCTTCTTA
* * *
79090015 GTTTTTGTTCT-TGTGTTCTTA
1 TTTTTTGTTCTGTCTCTTCTTA
79090036 TTTTT
1 TTTTT
79090041 GCTTTTTGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.02, C:0.12, G:0.15, T:0.71
Consensus pattern (22 bp):
TTTTTTGTTCTGTCTCTTCTTA
Found at i:79090332 original size:22 final size:22
Alignment explanation
Indices: 79090300--79090359 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
79090290 GCAACCATGA
*
79090300 AGCAGCCCCATACCTCCACTAT
1 AGCAGCCCCATACCTCCACTAC
* *
79090322 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
*
79090344 AGCAGTCCCATACCTC
1 AGCAGCCCCATACCTC
79090360 TACAGCCCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.48, G:0.12, T:0.15
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:79102367 original size:73 final size:73
Alignment explanation
Indices: 79102271--79102667 Score: 377
Period size: 73 Copynumber: 5.3 Consensus size: 73
79102261 TCAATTCCTG
* * *
79102271 TTCAATTTATGTTTTTCAGAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
79102336 GAGGTAAT
66 GAGGTATT
* * *
79102344 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCC
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
79102409 GAGTTATT
66 GAGGTATT
* ** * * * *
79102417 TTCAAATTCT-ACTTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCT-TGGCTCAC
1 TTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
* *
79102480 G-TGTTGAGTCACT
63 GCTG-AG-GT-ATT
**
79102493 TTCAATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTCAATTTCTG--TTT-T-TC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
79102558 GGGGCACGCTGAGGTATT
56 AGGACACGCTGAGGTATT
* ** * * *
79102576 TTCAATTACTGTTTGGCAAAAATAAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
79102641 GAGGTATT
66 GAGGTATT
*
79102649 TTCCATTTCTGTTTTTCAA
1 TTCAATTTCTGTTTTTCAA
79102668 TTTATGTTTT
Statistics
Matches: 261, Mismatches: 46, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
72 4 0.02
73 141 0.54
74 40 0.15
75 1 0.00
76 11 0.04
79 2 0.01
80 1 0.00
81 5 0.02
83 12 0.05
84 2 0.01
85 38 0.15
86 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (73 bp):
TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATT
Found at i:79102434 original size:159 final size:159
Alignment explanation
Indices: 79102131--79102421 Score: 451
Period size: 159 Copynumber: 1.8 Consensus size: 159
79102121 TGTTTCAAAA
* * *
79102131 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTG
* **
79102196 CTTTTCAAGAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTT
66 CTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTT
79102261 TCAATTCCTGTTCAATTTATGTTTTTCAG
131 TCAATTCCTGTTCAATTTATGTTTTTCAG
* *
79102290 AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTG
* ** * *
79102355 TTTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGTTATTT
66 CTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTT
79102418 TCAA
131 TCAA
79102422 ATTCTACTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
157 53 0.45
158 1 0.01
159 65 0.55
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (159 bp):
AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTG
CTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTT
TCAATTCCTGTTCAATTTATGTTTTTCAG
Found at i:79102528 original size:232 final size:230
Alignment explanation
Indices: 79102129--79102651 Score: 651
Period size: 232 Copynumber: 2.3 Consensus size: 230
79102119 TCTGTTTCAA
** *
79102129 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTCAAATTC
* * * * *
79102194 TGCTTTTCAAGAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TACTTTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAC
79102259 TTTCAATTCCTGTTCAATTTATGTTTTTCAGAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
131 TTTCAATTCCTGTT--ATTTATGTTTTTCAGAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
* **
79102324 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTC
194 TCAGGACACGCTGAGGTAATTTCAATTACTGTTTGGC
** * * *
79102361 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGTTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTCAAATTC
** *
79102426 TAC-TTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCT-TGGCTCACGTGTTGA-G
66 TACTTTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTCAAG-ACAC--GTTGAGG
* * *
79102488 TCACTTTCAATTTCTGTT-TTTATGTCTGTTTTC-TAAATCAACTCATATTGCGAGAGGTGAGTT
128 T-ACTTTCAATTCCTGTTATTTATG--T-TTTTCAGAAATCAACTCATATTACGAGAGGTGAGTT
* * *
79102551 GAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGGC
189 GAGCCTCAGGACACGCTGAGGTAATTTCAATTACTGTTTGGC
* * * ** *
79102593 AAAAATAAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTC
79102652 CATTTCTGTT
Statistics
Matches: 252, Mismatches: 32, Indels: 14
0.85 0.11 0.05
Matches are distributed among these distances:
230 7 0.03
231 43 0.17
232 178 0.71
233 24 0.10
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (230 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTCAAATTC
TACTTTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAC
TTTCAATTCCTGTTATTTATGTTTTTCAGAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
AGGACACGCTGAGGTAATTTCAATTACTGTTTGGC
Found at i:79102685 original size:159 final size:162
Alignment explanation
Indices: 79102343--79103022 Score: 607
Period size: 159 Copynumber: 4.1 Consensus size: 162
79102333 GCTGAGGTAA
*
79102343 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GGCACG
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTGGCACG
* * * ** * *
79102407 CCGAGTTATTTTCAAATTCTACTTTCAAAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCT
66 CTGAGGTATTTTCAAGTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * *
79102472 -TGGCTCACGTGTTGA-GTCACTTTCAATTTCTG-TT
129 CAGG--CACATGCTGAGGT-ATTTTCAATTTCTGTTT
* *
79102506 TTT--ATGTCTG-TTTTC-TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GGCACG
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTGGCACG
* * *
79102566 CTGAGGTATTTTCAA-TTACTGTTTGGCAAAAATAAACTCATACTGCGAGAGGTGAGTTGAGCCT
66 CTGAGGTATTTTCAAGTT-CTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
79102630 CAGG-ACATGCTGAGGTATTTTCCATTTCTG-TT
129 CAGGCACATGCTGAGGTATTTTCAATTTCTGTTT
* * * * * * *
79102662 TTTCAATTTATG-TTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCTTCAGGTCGCAT
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTGGCA-
* * * * * *
79102726 AGC-GAGGTATTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCT
64 CGCTGAGGTATTTTCAAGTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * ***
79102790 CAGGTCATACGCCGAGGTATTTTCAATAGATGTTT
129 CAGG-CACATGCTGAGGTATTTTCAATTTCTGTTT
* * *
79102825 TTTCCAATTTCTGCTTCTCAAAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 TTT-CAATTTCTGCTTTTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-
**
79102890 TTACACGCTGAGGTATTTTCAAGTTCTGCTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGT
59 TGGCACGCTGAGGTATTTTCAAGTTCTG-TTTTC-----AAAAATCAACTCATATTGCGAGAGGT
* * *
79102955 GAGTTGAGCCTC-GGCTCGCACGCTGAGGTATTTTCAATTTTTCGTTT
118 GAGTTGAGCCTCAGG--CACATGCTGAGGTATTTTCAATTTCT-GTTT
*
79103002 TTTCAATTTATGCTTTTCAAA
1 TTTCAATTTCTGCTTTTCAAA
79103023 TTCTACTTTC
Statistics
Matches: 421, Mismatches: 65, Indels: 54
0.78 0.12 0.10
Matches are distributed among these distances:
156 24 0.06
157 2 0.00
158 45 0.11
159 94 0.22
160 45 0.11
161 27 0.06
162 23 0.05
163 8 0.02
164 8 0.02
165 4 0.01
169 4 0.01
170 51 0.12
171 8 0.02
175 2 0.00
176 69 0.16
177 7 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (162 bp):
TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTGGCACG
CTGAGGTATTTTCAAGTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GGCACATGCTGAGGTATTTTCAATTTCTGTTT
Found at i:79102782 original size:74 final size:74
Alignment explanation
Indices: 79102661--79102825 Score: 262
Period size: 74 Copynumber: 2.2 Consensus size: 74
79102651 CCATTTCTGT
*
79102661 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCTTCAGGTCGCAT
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGT--CAT
79102726 A-G-CGAGGTA
64 ACGCCGAGGTA
*
79102735 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGTCATAC
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGTCATAC
79102800 GCCGAGGTA
66 GCCGAGGTA
**
79102809 TTTTCAATAGATGTTTT
1 TTTTCAATTTATGTTTT
79102826 TTCCAATTTC
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
72 4 0.05
73 1 0.01
74 80 0.94
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (74 bp):
TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGTCATAC
GCCGAGGTA
Found at i:79102958 original size:80 final size:80
Alignment explanation
Indices: 79102824--79102991 Score: 273
Period size: 80 Copynumber: 2.1 Consensus size: 80
79102814 AATAGATGTT
* * *
79102824 TTTTCCAATTTCTGCTTCTCAAAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
1 TTTT-CAAGTTCTGCTTCTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
*
79102889 CTTACACGCTGAGGTA
65 CTCACACGCTGAGGTA
*
79102905 TTTTCAAGTTCTGCTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC
1 TTTTCAAGTTCTGCTTCTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC
*
79102970 TCGCACGCTGAGGTA
66 TCACACGCTGAGGTA
79102985 TTTTCAA
1 TTTTCAA
79102992 TTTTTCGTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 77 0.95
81 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (80 bp):
TTTTCAAGTTCTGCTTCTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC
TCACACGCTGAGGTA
Found at i:79102985 original size:176 final size:181
Alignment explanation
Indices: 79102753--79103160 Score: 436
Period size: 176 Copynumber: 2.2 Consensus size: 181
79102743 TTATGTTTTC
* * * *
79102753 AAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGTCATACGCCGAGGTATTTTCAATA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATA
*
79102818 GAT-GTTTTTTCCAATTTCTGCTTCTCAAA-A-AAAAAATTAACTCATATTGCGAGAGGTGAGTT
66 GATCGTTTTTT-CAATTTATGCTTCTCAAATACAAAAAATTAACTCATATTGCGAGAGGTGAGTT
* * **
79102880 GAGCCTTGGCTTACACG-CTGAGGTATTTTCAAGTTCTGCTTTTC-A-AA-AA
130 GAGCCTCGGCTCACACGTC-GAGGTATTTTCAAAATCTGCTTTTCAATAATAA
* *
79102929 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCGCACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACACGCCGAGGTATTTTCAAT
*** *
79102993 TTTTCGTTTTTTCAATTTATGCTTTTCAAATTCTACTTTCCAAAAAATTAACTCATATTGCGAGA
65 AGATCGTTTTTTCAATTTATGCTTCTCAAA---TA-----CAAAAAATTAACTCATATTGCGAGA
* * *
79103058 GGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTAAGTTTCA
122 GGTGAGTTGAGCCTCGGCTCACACGTCGAGGTATTTTCAAAATCTGCTTTTC-AA-TAA---T-A
79103123 A
181 A
*
79103124 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
79103161 TAGCTCACGT
Statistics
Matches: 191, Mismatches: 19, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
175 2 0.01
176 72 0.38
177 7 0.04
180 1 0.01
186 67 0.35
187 1 0.01
188 1 0.01
190 2 0.01
195 38 0.20
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (181 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATA
GATCGTTTTTTCAATTTATGCTTCTCAAATACAAAAAATTAACTCATATTGCGAGAGGTGAGTTG
AGCCTCGGCTCACACGTCGAGGTATTTTCAAAATCTGCTTTTCAATAATAA
Found at i:79103182 original size:89 final size:90
Alignment explanation
Indices: 79103015--79103182 Score: 223
Period size: 89 Copynumber: 1.9 Consensus size: 90
79103005 CAATTTATGC
* * ** * *
79103015 TTTTCAAATTCTACTTTCCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
*
79103080 ATGTCGAGGTATTTTCAAAATCTGT
66 ATGTCGAGCTATTTTCAAAATCTGT
* *
79103105 TTTTCAAATT-AAGTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCAC
1 TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
*
79103169 GTG-CTGAGCTATTT
66 ATGTC-GAGCTATTT
79103183 CTGTTTTAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
88 1 0.01
89 56 0.84
90 10 0.15
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (90 bp):
TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
ATGTCGAGCTATTTTCAAAATCTGT
Found at i:79103398 original size:52 final size:51
Alignment explanation
Indices: 79103329--79103537 Score: 161
Period size: 52 Copynumber: 3.9 Consensus size: 51
79103319 AAGCTAATTG
*
79103329 AAGTTT-AATAGAGAAGATCGAGACTACAAATCTCTTCTCCTTAAACCCTCA
1 AAGTTTCAGTAGAGAAGATCGAGACTACAAATCTCTTCTCCTTAAA-CCTCA
* * * * *
79103380 AAGTTTCAGTAGAGAAGATCGAAACTACAAATCTCTTCTCCCTGAATCTCCG
1 AAGTTTCAGTAGAGAAGATCGAGACTACAAATCTCTTCTCCTTAAACCT-CA
* * * * * *
79103432 AAGTTTCAGT-GTAGTAGGTCGAGGCTACAAATCCCTTCTACCTGAATTCTTATTTCCTAA
1 AAGTTTCAGTAG-AGAAGATCGAGACTACAAATCTCTTCT-CCTTAA-----A---CCTCA
* * *
79103492 AAGTTTTAGTTGAGAAGATCGAGGCTACAAATCTCTTCTCCTTAAA
1 AAGTTTCAGTAGAGAAGATCGAGACTACAAATCTCTTCTCCTTAAA
79103538 TCTCCGAAGT
Statistics
Matches: 123, Mismatches: 22, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
51 9 0.07
52 68 0.55
53 3 0.02
54 1 0.01
58 1 0.01
59 5 0.04
60 33 0.27
61 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (51 bp):
AAGTTTCAGTAGAGAAGATCGAGACTACAAATCTCTTCTCCTTAAACCTCA
Found at i:79103996 original size:22 final size:22
Alignment explanation
Indices: 79103967--79104029 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
79103957 GCAACCATGA
79103967 AGCAGCCCCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
79103989 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
*
79104011 AGCAGTCCCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
79104030 AGCCCTCGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.51, G:0.11, T:0.13
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:79107281 original size:4 final size:4
Alignment explanation
Indices: 79107272--79107299 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
79107262 CATTTGACTG
79107272 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
79107300 TGCATAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:79109232 original size:17 final size:19
Alignment explanation
Indices: 79109210--79109244 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
79109200 GATATGATAC
79109210 TAAAAT-TAT-TAAAAAAT
1 TAAAATATATATAAAAAAT
79109227 TAAAATATATATAAAAAA
1 TAAAATATATATAAAAAA
79109245 ATCTGGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATATATATAAAAAAT
Found at i:79109536 original size:22 final size:22
Alignment explanation
Indices: 79109501--79109558 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
79109491 AAAATGTATC
* *
79109501 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
79109522 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
79109545 TGCATATCATATCT
1 TACAAATCATATCT
79109559 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:79109593 original size:35 final size:37
Alignment explanation
Indices: 79109530--79109608 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
79109520 ATTACAAAAT
79109530 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
79109566 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
79109601 CATATCAT
1 CATATCAT
79109609 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:79109606 original size:14 final size:15
Alignment explanation
Indices: 79109551--79109606 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
79109541 AGATTGCATA
79109551 TCATATCTAAGATTG
1 TCATATCTAAGATTG
79109566 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
79109584 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
79109601 -CATATC
1 TCATATC
79109607 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:79109616 original size:17 final size:19
Alignment explanation
Indices: 79109537--79109608 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
79109527 AATCATATCT
79109537 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
79109556 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
79109574 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
79109591 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
79109609 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:79109765 original size:21 final size:21
Alignment explanation
Indices: 79109726--79109766 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
79109716 CTTGGACTTC
* **
79109726 TTTTTTTTTTTGGGTTTATTA
1 TTTTTGTTTTTGGACTTATTA
79109747 TTTTTGTTTTTGGACTTATT
1 TTTTTGTTTTTGGACTTATT
79109767 TCTGGGCCCG
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:0.10, C:0.02, G:0.15, T:0.73
Consensus pattern (21 bp):
TTTTTGTTTTTGGACTTATTA
Found at i:79110014 original size:45 final size:45
Alignment explanation
Indices: 79109959--79110156 Score: 285
Period size: 45 Copynumber: 4.5 Consensus size: 45
79109949 GGAAGGCGAT
* * **
79109959 ATCTGCTATCTTTGATCTGCTCCTTGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
79110004 ATCTGTTATCTTCGATCTGCTCCCCGTCT--TACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
79110047 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
79110091 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
79110136 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
79110157 TCGATGTAAA
Statistics
Matches: 139, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
42 20 0.14
43 20 0.14
44 19 0.14
45 80 0.58
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:79110079 original size:87 final size:89
Alignment explanation
Indices: 79109959--79110140 Score: 287
Period size: 87 Copynumber: 2.1 Consensus size: 89
79109949 GGAAGGCGAT
** **
79109959 ATCTGCTATCTTTGATCTGCTCCTTGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
79110024 TCCCCGTCT-TACAGAGACGCCAA
66 TCCCCGTCTATACAGAGACGCCAA
*
79110047 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
*
79110111 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCT-ATACAGAGACGCCAA
79110136 ATCTG
1 ATCTG
79110141 TCATCTTGGA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
87 61 0.71
88 7 0.08
89 18 0.21
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (89 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
TCCCCGTCTATACAGAGACGCCAA
Found at i:79110307 original size:78 final size:78
Alignment explanation
Indices: 79110170--79110464 Score: 423
Period size: 78 Copynumber: 3.8 Consensus size: 78
79110160 ATGTAAACAC
* *
79110170 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGTCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
79110235 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
79110248 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCTCGTCTAATACAAAGTTGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
79110312 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
79110326 ATTG-AGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGCCTAATACAGGGATGCCAAATCATC
1 A-TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
79110390 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * * **
79110404 ATGAAGGTCAGATTTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
79110465 TGTTTCTTCG
Statistics
Matches: 191, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
77 4 0.02
78 183 0.96
79 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:79115467 original size:13 final size:15
Alignment explanation
Indices: 79115430--79115462 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
79115420 TAGAGATTAT
79115430 CATCTCTCTTTTTAC
1 CATCTCTCTTTTTAC
79115445 CATCTCTCTTTTTAC
1 CATCTCTCTTTTTAC
79115460 CAT
1 CAT
79115463 TTCTTCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (15 bp):
CATCTCTCTTTTTAC
Found at i:79120551 original size:17 final size:17
Alignment explanation
Indices: 79120529--79120564 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
79120519 TTGATATGAT
79120529 ATTAAAAT-TATTAAAAA
1 ATTAAAATATA-TAAAAA
79120546 ATTAAAATATATAAAAA
1 ATTAAAATATATAAAAA
79120563 AT
1 AT
79120565 CCGAGGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTAAAATATATAAAAA
Found at i:79120912 original size:35 final size:37
Alignment explanation
Indices: 79120847--79120925 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
79120837 ATTACAAAAT
*
79120847 CATATC-T-TCTAAGATTGCATATCATGTCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
79120883 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
79120918 CATATCAT
1 CATATCAT
79120926 TGAAGATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:79120923 original size:14 final size:15
Alignment explanation
Indices: 79120886--79120923 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
79120876 AAGATTGCAA
79120886 TCATATCTAAGATTG
1 TCATATCTAAGATTG
79120901 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
79120918 -CATATC
1 TCATATC
79120924 ATTGAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:79120933 original size:17 final size:19
Alignment explanation
Indices: 79120854--79120925 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
79120844 AATCATATCT
*
79120854 TCTAAGATTGCATATCATG
1 TCTAAGATTGCATATCATA
79120873 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
79120891 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
79120908 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
79120926 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 15 0.31
19 18 0.37
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:79121587 original size:23 final size:22
Alignment explanation
Indices: 79121561--79121603 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
79121551 GCTAAGCTAG
79121561 TATAAAAAAGAAATGTGGTAAAT
1 TATAAAAAAGAAATG-GGTAAAT
**
79121584 TATAATTAAGAAATGGGTAA
1 TATAAAAAAGAAATGGGTAA
79121604 TAGATGGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (22 bp):
TATAAAAAAGAAATGGGTAAAT
Found at i:79125018 original size:41 final size:41
Alignment explanation
Indices: 79124972--79125053 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
79124962 GAGTATGACT
79124972 GTTCAAGTTTGGGTAAGGAAAATAGAAATTTTATGAGGATA
1 GTTCAAGTTTGGGTAAGGAAAATAGAAATTTTATGAGGATA
79125013 GTTCAAGTTTGGGTAAGGAAAATAGAAATTTTATGAGGATA
1 GTTCAAGTTTGGGTAAGGAAAATAGAAATTTTATGAGGATA
79125054 CACGTTCGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (41 bp):
GTTCAAGTTTGGGTAAGGAAAATAGAAATTTTATGAGGATA
Found at i:79127898 original size:15 final size:15
Alignment explanation
Indices: 79127878--79127908 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
79127868 TTGGGGTATG
79127878 AAGATCAACAGATCC
1 AAGATCAACAGATCC
79127893 AAGATCAACAGATCC
1 AAGATCAACAGATCC
79127908 A
1 A
79127909 GAATGGTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (15 bp):
AAGATCAACAGATCC
Found at i:79138797 original size:34 final size:34
Alignment explanation
Indices: 79138754--79138819 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
79138744 AATTAAGAAA
79138754 GAAAAATAAAACATACAGATTTTAAGTGGAAATT
1 GAAAAATAAAACATACAGATTTTAAGTGGAAATT
*
79138788 GAAAAATAAAACATACAGATTTTACGTGGAAA
1 GAAAAATAAAACATACAGATTTTAAGTGGAAA
79138820 CCTTTTCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.24
Consensus pattern (34 bp):
GAAAAATAAAACATACAGATTTTAAGTGGAAATT
Found at i:79140884 original size:21 final size:21
Alignment explanation
Indices: 79140858--79140927 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
79140848 AACGATGTCT
79140858 CGACATTCAAATCCAATGTTG
1 CGACATTCAAATCCAATGTTG
* *
79140879 CAACATTC-AAGCC-ATGTTG
1 CGACATTCAAATCCAATGTTG
* * *
79140898 TGACATTCAATTCCAATGTCG
1 CGACATTCAAATCCAATGTTG
79140919 CGACATTCA
1 CGACATTCA
79140928 TGGAAGTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.31
20 7 0.18
21 20 0.51
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (21 bp):
CGACATTCAAATCCAATGTTG
Found at i:79142623 original size:20 final size:19
Alignment explanation
Indices: 79142593--79142631 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
79142583 ATACATAATT
79142593 AATGAATAATAAATAATAA
1 AATGAATAATAAATAATAA
*
79142612 AATGATATAATATATAATAA
1 AATGA-ATAATAAATAATAA
79142632 TCTTTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AATGAATAATAAATAATAA
Found at i:79142644 original size:18 final size:19
Alignment explanation
Indices: 79142621--79142656 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
79142611 AAATGATATA
79142621 ATATAT-AATAATCTTTAC
1 ATATATAAATAATCTTTAC
*
79142639 ATATATAAATAATGTTTA
1 ATATATAAATAATCTTTA
79142657 TAGTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATATAAATAATCTTTAC
Found at i:79145332 original size:43 final size:43
Alignment explanation
Indices: 79145284--79145391 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
79145274 GACTAACGAG
* *
79145284 ATGTGATTATGTGTAACACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTATGTGTAAAACCATGTCTAGGACATTGGCATCATT
** *
79145327 ATGTGATTACATGTAAAACCATGTCTAGGACATTGGCATCGTT
1 ATGTGATTATGTGTAAAACCATGTCTAGGACATTGGCATCATT
* *
79145370 ATTTGATT-TCGTGTAAGACCAT
1 ATGTGATTAT-GTGTAAAACCAT
79145392 AGTTGGGCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (43 bp):
ATGTGATTATGTGTAAAACCATGTCTAGGACATTGGCATCATT
Found at i:79147347 original size:26 final size:26
Alignment explanation
Indices: 79147301--79147353 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
79147291 TTGGAAATTA
*
79147301 AAAATAAATTAATTTAGATAAT-ATT
1 AAAATAAATTAACTTAGATAATCATT
* *
79147326 AAAATAAATTTACTTATTATAATCATT
1 AAAATAAATTAACTTA-GATAATCATT
79147353 A
1 A
79147354 TCATCATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 14 0.61
26 5 0.22
27 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
AAAATAAATTAACTTAGATAATCATT
Found at i:79153652 original size:21 final size:21
Alignment explanation
Indices: 79153628--79153693 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
79153618 CACAAAAACG
79153628 ATGTCTCAACATTCAAATCCA
1 ATGTCTCAACATTCAAATCCA
*
79153649 ATGT-TGCAACATTC-AA-GCA
1 ATGTCT-CAACATTCAAATCCA
* *
79153668 ATGTCGT-GACATTCAATTCCA
1 ATGTC-TCAACATTCAAATCCA
79153689 ATGTC
1 ATGTC
79153694 GTGACATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
19 12 0.33
20 4 0.11
21 20 0.56
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (21 bp):
ATGTCTCAACATTCAAATCCA
Found at i:79153694 original size:21 final size:20
Alignment explanation
Indices: 79153636--79153703 Score: 75
Period size: 21 Copynumber: 3.4 Consensus size: 20
79153626 CGATGTCTCA
* **
79153636 ACATTCAAATCCAATGTTGCA
1 ACATTC-AATCCAATGTCGTG
*
79153657 ACATTCAA-GCAATGTCGTG
1 ACATTCAATCCAATGTCGTG
79153676 ACATTCAATTCCAATGTCGTG
1 ACATTCAA-TCCAATGTCGTG
79153697 ACATTCA
1 ACATTCA
79153704 TGGAAGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 15 0.38
20 2 0.05
21 23 0.57
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (20 bp):
ACATTCAATCCAATGTCGTG
Found at i:79156086 original size:93 final size:93
Alignment explanation
Indices: 79155978--79156149 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
79155968 CGCCCATAAG
* *
79155978 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
79156043 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
79156071 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
79156136 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
79156150 TCAATCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:79156146 original size:46 final size:46
Alignment explanation
Indices: 79155971--79156146 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
79155961 TGTAACCCGC
* * *
79155971 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
79156017 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
79156067 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
79156110 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
79156147 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:79161590 original size:18 final size:19
Alignment explanation
Indices: 79161569--79161610 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
79161559 GATACAGTTT
79161569 CAGATTCAGAAT-CAAAAC
1 CAGATTCAGAATACAAAAC
* *
79161587 CAGATTCAGATTACAAAAG
1 CAGATTCAGAATACAAAAC
79161606 CAGAT
1 CAGAT
79161611 ATGCATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (19 bp):
CAGATTCAGAATACAAAAC
Found at i:79170262 original size:20 final size:20
Alignment explanation
Indices: 79170237--79170281 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
79170227 AAAAAAATTT
79170237 AAAATAAATTTCAAATTTTC
1 AAAATAAATTTCAAATTTTC
* *
79170257 AAAAT-AATTTTAAATTTTT
1 AAAATAAATTTCAAATTTTC
79170276 AAAATA
1 AAAATA
79170282 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATAAATTTCAAATTTTC
Found at i:79194233 original size:131 final size:131
Alignment explanation
Indices: 79193992--79194241 Score: 374
Period size: 131 Copynumber: 1.9 Consensus size: 131
79193982 TATTAATTCA
* * * *
79193992 AAAATCCTTCAAAACGAAGGCGAGATTCGATGGTTGGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATCCTTCAAAACGAAGACGAGATTCGATAGTTAGCAATTCGCGGAATCGTACCCTAACGTGT
* * * *
79194057 TGGGTTGGAATTTCGCGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
66 TGGGTTGCAATTTCGCATTTACTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
79194122 T
131 T
* * *
79194123 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGTAATTCGCGGAATCGTACCCTAACGTGT
1 AAAATCCTTCAAAACGAAGACGAGATTCGATAGTTAGCAATTCGCGGAATCGTACCCTAACGTGT
* * *
79194188 TGGGTTGCAATTTCGCATTTACTCAAAATAATCGAGTATCCCTTCAAATTTTCA
66 TGGGTTGCAATTTCGCATTTACTCAAAATAATCGAATATCACTTCAAAATTTCA
79194242 TTTATTTAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
131 105 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (131 bp):
AAAATCCTTCAAAACGAAGACGAGATTCGATAGTTAGCAATTCGCGGAATCGTACCCTAACGTGT
TGGGTTGCAATTTCGCATTTACTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
T
Found at i:79199687 original size:32 final size:32
Alignment explanation
Indices: 79199639--79199713 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
79199629 ACATTATACC
* *
79199639 ATAATTGGATACAAATAAATAATCAATTAAAT
1 ATAATTGAATAAAAATAAATAATCAATTAAAT
79199671 ATAATTGAATAAAAATAAATAATCAATTAAAT
1 ATAATTGAATAAAAATAAATAATCAATTAAAT
79199703 ACTTAATTGAA
1 A--TAATTGAA
79199714 AATAGTAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 31 0.79
34 8 0.21
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (32 bp):
ATAATTGAATAAAAATAAATAATCAATTAAAT
Found at i:79206850 original size:15 final size:17
Alignment explanation
Indices: 79206822--79206856 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
79206812 AAATTTAAGA
79206822 AAAATCCTGAATAA-AT
1 AAAATCCTGAATAACAT
79206838 AAAATCC-GAATAACAT
1 AAAATCCTGAATAACAT
79206854 AAA
1 AAA
79206857 TAAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.60, C:0.14, G:0.06, T:0.20
Consensus pattern (17 bp):
AAAATCCTGAATAACAT
Found at i:79207297 original size:26 final size:26
Alignment explanation
Indices: 79207249--79207298 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
79207239 ATAATTCAAA
*
79207249 ATATTTTTATAAAAATTTCAAAATTT
1 ATATTTTTATAAAAATTTAAAAATTT
*
79207275 ATATTTTT-TTAAAATTATAAAAAT
1 ATATTTTTATAAAAATT-TAAAAAT
79207299 AAAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATTTTTATAAAAATTTAAAAATTT
Found at i:79207592 original size:24 final size:24
Alignment explanation
Indices: 79207565--79207613 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
79207555 TTTTGTTATG
79207565 AAATTTTCTTAGTTATCAATTTTT
1 AAATTTTCTTAGTTATCAATTTTT
*
79207589 AAATTTTCTTAGTTATTAATTTTT
1 AAATTTTCTTAGTTATCAATTTTT
79207613 A
1 A
79207614 TAGTAATCTT
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:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (24 bp):
AAATTTTCTTAGTTATCAATTTTT
Found at i:79209858 original size:29 final size:29
Alignment explanation
Indices: 79209825--79209886 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
79209815 ATGAAAGAAT
79209825 TTTGCATCCATATTCTAACAAAATTGACG
1 TTTGCATCCATATTCTAACAAAATTGACG
79209854 TTTGCATCCATATTCTAACAAAATTGACG
1 TTTGCATCCATATTCTAACAAAATTGACG
79209883 TTTG
1 TTTG
79209887 TATACATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (29 bp):
TTTGCATCCATATTCTAACAAAATTGACG
Found at i:79211225 original size:18 final size:18
Alignment explanation
Indices: 79211202--79211237 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
79211192 CTTTATCGAG
79211202 TTTGCTCTCAACTCCAAT
1 TTTGCTCTCAACTCCAAT
79211220 TTTGCTCTCAACTCCAAT
1 TTTGCTCTCAACTCCAAT
79211238 CTTTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (18 bp):
TTTGCTCTCAACTCCAAT
Found at i:79222537 original size:73 final size:73
Alignment explanation
Indices: 79222418--79222565 Score: 269
Period size: 73 Copynumber: 2.0 Consensus size: 73
79222408 GTTGGATGTG
* *
79222418 TTGCTTTGTCCAAGTAGACCGTCGTTGGAGACGTGAACCTCTCTCGTCTACTATCGGGCACGACG
1 TTGCTTTGTCCAAGCAGACCGTCGTTGGAGACGTAAACCTCTCTCGTCTACTATCGGGCACGACG
79222483 GCAAGATT
66 GCAAGATT
*
79222491 TTGCTTTGTCTAAGCAGACCGTCGTTGGAGACGTAAACCTCTCTCGTCTACTATCGGGCACGACG
1 TTGCTTTGTCCAAGCAGACCGTCGTTGGAGACGTAAACCTCTCTCGTCTACTATCGGGCACGACG
79222556 GCAAGATT
66 GCAAGATT
79222564 TT
1 TT
79222566 TTTTACTCTA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (73 bp):
TTGCTTTGTCCAAGCAGACCGTCGTTGGAGACGTAAACCTCTCTCGTCTACTATCGGGCACGACG
GCAAGATT
Found at i:79223208 original size:13 final size:12
Alignment explanation
Indices: 79223185--79223227 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
79223175 TCACATGATA
79223185 TAAAGTAAATAAT
1 TAAA-TAAATAAT
79223198 TAAATACAATATAT
1 TAAATA-AATA-AT
*
79223212 AAAATAAATAAT
1 TAAATAAATAAT
79223224 TAAA
1 TAAA
79223228 CGTAATGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.27
13 12 0.46
14 7 0.27
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (12 bp):
TAAATAAATAAT
Found at i:79224059 original size:36 final size:36
Alignment explanation
Indices: 79224002--79224086 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
79223992 ATATAAAATC
79224002 TTAATAAATAA-AAAATTATAATTATTAAAAAT-TAAA
1 TTAA-AAATAATAAAATTATAATT-TTAAAAATATAAA
* *
79224038 TTAAAAATAATATAAA-TATAATTTTTAAAATATATA
1 TTAAAAATAATA-AAATTATAATTTTAAAAATATAAA
*
79224074 TTAAAATTAATAA
1 TTAAAAATAATAA
79224087 GTCTAAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 14 0.33
36 26 0.60
37 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (36 bp):
TTAAAAATAATAAAATTATAATTTTAAAAATATAAA
Found at i:79231580 original size:20 final size:20
Alignment explanation
Indices: 79231555--79231594 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
79231545 ACACAAATCC
*
79231555 TTACC-ACTTTCTATTCTCTA
1 TTACCAACTTCCT-TTCTCTA
79231575 TTACCAACTTCCTTTCTCTA
1 TTACCAACTTCCTTTCTCTA
79231595 AAAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (20 bp):
TTACCAACTTCCTTTCTCTA
Found at i:79237102 original size:35 final size:35
Alignment explanation
Indices: 79237063--79237129 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
79237053 ACTTGCCTCT
79237063 TCCCACTCTCCCATGCTGTCTGCCACCAGCACTAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACTAC
79237098 TCCCACTCTCCCATGCTGTCTGCCACCAGCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCAC
79237130 CATCACACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.22
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACTAC
Found at i:79237521 original size:9 final size:8
Alignment explanation
Indices: 79237507--79237557 Score: 57
Period size: 9 Copynumber: 6.0 Consensus size: 8
79237497 TAATATATAT
79237507 AAAAAATA
1 AAAAAATA
79237515 CAAAAAAGTA
1 -AAAAAA-TA
* *
79237525 TAAACATA
1 AAAAAATA
79237533 AAAAAATAA
1 AAAAAAT-A
79237542 AAAAAATA
1 AAAAAATA
79237550 AAAAAATA
1 AAAAAATA
79237558 TTTTTCACGC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 16 0.44
9 18 0.50
10 2 0.06
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (8 bp):
AAAAAATA
Found at i:79237662 original size:11 final size:11
Alignment explanation
Indices: 79237643--79237677 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
79237633 CCCCTTCCCC
79237643 CTCCCTTCTCT
1 CTCCCTTCTCT
79237654 CTCCCTTCTCT
1 CTCCCTTCTCT
79237665 CTTCCC-TCTCT
1 C-TCCCTTCTCT
79237676 CT
1 CT
79237678 TCTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:79238161 original size:3 final size:3
Alignment explanation
Indices: 79238153--79238179 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
79238143 TTTGTATTTC
79238153 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
79238180 GTACATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:79242857 original size:14 final size:13
Alignment explanation
Indices: 79242832--79242893 Score: 61
Period size: 14 Copynumber: 4.6 Consensus size: 13
79242822 TCATGAAAAG
*
79242832 AAAAAGAAAACAA
1 AAAAAAAAAACAA
79242845 AACAAAAAAAACAA
1 AA-AAAAAAAACAA
* *
79242859 AAAGAAAAAAAGAC
1 AAA-AAAAAAACAA
* *
79242873 AAGAAAAAAATAA
1 AAAAAAAAAACAA
79242886 AAAAAAAA
1 AAAAAAAA
79242894 TCAAATGCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 18 0.45
14 22 0.55
ACGTcount: A:0.85, C:0.06, G:0.06, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:79242860 original size:25 final size:26
Alignment explanation
Indices: 79242827--79242893 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
79242817 AACAGTCATG
*
79242827 AAAAGAAAAAGAAAACAAA-ACAA-AA
1 AAAACAAAAAGAAAA-AAAGACAAGAA
79242852 AAAACAAAAAGAAAAAAAGACAAGAA
1 AAAACAAAAAGAAAAAAAGACAAGAA
*
79242878 AAAA-ATAAA-AAAAAAA
1 AAAACAAAAAGAAAAAAA
79242894 TCAAATGCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
24 10 0.26
25 22 0.58
26 6 0.16
ACGTcount: A:0.85, C:0.06, G:0.07, T:0.01
Consensus pattern (26 bp):
AAAACAAAAAGAAAAAAAGACAAGAA
Found at i:79245233 original size:54 final size:54
Alignment explanation
Indices: 79245149--79245312 Score: 237
Period size: 54 Copynumber: 3.0 Consensus size: 54
79245139 TCAATTTCTA
*
79245149 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTT-AATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
79245204 CTTTTAATTTCTATTTGTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
79245258 C--TT--TTTCTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTAATTTCTATTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
79245311 CT
1 CT
79245313 CGGGGCACGC
Statistics
Matches: 100, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
50 11 0.11
52 2 0.02
53 35 0.35
54 47 0.47
55 5 0.05
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (54 bp):
CTTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:79245509 original size:127 final size:127
Alignment explanation
Indices: 79245278--79245509 Score: 351
Period size: 127 Copynumber: 1.8 Consensus size: 127
79245268 TTTTCAAAAA
* * *
79245278 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAAATTCTA
* *
79245343 CTTTCAAAAAAATCAACTCATATTGCGAAAGGTGGGTTGAACCTTTAATTTCTACGTTTTCT
66 CTTTCAAAAAAATCAACTCATATTGCGAAAGATGAGTTGAACCTTTAATTTCTACGTTTTCT
* *
79245405 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAAATTCTA
* *
79245469 GTTGTTAAAAAAATCAACTCATATTGCGAGAA-ATGAGTTGA
66 CTT-TCAAAAAAATCAACTCATATTGCGA-AAGATGAGTTGA
79245510 GCCTCAGGAC
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
126 2 0.02
127 90 0.96
128 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (127 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAAATTCTA
CTTTCAAAAAAATCAACTCATATTGCGAAAGATGAGTTGAACCTTTAATTTCTACGTTTTCT
Found at i:79245526 original size:74 final size:74
Alignment explanation
Indices: 79245405--79245590 Score: 329
Period size: 74 Copynumber: 2.5 Consensus size: 74
79245395 TACGTTTTCT
79245405 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
79245470 TTGTT-AAAA
66 TT-TTAAAAA
**
79245479 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
79245544 TTTTAAAAA
66 TTTTAAAAA
*
79245553 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
79245591 ATTACACACT
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
73 2 0.02
74 104 0.98
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (74 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
TTTTAAAAA
Done.