Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 282 of 362
Found at i:95141732 original size:14 final size:14
Alignment explanation
Indices: 95141713--95141751 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
95141703 ATTTAAAATA
95141713 TTTAAAATTAATTT
1 TTTAAAATTAATTT
*
95141727 TTTAAAAATATATTTT
1 TTT-AAAAT-TAATTT
95141743 TTTAAAATT
1 TTTAAAATT
95141752 TCAGATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 4 0.18
15 10 0.45
16 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAAAATTAATTT
Found at i:95141750 original size:15 final size:15
Alignment explanation
Indices: 95141713--95141751 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
95141703 ATTTAAAATA
95141713 TTTAAAATTAA-TTT
1 TTTAAAATTAATTTT
*
95141727 TTTAAAAATATATTTT
1 TTTAAAATTA-ATTTT
95141743 TTTAAAATT
1 TTTAAAATT
95141752 TCAGATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAAAATTAATTTT
Found at i:95150513 original size:18 final size:20
Alignment explanation
Indices: 95150472--95150516 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
95150462 TATTTCAAGC
* *
95150472 TCAATATCAGTCAATATTTT
1 TCAATATCAATCAATATTTA
95150492 TCAATATCAATC-A-ATTTA
1 TCAATATCAATCAATATTTA
95150510 TCAATAT
1 TCAATAT
95150517 TATTCAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 1 0.04
20 11 0.48
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (20 bp):
TCAATATCAATCAATATTTA
Found at i:95150522 original size:28 final size:28
Alignment explanation
Indices: 95150482--95150536 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
95150472 TCAATATCAG
* * *
95150482 TCAATATTTTTCAATATCAATCAATTTA
1 TCAATATTATTCAATAACAATAAATTTA
*
95150510 TCAATATTATTCAGTAACAATAAATTT
1 TCAATATTATTCAATAACAATAAATTT
95150537 TTCAGTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (28 bp):
TCAATATTATTCAATAACAATAAATTTA
Found at i:95150542 original size:18 final size:18
Alignment explanation
Indices: 95150509--95150597 Score: 90
Period size: 18 Copynumber: 4.8 Consensus size: 18
95150499 CAATCAATTT
95150509 ATCAATATTATTCAGTAACA
1 ATCAAT-TT-TTCAGTAACA
* *
95150529 ATAAATTTTTCAGTAATA
1 ATCAATTTTTCAGTAACA
* *
95150547 ATCAGTTGTTCAGTAACA
1 ATCAATTTTTCAGTAACA
95150565 ATCAATTATTT-AGTAACA
1 ATCAATT-TTTCAGTAACA
* *
95150583 ATCAGTTATTCAGTA
1 ATCAATTTTTCAGTA
95150598 CATTTATTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
17 2 0.04
18 46 0.81
19 4 0.07
20 5 0.09
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (18 bp):
ATCAATTTTTCAGTAACA
Found at i:95150559 original size:36 final size:36
Alignment explanation
Indices: 95150516--95150597 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
95150506 TTTATCAATA
*
95150516 TTATTCAGTAACAATAAATT-TTTCAGTAATAATCAG
1 TTATTCAGTAACAATAAATTATTT-AGTAACAATCAG
* *
95150552 TTGTTCAGTAACAATCAATTATTTAGTAACAATCAG
1 TTATTCAGTAACAATAAATTATTTAGTAACAATCAG
95150588 TTATTCAGTA
1 TTATTCAGTA
95150598 CATTTATTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 38 0.93
37 3 0.07
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (36 bp):
TTATTCAGTAACAATAAATTATTTAGTAACAATCAG
Found at i:95150806 original size:44 final size:44
Alignment explanation
Indices: 95150758--95150841 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
95150748 ACAGTAGCAG
*
95150758 TACGACACACATAGTGCCTCATTGACTCGAA-GTCGAAGTAACAA
1 TACGACACACATAGTGCCTCATCGACTC-AAGGTCGAAGTAACAA
**
95150802 TACGACACTTATAGTGCCTCATCGACTCAAGGTCGAAGTA
1 TACGACACACATAGTGCCTCATCGACTCAAGGTCGAAGTA
95150842 TCCCTGAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (44 bp):
TACGACACACATAGTGCCTCATCGACTCAAGGTCGAAGTAACAA
Found at i:95152057 original size:3 final size:3
Alignment explanation
Indices: 95152042--95152138 Score: 55
Period size: 3 Copynumber: 33.7 Consensus size: 3
95152032 ATATATTAGT
* * *
95152042 TAA TAA TAT TAA TAA TAA TAA TAA TACA TTA TAA TAG TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * *
95152087 T-A TAA T-T TAA TAA T-T TAA TAA T-T TAA T-A TAA -AA CTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
*
95152127 TTA TAAA TAA TA
1 TAA T-AA TAA TA
95152139 TCTATTTAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 20
0.67 0.13 0.19
Matches are distributed among these distances:
2 11 0.16
3 53 0.76
4 6 0.09
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:95152077 original size:13 final size:12
Alignment explanation
Indices: 95152051--95152138 Score: 53
Period size: 13 Copynumber: 7.4 Consensus size: 12
95152041 TTAATAATAT
*
95152051 TAATAATAATAA
1 TAATAATTATAA
95152063 TAATACATTATAA
1 TAATA-ATTATAA
*
95152076 TAGTAA-TATAA
1 TAATAATTATAA
95152087 T-ATAATT-TAA
1 TAATAATTATAA
95152097 TAAT--TTAATAA
1 TAATAATT-ATAA
* *
95152108 T-TTAATATAAAA
1 TAATAAT-TATAA
95152120 CTAATAATTATAAA
1 -TAATAATTAT-AA
95152134 TAATA
1 TAATA
95152139 TCTATTTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 21
0.67 0.08 0.24
Matches are distributed among these distances:
9 2 0.03
10 8 0.14
11 13 0.22
12 10 0.17
13 19 0.33
14 6 0.10
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (12 bp):
TAATAATTATAA
Found at i:95152077 original size:16 final size:15
Alignment explanation
Indices: 95152042--95152138 Score: 69
Period size: 16 Copynumber: 6.5 Consensus size: 15
95152032 ATATATTAGT
* *
95152042 TAATAATATTAATAA
1 TAATAATAATAATTA
95152057 TAATAATAATACATTA
1 TAATAATAATA-ATTA
* *
95152073 TAATAGTAATATAATA
1 TAATAATAATA-ATTA
*
95152089 TAAT-TTAATAATT-
1 TAATAATAATAATTA
*
95152102 TAATAAT-TTAA-TA
1 TAATAATAATAATTA
95152115 TAA-AACTAATAATTA
1 TAATAA-TAATAATTA
95152130 TAAATAATA
1 T-AATAATA
95152139 TCTATTTAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
12 3 0.05
13 11 0.17
14 6 0.09
15 18 0.28
16 24 0.38
17 2 0.03
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:95152101 original size:8 final size:8
Alignment explanation
Indices: 95152088--95152114 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
95152078 GTAATATAAT
95152088 ATAATTTA
1 ATAATTTA
95152096 ATAATTTA
1 ATAATTTA
95152104 ATAATTTA
1 ATAATTTA
95152112 ATA
1 ATA
95152115 TAAAACTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATAATTTA
Found at i:95152431 original size:24 final size:24
Alignment explanation
Indices: 95152404--95152490 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
95152394 AATATTAATA
95152404 ATAATATTTAAATAGAAAACCATG
1 ATAATATTTAAATAGAAAACCATG
* *** *
95152428 ATAATAATTAATAATA-ATATTATTAATA
1 ATAAT-ATTTA-AATAGA-A--AACCATG
95152456 ATAATATTTAAATAGAAAACCATG
1 ATAATATTTAAATAGAAAACCATG
*
95152480 ATAATAATTAA
1 ATAATATTTAA
95152491 TAATAATAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
24 18 0.39
25 5 0.11
26 10 0.22
27 5 0.11
28 8 0.17
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (24 bp):
ATAATATTTAAATAGAAAACCATG
Found at i:95152442 original size:3 final size:3
Alignment explanation
Indices: 95152428--95152510 Score: 51
Period size: 3 Copynumber: 27.0 Consensus size: 3
95152418 GAAAACCATG
* * * * *
95152428 ATA ATA ATTA ATA ATA ATA TTA TTA ATA ATA ATA TTT A-A ATA GAAA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
** * *
95152474 ACC ATG ATA ATA ATTA ATA ATA ATA ATT ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
95152511 GATTAATAAC
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
2 1 0.02
3 53 0.85
4 8 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:95152454 original size:15 final size:15
Alignment explanation
Indices: 95152434--95152463 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
95152424 CATGATAATA
95152434 ATTAATAATAATATT
1 ATTAATAATAATATT
95152449 ATTAATAATAATATT
1 ATTAATAATAATATT
95152464 TAAATAGAAA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAATAATAATATT
Found at i:95152464 original size:52 final size:52
Alignment explanation
Indices: 95152389--95152510 Score: 219
Period size: 52 Copynumber: 2.3 Consensus size: 52
95152379 ATTTCAAAAT
*
95152389 ATAATAATATTAATAATAATATTTAAATAGAAAACCATGATAATAATTAATA
1 ATAATATTATTAATAATAATATTTAAATAGAAAACCATGATAATAATTAATA
95152441 ATAATATTATTAATAATAATATTTAAATAGAAAACCATGATAATAATTAATA
1 ATAATATTATTAATAATAATATTTAAATAGAAAACCATGATAATAATTAATA
95152493 ATAATAATTA-TAATAATA
1 ATAAT-ATTATTAATAATA
95152511 GATTAATAAC
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
52 64 0.94
53 4 0.06
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (52 bp):
ATAATATTATTAATAATAATATTTAAATAGAAAACCATGATAATAATTAATA
Found at i:95152697 original size:20 final size:19
Alignment explanation
Indices: 95152651--95152697 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
95152641 AATCCTTTTT
*
95152651 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
95152671 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
95152691 CCTAATT
1 CCTAATT
95152698 AAAAACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Found at i:95153402 original size:12 final size:13
Alignment explanation
Indices: 95153380--95153408 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
95153370 TAGAATTGCC
95153380 ATTATAAAAATAA
1 ATTATAAAAATAA
95153393 ATTA-AAAAATAA
1 ATTATAAAAATAA
95153405 ATTA
1 ATTA
95153409 CGAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATTATAAAAATAA
Found at i:95155745 original size:28 final size:27
Alignment explanation
Indices: 95155712--95155765 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
95155702 ATAACTCCTT
95155712 TAATTATATAAATAAAATAATAAATATG
1 TAATTATAT-AATAAAATAATAAATATG
* *
95155740 TAATTATATAATGAAATAATATATAT
1 TAATTATATAATAAAATAATAAATAT
95155766 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (27 bp):
TAATTATATAATAAAATAATAAATATG
Found at i:95155900 original size:101 final size:100
Alignment explanation
Indices: 95155692--95155892 Score: 277
Period size: 100 Copynumber: 2.0 Consensus size: 100
95155682 TTTTTAATTT
*
95155692 TTTTTAATTAATAACTCCTTTAATTATATAAATAAAATAATAAATATGTAATTATATAATGAAAT
1 TTTTTAATTAATAACTCCTTTAATTATATAAATAAAATAATAAATATATAATTATATAATGAAAT
* *
95155757 AATATATATTTTATTTTTATGATTATGTTAAAAATA
66 -ATATATATTTTATATTTATCATTATGTTAAAAATA
** * *
95155793 TTTTTAATTAATAACTCCTTTGTTTATA-AAATAAATTACTAAATATATAATTATATAATGAAAT
1 TTTTTAATTAATAACTCCTTTAATTATATAAATAAAATAATAAATATATAATTATATAATGAAAT
*
95155857 -T-T-T-TTTATATATTTATCATTATGTTAAATATA
66 ATATATATTT-TATATTTATCATTATGTTAAAAATA
95155889 TTTT
1 TTTT
95155893 ATTTTTAAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
95 3 0.03
96 27 0.30
97 1 0.01
98 1 0.01
100 33 0.36
101 26 0.29
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (100 bp):
TTTTTAATTAATAACTCCTTTAATTATATAAATAAAATAATAAATATATAATTATATAATGAAAT
ATATATATTTTATATTTATCATTATGTTAAAAATA
Found at i:95155910 original size:29 final size:29
Alignment explanation
Indices: 95155878--95155934 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
95155868 TTTATCATTA
95155878 TGTTAAATATATTTTATT-TTTAAATAAAT
1 TGTTAAATATATTTT-TTCTTTAAATAAAT
** *
95155907 TGTTTGATATATTTTTTCTTTATATAAA
1 TGTTAAATATATTTTTTCTTTAAATAAA
95155935 ATTTTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (29 bp):
TGTTAAATATATTTTTTCTTTAAATAAAT
Found at i:95158772 original size:16 final size:16
Alignment explanation
Indices: 95158737--95158783 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
95158727 ATGAACCCTA
95158737 AACATAAACTATAAAACG
1 AACATAAA--ATAAAACG
*
95158755 AACATAAAATATAACG
1 AACATAAAATAAAACG
95158771 AA-ATAAAATAAAA
1 AACATAAAATAAAA
95158784 AAAACTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 9 0.33
18 8 0.30
ACGTcount: A:0.68, C:0.11, G:0.04, T:0.17
Consensus pattern (16 bp):
AACATAAAATAAAACG
Found at i:95158778 original size:15 final size:16
Alignment explanation
Indices: 95158737--95158780 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
95158727 ATGAACCCTA
*
95158737 AACATAAACTATAAAACG
1 AACATAAA--ATATAACG
95158755 AACATAAAATATAACG
1 AACATAAAATATAACG
95158771 AA-ATAAAATA
1 AACATAAAATA
95158781 AAAAAAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 8 0.32
16 9 0.36
18 8 0.32
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (16 bp):
AACATAAAATATAACG
Found at i:95159388 original size:14 final size:14
Alignment explanation
Indices: 95159360--95159405 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
95159350 TTAGCGAATA
*
95159360 AAATAAATTAAATAT
1 AAATAAA-TATATAT
95159375 AAATAAATATATAT
1 AAATAAATATATAT
95159389 AAAATAAAATATATAT
1 -AAAT-AAATATATAT
95159405 A
1 A
95159406 TAGAATGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 6 0.21
15 12 0.43
16 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAAATATATAT
Found at i:95159400 original size:16 final size:16
Alignment explanation
Indices: 95159357--95159405 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
95159347 ACGTTAGCGA
* *
95159357 ATAAAATAAATTAAAT
1 ATAAAATAAAATATAT
95159373 AT-AAAT-AAATATAT
1 ATAAAATAAAATATAT
95159387 ATAAAATAAAATATAT
1 ATAAAATAAAATATAT
95159403 ATA
1 ATA
95159406 TAGAATGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 8 0.28
15 8 0.28
16 13 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAATAAAATATAT
Found at i:95159404 original size:20 final size:21
Alignment explanation
Indices: 95159356--95159407 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
95159346 CACGTTAGCG
* *
95159356 AATAAA-ATAAATTAAATATA
1 AATAAATATATATAAAATATA
95159376 AATAAATATATATAAAATA-A
1 AATAAATATATATAAAATATA
*
95159396 AATATATATATA
1 AATAAATATATA
95159408 GAATGATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAAATATATATAAAATATA
Found at i:95159732 original size:16 final size:16
Alignment explanation
Indices: 95159711--95159744 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95159701 TTGAGAGTAA
*
95159711 AAGAGTTTCAGTGTGT
1 AAGAGTATCAGTGTGT
*
95159727 AAGAGTATGAGTGTGT
1 AAGAGTATCAGTGTGT
95159743 AA
1 AA
95159745 ATTTCTGTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.32
Consensus pattern (16 bp):
AAGAGTATCAGTGTGT
Found at i:95164690 original size:17 final size:17
Alignment explanation
Indices: 95164670--95164715 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
95164660 CAAAAATTCC
95164670 ATGATGAATTAAATTGA
1 ATGATGAATTAAATTGA
*
95164687 ATGA-GAATTATATTGA
1 ATGATGAATTAAATTGA
*
95164703 A--ATGAGTTAAATT
1 ATGATGAATTAAATT
95164716 TGTTCGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 8 0.32
16 12 0.48
17 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
ATGATGAATTAAATTGA
Found at i:95165301 original size:28 final size:28
Alignment explanation
Indices: 95165261--95165316 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
95165251 ACGGCTTACA
95165261 GCACGGACATGTCTTAAGGTCACACGGG
1 GCACGGACATGTCTTAAGGTCACACGGG
95165289 GCACGGACATGTCTTAAGGTCACACGGG
1 GCACGGACATGTCTTAAGGTCACACGGG
95165317 CGTGTCCCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.32, T:0.18
Consensus pattern (28 bp):
GCACGGACATGTCTTAAGGTCACACGGG
Found at i:95166323 original size:24 final size:25
Alignment explanation
Indices: 95166296--95166357 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
95166286 CAGCTTGAAA
* *
95166296 GAGCGTCCCGTTATAAG-CTCTTGG
1 GAGCTTCCCGTTATAAGACTCTTGC
* *
95166320 GAGCTTCCCGTTATATGATTCTTGC
1 GAGCTTCCCGTTATAAGACTCTTGC
95166345 GAGCTTCCCGTTA
1 GAGCTTCCCGTTA
95166358 ATAGTTCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 15 0.45
25 18 0.55
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATAAGACTCTTGC
Found at i:95166372 original size:24 final size:22
Alignment explanation
Indices: 95166296--95166378 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 22
95166286 CAGCTTGAAA
* *
95166296 GAGCGTCCCGTTATAAGCTCTTGG
1 GAGCTTCCCGTTAT-AGTTCTT-G
95166320 GAGCTTCCCGTTATATGATTCTTG
1 GAGCTTCCCGTTATA-G-TTCTTG
95166344 CGAGCTTCCCGTTAATAGTTCTTCG
1 -GAGCTTCCCGTT-ATAGTTCTT-G
*
95166369 GAGCATCCCG
1 GAGCTTCCCG
95166379 ATTTGGTTGT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
23 1 0.02
24 29 0.57
25 18 0.35
26 3 0.06
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.33
Consensus pattern (22 bp):
GAGCTTCCCGTTATAGTTCTTG
Found at i:95169390 original size:16 final size:16
Alignment explanation
Indices: 95169369--95169399 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95169359 GTAAAAAATA
95169369 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
95169385 ATATAACATTTATAA
1 ATATAAAATTTATAA
95169400 GAAAAGGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:95171668 original size:24 final size:25
Alignment explanation
Indices: 95171628--95171674 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
95171618 ATTAAATTAG
95171628 TAATATTTAGTCATAACTATAAATT
1 TAATATTTAGTCATAACTATAAATT
*
95171653 TAAT-TTTAG-CACTAACTTTAAA
1 TAATATTTAGTCA-TAACTATAAA
95171675 GAGGATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.70
25 4 0.20
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (25 bp):
TAATATTTAGTCATAACTATAAATT
Found at i:95178120 original size:8 final size:8
Alignment explanation
Indices: 95178107--95178133 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
95178097 CCATTCATGG
95178107 ATCGATCC
1 ATCGATCC
95178115 ATCGATCC
1 ATCGATCC
95178123 ATCGATCC
1 ATCGATCC
95178131 ATC
1 ATC
95178134 CCCTCTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.26
Consensus pattern (8 bp):
ATCGATCC
Found at i:95192292 original size:14 final size:14
Alignment explanation
Indices: 95192273--95192299 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95192263 TAGAAAAACC
95192273 CAGAATAAAGAAAT
1 CAGAATAAAGAAAT
95192287 CAGAATAAAGAAA
1 CAGAATAAAGAAA
95192300 CCCAAGATAC
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:0.67, C:0.07, G:0.15, T:0.11
Consensus pattern (14 bp):
CAGAATAAAGAAAT
Found at i:95209658 original size:24 final size:23
Alignment explanation
Indices: 95209617--95209662 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
95209607 ATGGTTAAGT
* *
95209617 TTATGAATTATTTTGTGAATTGG
1 TTATGAATTATATGGTGAATTGG
95209640 TTATGAACTTATATGGTGAATTG
1 TTATGAA-TTATATGGTGAATTG
95209663 TATTTATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.28, C:0.02, G:0.22, T:0.48
Consensus pattern (23 bp):
TTATGAATTATATGGTGAATTGG
Found at i:95212369 original size:20 final size:20
Alignment explanation
Indices: 95212346--95212383 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
95212336 AGGAGCACAA
95212346 GAGTGCAATTAGGGGCATCG
1 GAGTGCAATTAGGGGCATCG
*
95212366 GAGTGCAGTTAGGGGCAT
1 GAGTGCAATTAGGGGCAT
95212384 GAATATGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.13, G:0.42, T:0.21
Consensus pattern (20 bp):
GAGTGCAATTAGGGGCATCG
Found at i:95214308 original size:224 final size:224
Alignment explanation
Indices: 95213918--95214365 Score: 797
Period size: 224 Copynumber: 2.0 Consensus size: 224
95213908 CTATATAAGT
*
95213918 AACCTTAGGGTTATCGGAATAAGGGGTTAGACATTAGACCTAGACTTAGATAGTTTTATTTTACT
1 AACCTTAGGGTCATCGGAATAAGGGGTTAGACATTAGACCTAGACTTAGATAGTTTTATTTTACT
95213983 TAGTTTTTATTTAGTTTTATTTTCATGTTCATGTAGTCAAAATTTTTCATGTTCCGATATGAAAA
66 TAGTTTTTATTTAGTTTTATTTTCATGTTCATGTAGTCAAAATTTTTCATGTTCCGATATGAAAA
* * *
95214048 CAATTGCGAGCAGAGATTGCTCCAAAGTCGCGTCTATATTTATTTAAGAGGTTTCTTCCACTTTC
131 CAATCGAGAGCAGAGATTGCTCCAAAGTCGCGTCTATATTTATTCAAGAGGTTTCTTCCACTTTC
*
95214113 CTTGTTCTTTTATTTATATTTTCGTTAGC
196 CTTGTTCTTTTATTTATATTTTCATTAGC
95214142 AACCTTAGGGTCATCGGAATAAGGGGTTAGACATTAGACCTAGACTTAGATAGTTTTATTTTACT
1 AACCTTAGGGTCATCGGAATAAGGGGTTAGACATTAGACCTAGACTTAGATAGTTTTATTTTACT
* **
95214207 TAGTTTTTATTTAGTTTTATTTTTATGTTTGTGTAGTCAAAATTTTTCATGTTCCGATATGAAAA
66 TAGTTTTTATTTAGTTTTATTTTCATGTTCATGTAGTCAAAATTTTTCATGTTCCGATATGAAAA
* * *
95214272 CGATCGAGAGCAGAGATTGCTCTAGAGTCGCGTCTATATTTATTCAAGAGGTTTCTTCCACTTTC
131 CAATCGAGAGCAGAGATTGCTCCAAAGTCGCGTCTATATTTATTCAAGAGGTTTCTTCCACTTTC
95214337 CTTGTTCTTTTATTTATATTTTCATTAGC
196 CTTGTTCTTTTATTTATATTTTCATTAGC
95214366 CTGATCAACT
Statistics
Matches: 213, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
224 213 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (224 bp):
AACCTTAGGGTCATCGGAATAAGGGGTTAGACATTAGACCTAGACTTAGATAGTTTTATTTTACT
TAGTTTTTATTTAGTTTTATTTTCATGTTCATGTAGTCAAAATTTTTCATGTTCCGATATGAAAA
CAATCGAGAGCAGAGATTGCTCCAAAGTCGCGTCTATATTTATTCAAGAGGTTTCTTCCACTTTC
CTTGTTCTTTTATTTATATTTTCATTAGC
Found at i:95214951 original size:24 final size:26
Alignment explanation
Indices: 95214918--95214965 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
95214908 ATTTGTAACT
*
95214918 TAATTATATTTAA-AATTATTTTTAG
1 TAATTATATTTAATAATAATTTTTAG
95214943 TAATT-TATTTAATAATAATTTTT
1 TAATTATATTTAATAATAATTTTT
95214966 TTCAATCCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
TAATTATATTTAATAATAATTTTTAG
Found at i:95214958 original size:12 final size:13
Alignment explanation
Indices: 95214918--95214958 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
95214908 ATTTGTAACT
95214918 TAATTATATTTAA
1 TAATTATATTTAA
* *
95214931 -AATTATTTTTAG
1 TAATTATATTTAA
95214943 TAATT-TATTTAA
1 TAATTATATTTAA
95214955 TAAT
1 TAAT
95214959 AATTTTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
TAATTATATTTAA
Found at i:95216877 original size:71 final size:71
Alignment explanation
Indices: 95216761--95216904 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
95216751 GTTTAATTGA
95216761 ATGTTTTGTTGTATGGAATGTGACTTATATTGATGTATATTACTTGAATGCTATAATGAGAAATT
1 ATGTTTTGTTGTATGGAATGTGACTTATATTGATGTATATTACTTGAATGCTATAATGAGAAATT
95216826 TAATAC
66 TAATAC
95216832 ATGTTTTGTTGTATGGAATGTGACTTATATTGATGTATATTACTTGAATGCTATAATGAGAAATT
1 ATGTTTTGTTGTATGGAATGTGACTTATATTGATGTATATTACTTGAATGCTATAATGAGAAATT
95216897 TAATAC
66 TAATAC
95216903 AT
1 AT
95216905 ACTTGATATG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.44
Consensus pattern (71 bp):
ATGTTTTGTTGTATGGAATGTGACTTATATTGATGTATATTACTTGAATGCTATAATGAGAAATT
TAATAC
Found at i:95218828 original size:26 final size:26
Alignment explanation
Indices: 95218792--95218842 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
95218782 TTTTCAAATC
95218792 GAGTCGAGTGAGACGAAATTCGAATT
1 GAGTCGAGTGAGACGAAATTCGAATT
* *
95218818 GAGTCGAGTGAGATGGAATTCGAAT
1 GAGTCGAGTGAGACGAAATTCGAAT
95218843 CGAATTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.24
Consensus pattern (26 bp):
GAGTCGAGTGAGACGAAATTCGAATT
Found at i:95219428 original size:31 final size:32
Alignment explanation
Indices: 95219384--95219443 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
95219374 AAGTTTTAAA
*
95219384 GAGTAAGAGTTTG-AGGAAAAATAATAAAGGG
1 GAGTAAAAGTTTGAAGGAAAAATAATAAAGGG
* * *
95219415 GAGTAAAATTTTGAAGGGAAAATATTAAA
1 GAGTAAAAGTTTGAAGGAAAAATAATAAA
95219444 AAAATTAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 11 0.46
32 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (32 bp):
GAGTAAAAGTTTGAAGGAAAAATAATAAAGGG
Found at i:95220444 original size:58 final size:58
Alignment explanation
Indices: 95220354--95220470 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
95220344 TATTGCCGGC
95220354 AAGAATAAGCCAACAACGGAGATAAATTGAGAAGAAATGGTCAAGGCCATGCAGAGAG
1 AAGAATAAGCCAACAACGGAGATAAATTGAGAAGAAATGGTCAAGGCCATGCAGAGAG
95220412 AAGAATAAGCCAACAACGGAGATAAATTGAGAAGAAATGGTCAAGGCCATGCAGAGAG
1 AAGAATAAGCCAACAACGGAGATAAATTGAGAAGAAATGGTCAAGGCCATGCAGAGAG
95220470 A
1 A
95220471 GAGAGAGAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.47, C:0.14, G:0.27, T:0.12
Consensus pattern (58 bp):
AAGAATAAGCCAACAACGGAGATAAATTGAGAAGAAATGGTCAAGGCCATGCAGAGAG
Found at i:95220447 original size:31 final size:31
Alignment explanation
Indices: 95220354--95220447 Score: 79
Period size: 31 Copynumber: 3.2 Consensus size: 31
95220344 TATTGCCGGC
95220354 AAGAATAAGCCAACAACGGAGATAAATTGAG
1 AAGAATAAGCCAACAACGGAGATAAATTGAG
* ** ** ** **
95220385 AAGAA-ATG--GTCAA-GGCCATGCAGAGAG
1 AAGAATAAGCCAACAACGGAGATAAATTGAG
95220412 AAGAATAAGCCAACAACGGAGATAAATTGAG
1 AAGAATAAGCCAACAACGGAGATAAATTGAG
95220443 AAGAA
1 AAGAA
95220448 ATGGTCAAGG
Statistics
Matches: 41, Mismatches: 18, Indels: 8
0.61 0.27 0.12
Matches are distributed among these distances:
27 13 0.32
28 5 0.12
30 5 0.12
31 18 0.44
ACGTcount: A:0.50, C:0.13, G:0.26, T:0.12
Consensus pattern (31 bp):
AAGAATAAGCCAACAACGGAGATAAATTGAG
Found at i:95221856 original size:695 final size:687
Alignment explanation
Indices: 95220632--95222015 Score: 2653
Period size: 695 Copynumber: 2.0 Consensus size: 687
95220622 CAACGAACAC
*
95220632 CAGTAGCAACGAACAAGCGAAAAAGCAACCTTATTATTGATTTTATTTCGACATAAACACAACAT
1 CAGTAGCAACGAACAAGCAAAAAAGCAACCTTATTATTGATTTTATTTCGACATAAACACAACAT
95220697 TAAACCTCACCCTTAGACCCAATCAACATTAAACCTCACATTGCAACTTCACTAGCCTTCCTTTT
66 TAAACCTCACCCTTAGACCCAATCAACATTAAACCTCACATTGCAACTTCACTAGCCTTCCTTTT
*
95220762 GATTTTCCCAAGCTTGTAATAAGAAGGTGCATATCTTACTTTTCTATAACCTGCTTTGCTTGACT
131 GATTTTCCCAAGCTTGTAATAAGAAGGTGCATATCTGACTTTTCTATAACCTGCTTTGCTTGACT
95220827 TTTTGGTCTTACCCAACTTTTCTTCAAGCTCCTTCACTCTTTCAGTCAAGTTGGATATGACAGTG
196 TTTTGGTCTTACCCAACTTTTCTTCAAGCTCCTTCACTCTTTCAGTCAAGTTGGATATGACAGTG
95220892 AGTTGATCTTTTCCAGCTTCCATAAGTTTCTCCATCATCTCGTTCAATTTCTTGTTCTCTTCAAC
261 AGTTGATCTTTTCCAGCTTCCATAAGTTTCTCCATCATCTCGTTCAATTTCTTGTTCTCTTCAAC
95220957 CACCTTATTATCTTCTCCAATCTTCGCTACATTTGGTTTCCAAGAAGCATCGGCTTGAAGCAGCT
326 CACCTTATTATCTTCTCCAATCTTCGCTACATTTGGTTTCCAAGAAGCATCGGCTTGAAGCAGCT
95221022 TGTTCATTTCCTTTTCCAGCTTTGCTTCTTCCTTCTCTTCACTTCCTACTGGCTGCTCTGCATCT
391 TGTTCATTTCCTTTTCCAGCTTTGCTTCTTCCTTCTCTTCACTTCCTACTGGCTGCTCTGCATCT
*
95221087 TTCATCTCCTCAAACAATACTAGTTTCTCCTCAGTTGCTTCGCTTCCTGCTTCTGATTCGGATGA
456 TTCATCTCCTCAAACAATACTAATTTCTCCTCAGTTGCTTCGCTTCCTGCTTCTGATTCGGATGA
95221152 TGCCATATGATCACCAGGAATCACACCTGAATCATCCTCATGTCGTTGCAGGCCCTCATTATTTT
521 TGCCATATGATCACCAGGAATCACACCTGAATCATCCTCATGTCGTTGCAGGCCCTCATTATTTT
95221217 TTTCACCTATTGTTGAGTGGATTTCCTCCGGTTTAAAGAACATTGTGCATTTGTTGTCGTCCACC
586 TTTCACCTATTGTTGAGTGGATTTCCTCCGGTTTAAAGAACATTGTGCATTTGTTGTCGTCCACC
95221282 TCCTCTTGGCTGATCTCTACTTCTTTCTCATCCCGTG
651 TCCTCTTGGCTGATCTCTACTTCTTTCTCATCCCGTG
95221319 CAGTAGCAACGAACAAGCAAAAAAGCAACCTTATTATTGATTTTATTTCGACATAAACACAACAT
1 CAGTAGCAACGAACAAGCAAAAAAGCAACCTTATTATTGATTTTATTTCGACATAAACACAACAT
95221384 TAAACCTCACCCTTAGACCCAATCAACATTAAACCTCACATTGCAACTTCACTAGCCTTCCTTTT
66 TAAACCTCACCCTTAGACCCAATCAACATTAAACCTCACATTGCAACTTCACTAGCCTTCCTTTT
95221449 GA-TTTCCCAAGCTTGTAATAAGAAGGTGCATATCTGACTTTTCTATAACCTGCTTTGCTTGACT
131 GATTTTCCCAAGCTTGTAATAAGAAGGTGCATATCTGACTTTTCTATAACCTGCTTTGCTTGA--
95221513 TTTTGGTCTTTTTGGTCTTACCCAACTTTTCTTCAAGCTCCTTCACTCTTTCAGTCAAGTTGGAT
194 -------CTTTTTGGTCTTACCCAACTTTTCTTCAAGCTCCTTCACTCTTTCAGTCAAGTTGGAT
95221578 ATGACAGTGAGTTGATCTTTTCCAGCTTCCATAAGTTTCTCCATCATCTCGTTCAATTTCTTGTT
252 ATGACAGTGAGTTGATCTTTTCCAGCTTCCATAAGTTTCTCCATCATCTCGTTCAATTTCTTGTT
95221643 CTCTTCAACCACCTTATTATCTTCTCCAATCTTCGCTACATTTGGTTTCCAAGAAGCATCGGCTT
317 CTCTTCAACCACCTTATTATCTTCTCCAATCTTCGCTACATTTGGTTTCCAAGAAGCATCGGCTT
95221708 GAAGCAGCTTGTTCATTTCCTTTTCCAGCTTTGCTTCTTCCTTCTCTTCACTTCCTACTGGCTGC
382 GAAGCAGCTTGTTCATTTCCTTTTCCAGCTTTGCTTCTTCCTTCTCTTCACTTCCTACTGGCTGC
95221773 TCTGCATCTTTCATCTCCTCAAACAATACTAATTTCTCCTCAGTTGCTTCGCTTCCTGCTTCTGA
447 TCTGCATCTTTCATCTCCTCAAACAATACTAATTTCTCCTCAGTTGCTTCGCTTCCTGCTTCTGA
95221838 TTCGGATGATGCCATATGATCACCAGGAATCACACCTGAATCATCCTCATGTCGTTGCAGGCCCT
512 TTCGGATGATGCCATATGATCACCAGGAATCACACCTGAATCATCCTCATGTCGTTGCAGGCCCT
95221903 CATTATTTTTTTCACCTATTGTTGAGTGGATTTCCTCCGGTTTAAAGAACATTGTGCATTTGTTG
577 CATTATTTTTTTCACCTATTGTTGAGTGGATTTCCTCCGGTTTAAAGAACATTGTGCATTTGTTG
95221968 TCGTCCACCTCCTCTTGGCTGATCTCTACTTCTTTCTCATCCCGTG
642 TCGTCCACCTCCTCTTGGCTGATCTCTACTTCTTTCTCATCCCGTG
95222014 CA
1 CA
95222016 CCGTTGTTTG
Statistics
Matches: 685, Mismatches: 3, Indels: 10
0.98 0.00 0.01
Matches are distributed among these distances:
686 59 0.09
687 131 0.19
695 495 0.72
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.37
Consensus pattern (687 bp):
CAGTAGCAACGAACAAGCAAAAAAGCAACCTTATTATTGATTTTATTTCGACATAAACACAACAT
TAAACCTCACCCTTAGACCCAATCAACATTAAACCTCACATTGCAACTTCACTAGCCTTCCTTTT
GATTTTCCCAAGCTTGTAATAAGAAGGTGCATATCTGACTTTTCTATAACCTGCTTTGCTTGACT
TTTTGGTCTTACCCAACTTTTCTTCAAGCTCCTTCACTCTTTCAGTCAAGTTGGATATGACAGTG
AGTTGATCTTTTCCAGCTTCCATAAGTTTCTCCATCATCTCGTTCAATTTCTTGTTCTCTTCAAC
CACCTTATTATCTTCTCCAATCTTCGCTACATTTGGTTTCCAAGAAGCATCGGCTTGAAGCAGCT
TGTTCATTTCCTTTTCCAGCTTTGCTTCTTCCTTCTCTTCACTTCCTACTGGCTGCTCTGCATCT
TTCATCTCCTCAAACAATACTAATTTCTCCTCAGTTGCTTCGCTTCCTGCTTCTGATTCGGATGA
TGCCATATGATCACCAGGAATCACACCTGAATCATCCTCATGTCGTTGCAGGCCCTCATTATTTT
TTTCACCTATTGTTGAGTGGATTTCCTCCGGTTTAAAGAACATTGTGCATTTGTTGTCGTCCACC
TCCTCTTGGCTGATCTCTACTTCTTTCTCATCCCGTG
Found at i:95222132 original size:90 final size:90
Alignment explanation
Indices: 95221998--95222234 Score: 413
Period size: 90 Copynumber: 2.6 Consensus size: 90
95221988 GATCTCTACT
* * *
95221998 TCTTTCTCATCC-CGTGCACCGTTGTTTGATTTTGCTTCAAGTAAATGCTCATCAATTACTCCAG
1 TCTTTCTCATCCTC-TACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAG
*
95222062 CTGGCAACTCTTTGAACAAGTCGATC
65 CTGGCAACTCTTTGAACAAGTCAATC
95222088 TCTTTCTCATCCTCTACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
1 TCTTTCTCATCCTCTACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
95222153 TGGCAACTCTTTGAACAAGTCAATC
66 TGGCAACTCTTTGAACAAGTCAATC
*
95222178 TCTTTCTCATCCTCTACACTGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATT
1 TCTTTCTCATCCTCTACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATT
95222235 TTGGAAATGG
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
90 140 0.99
91 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.38
Consensus pattern (90 bp):
TCTTTCTCATCCTCTACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
TGGCAACTCTTTGAACAAGTCAATC
Found at i:95222938 original size:21 final size:22
Alignment explanation
Indices: 95222905--95222946 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
95222895 TCAGTCCACC
95222905 TTCTTGTTAGAGA-ATCAAGCTT
1 TTCTTGTTAGAGACA-CAAGCTT
95222927 TTCTTG-TAGAGACACAAGCT
1 TTCTTGTTAGAGACACAAGCT
95222947 CCTTGACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (22 bp):
TTCTTGTTAGAGACACAAGCTT
Found at i:95226867 original size:33 final size:33
Alignment explanation
Indices: 95226802--95226872 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
95226792 ACGGGCAGCA
* **
95226802 TGGTGATGGTGGTGGAAGCTTTTTATGTGGTGG
1 TGGTGATGGTGGTGGAAGCTCTGGATGTGGTGG
*
95226835 TGGTGATGGTGGTTGAAGCTCTGGAT-TAGGTGG
1 TGGTGATGGTGGTGGAAGCTCTGGATGT-GGTGG
95226868 TGGTG
1 TGGTG
95226873 GAGGAGACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.13, C:0.04, G:0.46, T:0.37
Consensus pattern (33 bp):
TGGTGATGGTGGTGGAAGCTCTGGATGTGGTGG
Found at i:95228211 original size:35 final size:35
Alignment explanation
Indices: 95228150--95228219 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
95228140 ACTTAAACTT
* *
95228150 AAAAAATCAAATTACTTATTCAAGTTAATTCAAAA
1 AAAAAATCAAATAACTTATTCAAGTTAACTCAAAA
*
95228185 AAAAAATCGAATAACTTGATTC-AGTTAACTCAAAA
1 AAAAAATCAAATAACTT-ATTCAAGTTAACTCAAAA
95228220 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.29
Consensus pattern (35 bp):
AAAAAATCAAATAACTTATTCAAGTTAACTCAAAA
Found at i:95229054 original size:31 final size:31
Alignment explanation
Indices: 95228990--95229086 Score: 158
Period size: 31 Copynumber: 3.1 Consensus size: 31
95228980 TTTCCTAAGG
95228990 TAAAAAAGAAGCCTTTAATTTGGGAAAATGTCT
1 TAAAAAAGAAGCCTTTAATTTGGG--AATGTCT
*
95229023 TTAAAAAGAAGCCTTTAATTTGGGAATGTCT
1 TAAAAAAGAAGCCTTTAATTTGGGAATGTCT
*
95229054 TAAAAAAGAAGCTTTTAATTTGGGAATGTCT
1 TAAAAAAGAAGCCTTTAATTTGGGAATGTCT
95229085 TA
1 TA
95229087 CCCTCTTTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 38 0.62
33 23 0.38
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (31 bp):
TAAAAAAGAAGCCTTTAATTTGGGAATGTCT
Found at i:95230852 original size:19 final size:20
Alignment explanation
Indices: 95230819--95230857 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
95230809 TTCTCCATTT
95230819 TTTCTTTCTCTTTTTCTTTC
1 TTTCTTTCTCTTTTTCTTTC
95230839 TTTCTTTC-CTTTTTCTTTC
1 TTTCTTTCTCTTTTTCTTTC
95230858 CTGTTTCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTCTTTCTCTTTTTCTTTC
Found at i:95230855 original size:11 final size:11
Alignment explanation
Indices: 95230817--95230864 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
95230807 TTTTCTCCAT
95230817 TTTTTCTTTCTC
1 TTTTTCTTTC-C
95230829 TTTTTCTTT-C
1 TTTTTCTTTCC
95230839 --TTTCTTTCC
1 TTTTTCTTTCC
95230848 TTTTTCTTTCC
1 TTTTTCTTTCC
*
95230859 TGTTTC
1 TTTTTC
95230865 GTTTTCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 7 0.22
9 1 0.03
10 1 0.03
11 14 0.44
12 9 0.28
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTTTCTTTCC
Found at i:95234759 original size:12 final size:12
Alignment explanation
Indices: 95234742--95234767 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95234732 ACAGATGATA
95234742 CAAGCTAAAGCT
1 CAAGCTAAAGCT
95234754 CAAGCTAAAGCT
1 CAAGCTAAAGCT
95234766 CA
1 CA
95234768 GACTGTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (12 bp):
CAAGCTAAAGCT
Found at i:95238141 original size:8 final size:8
Alignment explanation
Indices: 95238128--95238173 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
95238118 GAGTTTATTC
95238128 AATATAAT
1 AATATAAT
95238136 AATATAAT
1 AATATAAT
*
95238144 ATTATAAT
1 AATATAAT
95238152 -A-AT-AT
1 AATATAAT
95238157 AATATAAT
1 AATATAAT
95238165 AATATAAT
1 AATATAAT
95238173 A
1 A
95238174 GATTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 2 0.06
6 3 0.09
7 2 0.06
8 26 0.79
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AATATAAT
Found at i:95238150 original size:13 final size:13
Alignment explanation
Indices: 95238128--95238173 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 13
95238118 GAGTTTATTC
95238128 AATATAATAATAT
1 AATATAATAATAT
95238141 AATATTATAATAATAT
1 -A-A-TATAATAATAT
95238157 AATATAATAATAT
1 AATATAATAATAT
95238170 AATA
1 AATA
95238174 GATTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.50
14 2 0.07
15 2 0.07
16 11 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:95238151 original size:16 final size:16
Alignment explanation
Indices: 95238130--95238168 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
95238120 GTTTATTCAA
95238130 TATAATAATATAATAT
1 TATAATAATATAATAT
95238146 TATAATAATATAATAT
1 TATAATAATATAATAT
*
95238162 AATAATA
1 TATAATA
95238169 TAATAGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAATAATATAATAT
Found at i:95238789 original size:29 final size:31
Alignment explanation
Indices: 95238722--95238792 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
95238712 AATCTTAAAT
*
95238722 TTATACATA--AATTTTGATTTAATGTGTAA
1 TTATACATATGAATTTTAATTTAATGTGTAA
*
95238751 TT-TAATATATGAATTTTAATTT-A-GTGTAA
1 TTAT-ACATATGAATTTTAATTTAATGTGTAA
95238780 TTATACATATGAA
1 TTATACATATGAA
95238793 AACTTTGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
28 1 0.03
29 22 0.63
30 2 0.06
31 10 0.29
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (31 bp):
TTATACATATGAATTTTAATTTAATGTGTAA
Found at i:95239833 original size:29 final size:25
Alignment explanation
Indices: 95239799--95239853 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 25
95239789 AACGCAAGTG
95239799 ACTAAAACGTAACATTTCAAAGACAAATA
1 ACTAAAACGT-A-A-TT-AAAGACAAATA
*
95239828 ACTAAAATGTAATTAAAGACAAATA
1 ACTAAAACGTAATTAAAGACAAATA
95239853 A
1 A
95239854 AAGTGGCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 12 0.48
26 2 0.08
27 1 0.04
28 1 0.04
29 9 0.36
ACGTcount: A:0.58, C:0.13, G:0.07, T:0.22
Consensus pattern (25 bp):
ACTAAAACGTAATTAAAGACAAATA
Found at i:95243474 original size:20 final size:20
Alignment explanation
Indices: 95243449--95243499 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
95243439 AGAGGCACAC
* *
95243449 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTAGAACAT
95243469 GCCCGTGTGGCCTAGAACAT
1 GCCCGTGTGGCCTAGAACAT
*
95243489 GTCCGTGTGGC
1 GCCCGTGTGGC
95243500 TTTCCCGTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.29, G:0.37, T:0.22
Consensus pattern (20 bp):
GCCCGTGTGGCCTAGAACAT
Found at i:95244046 original size:13 final size:13
Alignment explanation
Indices: 95244028--95244064 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
95244018 GACAATTAGT
95244028 AAATCATACATAC
1 AAATCATACATAC
*
95244041 AAATCATACATAT
1 AAATCATACATAC
95244054 AAATTCATACA
1 AAA-TCATACA
95244065 AAACTATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATCATACATAC
Found at i:95255684 original size:21 final size:21
Alignment explanation
Indices: 95255660--95255724 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
95255650 AAGTCTAGCT
95255660 GAAGCACACAAGTGCTAAACA
1 GAAGCACACAAGTGCTAAACA
*
95255681 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACA
* *
95255699 GAAGCACACAACTGCTAAACG
1 GAAGCACACAAGTGCTAAACA
95255720 GAAGC
1 GAAGC
95255725 CCGAAGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 8 0.22
21 13 0.36
ACGTcount: A:0.42, C:0.26, G:0.23, T:0.09
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACA
Found at i:95255701 original size:39 final size:39
Alignment explanation
Indices: 95255649--95255742 Score: 152
Period size: 39 Copynumber: 2.4 Consensus size: 39
95255639 TCTGAAGCGT
* * *
95255649 GAAGTCTAGCTGAAGCACACAAGTGCTAAACAGAAGCCC
1 GAAGGCTAACTGAAGCACACAACTGCTAAACAGAAGCCC
*
95255688 GAAGGCTAACTGAAGCACACAACTGCTAAACGGAAGCCC
1 GAAGGCTAACTGAAGCACACAACTGCTAAACAGAAGCCC
95255727 GAAGGCTAACTGAAGC
1 GAAGGCTAACTGAAGC
95255743 TCATCAGAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.38, C:0.26, G:0.24, T:0.12
Consensus pattern (39 bp):
GAAGGCTAACTGAAGCACACAACTGCTAAACAGAAGCCC
Found at i:95266931 original size:20 final size:20
Alignment explanation
Indices: 95266903--95266941 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95266893 TAAAACATAA
95266903 TTAAATTTAT-TAATAAAATT
1 TTAAATTTATAT-ATAAAATT
*
95266923 TTAATTTTATATATAAAAT
1 TTAAATTTATATATAAAAT
95266942 AACAAAGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAAATTTATATATAAAATT
Found at i:95267443 original size:17 final size:18
Alignment explanation
Indices: 95267421--95267458 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
95267411 ATTCAAACAT
*
95267421 ACATTCCTATCATAA-AC
1 ACATTCATATCATAATAC
*
95267438 ACATTCATATTATAATAC
1 ACATTCATATCATAATAC
95267456 ACA
1 ACA
95267459 ATAAATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.32
Consensus pattern (18 bp):
ACATTCATATCATAATAC
Found at i:95268773 original size:81 final size:80
Alignment explanation
Indices: 95268635--95268811 Score: 246
Period size: 81 Copynumber: 2.2 Consensus size: 80
95268625 CGGGACTATT
* * * *
95268635 TTGCTTACATAAGCTTTTGTTTATGAATGAATCATACAAGCCTTTGTATTTGGGTTGCTCACACA
1 TTGCTCACACAAGCTTTTGTTTATGAATGAATCACACAAGCCTTCGTATTTGGGTTGCTCACACA
*
95268700 AGCTTCATATCAGGG
66 AGCTTCAGATCAGGG
*** *
95268715 TTGCTCACACAAGCTTTTGTTTATGAAATTTTTCACACAAGCCTTCGTATTTGGGTTGCTCACTC
1 TTGCTCACACAAGCTTTTGTTTATG-AATGAATCACACAAGCCTTCGTATTTGGGTTGCTCACAC
95268780 AAGCTTCAGATCAGGG
65 AAGCTTCAGATCAGGG
* *
95268796 TTGCTCAAAGAAGCTT
1 TTGCTCACACAAGCTT
95268812 AGTTCGATTT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 23 0.27
81 62 0.73
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (80 bp):
TTGCTCACACAAGCTTTTGTTTATGAATGAATCACACAAGCCTTCGTATTTGGGTTGCTCACACA
AGCTTCAGATCAGGG
Found at i:95269051 original size:69 final size:69
Alignment explanation
Indices: 95268969--95269103 Score: 236
Period size: 69 Copynumber: 2.0 Consensus size: 69
95268959 GCACCGTTAC
95268969 CGTTATCATATCATTTCAAATCC-CGTAGTAGCATACACAATTTACACATTTCACATAACATACC
1 CGTTATCATATCATTTCAAA-CCTCGTAGTAGCATACACAATTTACACATTTCACATAACATACC
95269033 ATTAT
65 ATTAT
* *
95269038 CGTTATCATATCATTTCAAACCTCGTAGTAGTATACACAATTTACACATTTCACATAACATTCCA
1 CGTTATCATATCATTTCAAACCTCGTAGTAGCATACACAATTTACACATTTCACATAACATACCA
95269103 T
66 T
95269104 ATCCACTTCA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 2 0.03
69 61 0.97
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (69 bp):
CGTTATCATATCATTTCAAACCTCGTAGTAGCATACACAATTTACACATTTCACATAACATACCA
TTAT
Found at i:95270673 original size:16 final size:16
Alignment explanation
Indices: 95270652--95270685 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95270642 CCCACCCGCA
*
95270652 TTAATTTTTTAAAATT
1 TTAATTTTATAAAATT
*
95270668 TTAATTTTATATAATT
1 TTAATTTTATAAAATT
95270684 TT
1 TT
95270686 TTTAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATTTTATAAAATT
Found at i:95283480 original size:53 final size:53
Alignment explanation
Indices: 95283414--95283554 Score: 194
Period size: 53 Copynumber: 2.7 Consensus size: 53
95283404 ATAAGTGCGC
* *
95283414 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
* * *
95283467 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
* * *
95283520 TCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTA
95283555 TGATATGTGA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 1 0.01
53 77 0.99
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
Found at i:95290981 original size:52 final size:52
Alignment explanation
Indices: 95290887--95291019 Score: 198
Period size: 52 Copynumber: 2.5 Consensus size: 52
95290877 ATAAGTGCGC
*
95290887 CCGTTTAAGACCATAGCTGGGCTATGGCATCGATGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGAT-CAATGTGATAATGTGACT
*
95290940 CCGTATAAGACCATAGCTGGGCTATGGCATCGTAT-AATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCG-ATCAATGTGATAATGTGACT
*
95290992 CCGTATAAGACCAT-GTCTGGGATATGGC
1 CCGTATAAGACCATAG-CTGGGCTATGGC
95291020 TTCGGTATGA
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
51 1 0.01
52 41 0.55
53 31 0.41
54 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (52 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGATCAATGTGATAATGTGACT
Found at i:95292400 original size:17 final size:16
Alignment explanation
Indices: 95292378--95292420 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
95292368 TATAATGATT
*
95292378 AAAATAAAGTTCAAAA
1 AAAATAAAATTCAAAA
*
95292394 CAAAATAAAATTTAAAA
1 -AAAATAAAATTCAAAA
95292411 AAAATTAAAA
1 AAAA-TAAAA
95292421 AGAAAGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAATAAAATTCAAAA
Found at i:95292408 original size:29 final size:29
Alignment explanation
Indices: 95292376--95292432 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
95292366 ACTATAATGA
* *
95292376 TTAAAATAAAGTTCAAAACAAA-ATAAAAT
1 TTAAAA-AAAATTAAAAACAAAGATAAAAT
*
95292405 TTAAAAAAAATTAAAAAGAAAGATAAAA
1 TTAAAAAAAATTAAAAACAAAGATAAAA
95292433 AGAAAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (29 bp):
TTAAAAAAAATTAAAAACAAAGATAAAAT
Found at i:95294069 original size:19 final size:19
Alignment explanation
Indices: 95294009--95294070 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
95293999 GAAAACAATG
95294009 ATAAT-AAACAATAAAGCTA
1 ATAATAAAACAATAAAG-TA
*
95294028 ATAA-AAATA-AACAAAGTA
1 ATAATAAA-ACAATAAAGTA
*
95294046 A-AATAAAACAATAAAGAA
1 ATAATAAAACAATAAAGTA
95294064 ATAATAA
1 ATAATAA
95294071 GAGTAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 3 0.09
18 14 0.40
19 17 0.49
20 1 0.03
ACGTcount: A:0.71, C:0.06, G:0.05, T:0.18
Consensus pattern (19 bp):
ATAATAAAACAATAAAGTA
Found at i:95301507 original size:10 final size:10
Alignment explanation
Indices: 95301492--95301518 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
95301482 ACTTGTTCTT
95301492 AAAAAAAATA
1 AAAAAAAATA
95301502 AAAAAAAATA
1 AAAAAAAATA
95301512 AAAAAAA
1 AAAAAAA
95301519 TGTGTATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:95311035 original size:6 final size:6
Alignment explanation
Indices: 95311021--95311052 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
95311011 ATTTATTTTA
*
95311021 TTTCGT TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
95311053 ATTTAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:95317351 original size:14 final size:14
Alignment explanation
Indices: 95317334--95317364 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
95317324 AATTAAAAGT
95317334 AAAAAATAAA-ATA
1 AAAAAATAAACATA
95317347 AAAAAATAAACATA
1 AAAAAATAAACATA
95317361 AAAA
1 AAAA
95317365 TGGCTAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATAAACATA
Found at i:95322821 original size:27 final size:27
Alignment explanation
Indices: 95322789--95322851 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
95322779 AGTTGCTCTG
95322789 ACGATGGCACCACAAGGCAAAATGGTT
1 ACGATGGCACCACAAGGCAAAATGGTT
*
95322816 ACGATGGCACCACAAGGCACAATGGTT
1 ACGATGGCACCACAAGGCAAAATGGTT
*
95322843 GCGATGGCA
1 ACGATGGCA
95322852 GTGATCCGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.29, T:0.14
Consensus pattern (27 bp):
ACGATGGCACCACAAGGCAAAATGGTT
Found at i:95324334 original size:28 final size:28
Alignment explanation
Indices: 95324294--95324403 Score: 123
Period size: 28 Copynumber: 3.9 Consensus size: 28
95324284 CTATGTACGA
* *
95324294 CACTTAGCGTGCGAGAAATTGGGTATGG
1 CACTTAGTGTGCGAGAAATTGAGTATGG
* *
95324322 CACTTAGTATGCGA-AACATTGAGAATGG
1 CACTTAGTGTGCGAGAA-ATTGAGTATGG
* * *
95324350 CACTTAATGTGCGAGATATTGAGTACGG
1 CACTTAGTGTGCGAGAAATTGAGTATGG
* *
95324378 CACTTAGTGTGCGAGATATCGAGTAT
1 CACTTAGTGTGCGAGAAATTGAGTAT
95324404 TCAACTGGCA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 2 0.03
28 65 0.96
29 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
CACTTAGTGTGCGAGAAATTGAGTATGG
Found at i:95326177 original size:24 final size:24
Alignment explanation
Indices: 95326150--95326219 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 24
95326140 GAGATATTAA
95326150 ATTAAATTTAATATTTATCTAGAT
1 ATTAAATTTAATATTTATCTAGAT
* * *
95326174 ATT-AATATGAGA--TAT-TA-A-
1 ATTAAATTTAATATTTATCTAGAT
95326192 ATTAAATTTAATATTTATCTAGAT
1 ATTAAATTTAATATTTATCTAGAT
95326216 ATTA
1 ATTA
95326220 GTATGAGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 3 0.09
19 7 0.21
20 2 0.06
21 6 0.18
22 2 0.06
23 7 0.21
24 7 0.21
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTAAATTTAATATTTATCTAGAT
Found at i:95326178 original size:42 final size:42
Alignment explanation
Indices: 95326130--95326257 Score: 213
Period size: 42 Copynumber: 3.1 Consensus size: 42
95326120 TTATTAATTA
95326130 ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
1 ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
95326172 ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
1 ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
* * * *
95326214 ATATTAGTATGAGATATTAAATTTAA-TTATTATTGATCTAG
1 ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
95326255 ATA
1 ATA
95326258 ATATTTTATT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 16 0.20
42 66 0.80
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (42 bp):
ATATTAATATGAGATATTAAATTAAATTTAATATTTATCTAG
Found at i:95326195 original size:18 final size:19
Alignment explanation
Indices: 95326126--95326196 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
95326116 TATTTTATTA
95326126 ATTAATATTAATATGAGAT
1 ATTAATATTAATATGAGAT
* * *
95326145 ATTAA-ATTAAATTTAATATTT
1 ATTAATATT-AATATGAGA--T
95326166 ATCTAGATATTAATATGAGAT
1 AT-TA-ATATTAATATGAGAT
95326187 ATTAA-ATTAA
1 ATTAATATTAA
95326197 ATTTAATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
18 8 0.20
19 12 0.30
20 2 0.05
21 6 0.15
22 2 0.05
23 7 0.17
24 3 0.08
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (19 bp):
ATTAATATTAATATGAGAT
Found at i:95328927 original size:9 final size:10
Alignment explanation
Indices: 95328911--95328939 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
95328901 TTAAGTAAAA
95328911 TAAAATTAAT
1 TAAAATTAAT
95328921 T-AAATTAAT
1 TAAAATTAAT
95328930 TAAAATTAAT
1 TAAAATTAAT
95328940 ATGATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAAATTAAT
Found at i:95329541 original size:58 final size:57
Alignment explanation
Indices: 95329406--95329525 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 57
95329396 AGTGATTATC
* * *
95329406 TTAATATTAAATTCAATTTAATATTTATCTTGTAAATAAATATTCTATTAATTTAATAGAA
1 TTAATATTAAATTTAATCTAATATTTATCTTG--AATAAATATTATATTAATTTAAT--AA
*
95329467 TTAATATTAAATTTAATCTAATATTTATCTTG-ATAAGTATTATATTAATTTAAT-A
1 TTAATATTAAATTTAATCTAATATTTATCTTGAATAAATATTATATTAATTTAATAA
95329522 TTAA
1 TTAA
95329526 ATTGATTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
55 5 0.09
58 20 0.36
61 30 0.55
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (57 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGAATAAATATTATATTAATTTAATAA
Found at i:95335196 original size:21 final size:21
Alignment explanation
Indices: 95335169--95335217 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
95335159 GTAACGCAGA
* *
95335169 TATATTTATTTTTTTTGTTCTT
1 TATATTTAGTATTTTTGTT-TT
95335191 TA-ATTTAGTATTTTTGTTTT
1 TATATTTAGTATTTTTGTTTT
95335211 TATATTT
1 TATATTT
95335218 TTCAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.17
21 18 0.75
22 2 0.08
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.73
Consensus pattern (21 bp):
TATATTTAGTATTTTTGTTTT
Found at i:95338007 original size:245 final size:245
Alignment explanation
Indices: 95337569--95338055 Score: 884
Period size: 245 Copynumber: 2.0 Consensus size: 245
95337559 TTCTTACCAT
*
95337569 TTCCGTTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTGTTTTCTTCTTTGTTAAGTTGA
1 TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTGTTTTCTTCTTTGTTAAGTTGA
* *
95337634 AATTTTATGCCACATTTTCCTGTGTTCCTGAATTGTGGCTAACTCCTCCAGGTTCGGAGTTTCAG
66 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
*
95337699 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACGTGTACATCCT
131 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
95337764 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
196 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
* *
95337814 TTCCATTTTAGGTTGTAGCATATACCCCTAATATTTCTCATTTGTTTTCTTCTTTGTTAATTTGA
1 TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTGTTTTCTTCTTTGTTAAGTTGA
95337879 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
66 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
* * *
95337944 ACAATATCCCTTGCTTGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATTTACATCCT
131 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
*
95338009 TTGATCAGCGTTGCACTTAGTGCATTCATATTCAAATGAATTCTCAG
196 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAG
95338056 AAGTGTGTAA
Statistics
Matches: 232, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
245 232 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (245 bp):
TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTGTTTTCTTCTTTGTTAAGTTGA
AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
Found at i:95348553 original size:17 final size:18
Alignment explanation
Indices: 95348533--95348566 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95348523 AAAAAAAGTT
95348533 AAAA-ATGAAAAAAAAAC
1 AAAATATGAAAAAAAAAC
*
95348550 AAAATTTGAAAAAAAAA
1 AAAATATGAAAAAAAAA
95348567 AGGATGGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAATATGAAAAAAAAAC
Found at i:95348842 original size:20 final size:19
Alignment explanation
Indices: 95348780--95348843 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
95348770 GATTTTTATA
*
95348780 TTGTTATTG-TGTTT-TTG
1 TTGTTATTGATTTTTGTTG
*
95348797 TTGTTATT-ATTATTGTTG
1 TTGTTATTGATTTTTGTTG
*
95348815 ATTTTTATTGATTTTTGTTG
1 -TTGTTATTGATTTTTGTTG
95348835 TTAGTTATT
1 TT-GTTATT
95348844 ATTGTTAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 11 0.30
18 3 0.08
19 9 0.24
20 14 0.38
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (19 bp):
TTGTTATTGATTTTTGTTG
Found at i:95348850 original size:13 final size:13
Alignment explanation
Indices: 95348832--95348859 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95348822 TTGATTTTTG
95348832 TTGTTAGTTATTA
1 TTGTTAGTTATTA
95348845 TTGTTAGTTATTA
1 TTGTTAGTTATTA
95348858 TT
1 TT
95348860 ATTGTTAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (13 bp):
TTGTTAGTTATTA
Found at i:95348858 original size:16 final size:16
Alignment explanation
Indices: 95348794--95348867 Score: 71
Period size: 16 Copynumber: 4.4 Consensus size: 16
95348784 TATTGTGTTT
95348794 TTGTT-GTTATTATTA
1 TTGTTAGTTATTATTA
* *
95348809 TTGTTGATTTTTATTGATTT
1 TTGTT-A--GTTATT-ATTA
95348829 TTGTT-GTTAGTTATTA
1 TTGTTAGTTA-TTATTA
95348845 TTGTTAGTTATTATTA
1 TTGTTAGTTATTATTA
95348861 TTGTTAG
1 TTGTTAG
95348868 GTAAAAATCC
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
15 5 0.10
16 24 0.50
17 6 0.12
19 5 0.10
20 8 0.17
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (16 bp):
TTGTTAGTTATTATTA
Found at i:95348859 original size:36 final size:35
Alignment explanation
Indices: 95348791--95348859 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 35
95348781 TGTTATTGTG
*
95348791 TTTTTGTTGTTATTATTATTGTTGATTTTTATTGA
1 TTTTTGTTGTTATTATTATTGTTGATTATTATTGA
95348826 TTTTTGTTGTTAGTTATTATTGTT-AGTTATTATT
1 TTTTTGTTGTTA-TTATTATTGTTGA-TTATTATT
95348860 ATTGTTAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 13 0.42
36 18 0.58
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.68
Consensus pattern (35 bp):
TTTTTGTTGTTATTATTATTGTTGATTATTATTGA
Found at i:95348905 original size:23 final size:26
Alignment explanation
Indices: 95348852--95348909 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
95348842 TTATTGTTAG
*
95348852 TTATTATTATTGTTAGGTAAAAATCC
1 TTATTATTATTGTTAGGTAAAAATAC
95348878 TTATTATTATTGTTA-GTAAAAA-AC
1 TTATTATTATTGTTAGGTAAAAATAC
95348902 -TATTATTA
1 TTATTATTA
95348910 GGATTGTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 8 0.26
24 1 0.03
25 7 0.23
26 15 0.48
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (26 bp):
TTATTATTATTGTTAGGTAAAAATAC
Found at i:95348915 original size:26 final size:26
Alignment explanation
Indices: 95348860--95348917 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
95348850 AGTTATTATT
* * **
95348860 ATTGTTAGGTAAAAATCCTTATTATT
1 ATTGTTAGGTAAAAAACATTATTAGG
95348886 ATTGTTA-GTAAAAAACTATTATTAGG
1 ATTGTTAGGTAAAAAAC-ATTATTAGG
95348912 ATTGTT
1 ATTGTT
95348918 GGTTATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (26 bp):
ATTGTTAGGTAAAAAACATTATTAGG
Found at i:95348963 original size:39 final size:37
Alignment explanation
Indices: 95348878--95348969 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 37
95348868 GTAAAAATCC
95348878 TTATTATTATTGTTAGTAAAAAACTATTATTAGGATTG
1 TTATTATTATTGTTAGTAAAAAACTATTATTA-GATTG
*
95348916 TTGGTTATTATTGTTAGTAAAAAATCCTAATTATT-G-TTAG
1 TT-ATTATTATTGTTAGTAAAAAA--CT-ATTATTAGATT-G
95348956 TTATTATTATTGTT
1 TTATTATTATTGTT
95348970 GATTTATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
38 2 0.04
39 33 0.70
40 4 0.09
41 2 0.04
42 6 0.13
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (37 bp):
TTATTATTATTGTTAGTAAAAAACTATTATTAGATTG
Found at i:95353343 original size:18 final size:18
Alignment explanation
Indices: 95353290--95353343 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
95353280 TCTGGCTGTG
* *
95353290 GCTCGGGCTCGGGCTCAA
1 GCTCAGGCTCGGGCTCTA
* *
95353308 GCTCAGGCTTGGGATCTA
1 GCTCAGGCTCGGGCTCTA
**
95353326 GCTGTGGCTCGGGCTCTA
1 GCTCAGGCTCGGGCTCTA
95353344 TATCCGTCAC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.11, C:0.28, G:0.37, T:0.24
Consensus pattern (18 bp):
GCTCAGGCTCGGGCTCTA
Found at i:95355600 original size:26 final size:26
Alignment explanation
Indices: 95355552--95355603 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
95355542 TTTTTTAAAA
* ** *
95355552 TATATTATTTTTGTATTTTATTTTTT
1 TATATTATTTTAGTACATAATTTTTT
95355578 TATATTATTTTAGTACATAATTTTTT
1 TATATTATTTTAGTACATAATTTTTT
95355604 AAATGTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (26 bp):
TATATTATTTTAGTACATAATTTTTT
Found at i:95355637 original size:13 final size:12
Alignment explanation
Indices: 95355552--95355633 Score: 58
Period size: 13 Copynumber: 6.6 Consensus size: 12
95355542 TTTTTTAAAA
95355552 TATATTATTTTT
1 TATATTATTTTT
*
95355564 GTATTTTATTTTTT
1 -TATATTA-TTTTT
*
95355578 TATATTATTTTAG
1 TATATTATTTT-T
* *
95355591 TACATAATTTTT
1 TATATTATTTTT
* *
95355603 TAAATGTATTATT
1 TATAT-TATTTTT
*
95355616 TA-AGTATTTTT
1 TATATTATTTTT
95355627 TATATTA
1 TATATTA
95355634 ATTTAATAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
11 8 0.15
12 12 0.23
13 28 0.53
14 5 0.09
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (12 bp):
TATATTATTTTT
Found at i:95355719 original size:151 final size:148
Alignment explanation
Indices: 95355354--95355742 Score: 622
Period size: 150 Copynumber: 2.6 Consensus size: 148
95355344 TTTTTCAGTG
95355354 ATTTTGAC-CATTTGTTGGTATTTTTTATTTTTGGATTTTATTTTTTAAAATATATTATTTTCGT
1 ATTTTGACAC-TTTGTTGGTATTTTTTATTTTTGGATTTTATTTTTTAAAATATATTATTTTCGT
*
95355418 ATTTTATTTTTTATATTATTTTAGTACATAATGTGTAATGTATTATTTAAGTGTTTTTTTATATT
65 ATTTTATTTTTTATATTATTTTAGTACATAATGTGTAATGTATTATTTAAGTGATTTTTTATATT
*
95355483 AATTTAATAAATAACCCTG
130 AATTTAATAAATAACCCTA
* * *
95355502 ATTTT-AGCACTTTGTTGGTATTTTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTTGT
1 ATTTTGA-CACTTTGTTGGTATTTTTTATTTTTGGATTTTATTTTTTAAAATATATTATTTTCGT
* *
95355566 ATTTTATTTTTTTATATTATTTTAGTACATAATTTTTTAAATGTATTATTTAAGT-ATTTTTTAT
65 ATTTTA-TTTTTTATATTATTTTAGTACATAA-TGTGT-AATGTATTATTTAAGTGATTTTTTAT
95355630 ATTAATTTAATAAATAACCCTA
127 ATTAATTTAATAAATAACCCTA
* *
95355652 ATTTTGACACTTTGTTGGCATTTTTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGT
1 ATTTTGACACTTTGTTGGTA-TTTTTTATTTTTGGATTTTATTTTTTAAAATATATTATTTTCGT
95355717 ATTTTATTTTTTATATTATTTTAGTA
65 ATTTTATTTTTTATATTATTTTAGTA
95355743 AAAAAACCAC
Statistics
Matches: 222, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
147 1 0.00
148 63 0.28
149 26 0.12
150 69 0.31
151 63 0.28
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.60
Consensus pattern (148 bp):
ATTTTGACACTTTGTTGGTATTTTTTATTTTTGGATTTTATTTTTTAAAATATATTATTTTCGTA
TTTTATTTTTTATATTATTTTAGTACATAATGTGTAATGTATTATTTAAGTGATTTTTTATATTA
ATTTAATAAATAACCCTA
Found at i:95355818 original size:15 final size:16
Alignment explanation
Indices: 95355777--95355815 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
95355767 CCAAAAAAGT
*
95355777 TTTTTTTCGTATTTTA
1 TTTTTTTCATATTTTA
95355793 TTTCTTTTCATATTTTA
1 TTT-TTTTCATATTTTA
95355810 TTTTTT
1 TTTTTT
95355816 CATTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTTTCATATTTTA
Found at i:95356362 original size:3 final size:3
Alignment explanation
Indices: 95356348--95356403 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
95356338 GTGTCGCCTC
* * *
95356348 CTT CTC CTT CTT CTT CTT C-T CTT -TT TTT CTT CTT CTC CTT CTT -TT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
95356393 CTT CTT CTT CT
1 CTT CTT CTT CT
95356404 CCTTTTATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
2 6 0.13
3 39 0.87
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:95356578 original size:17 final size:18
Alignment explanation
Indices: 95356547--95356580 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95356537 CTTCCATCCT
*
95356547 TTTTTTTTTAGATTTTTG
1 TTTTTTTTTACATTTTTG
95356565 TTTTTTTTT-CATTTTT
1 TTTTTTTTTACATTTTT
95356581 AACTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTACATTTTTG
Found at i:95361596 original size:28 final size:28
Alignment explanation
Indices: 95361556--95361612 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
95361546 GACAGCTTGG
*
95361556 CGACTCCATTGGGGACCAATAAAAGAGT
1 CGACTCCACTGGGGACCAATAAAAGAGT
95361584 CGACTCCACTGGGGACCAATAAAAGAGT
1 CGACTCCACTGGGGACCAATAAAAGAGT
95361612 C
1 C
95361613 AAGCCGTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.16
Consensus pattern (28 bp):
CGACTCCACTGGGGACCAATAAAAGAGT
Found at i:95365309 original size:18 final size:18
Alignment explanation
Indices: 95365286--95365321 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
95365276 AGTTGTCAAT
95365286 TTAGTTTTCATATGTTAA
1 TTAGTTTTCATATGTTAA
* *
95365304 TTAGTTTTTATATTTTAA
1 TTAGTTTTCATATGTTAA
95365322 CGCGTAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (18 bp):
TTAGTTTTCATATGTTAA
Found at i:95370180 original size:22 final size:23
Alignment explanation
Indices: 95370136--95370180 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
95370126 ATTGAAATAG
95370136 AGTTAATATTTATTGTTTAATGA
1 AGTTAATATTTATTGTTTAATGA
* *
95370159 AGTTAATTTTTA-TGTTTTATGA
1 AGTTAATATTTATTGTTTAATGA
95370181 TTTTGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (23 bp):
AGTTAATATTTATTGTTTAATGA
Found at i:95373620 original size:39 final size:39
Alignment explanation
Indices: 95373577--95373657 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
95373567 ATTAATTATT
95373577 TTTCACGTGTTTTTATTGATTAAGGTTATGGAGATAAAA
1 TTTCACGTGTTTTTATTGATTAAGGTTATGGAGATAAAA
95373616 TTTCACGTGTTTTTATTGATTAAGGTTATGGAGATAAAA
1 TTTCACGTGTTTTTATTGATTAAGGTTATGGAGATAAAA
95373655 TTT
1 TTT
95373658 ATAAAAGTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.46
Consensus pattern (39 bp):
TTTCACGTGTTTTTATTGATTAAGGTTATGGAGATAAAA
Found at i:95375346 original size:7 final size:7
Alignment explanation
Indices: 95375334--95375367 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
95375324 TCAAAACATA
95375334 AAAAAAT
1 AAAAAAT
*
95375341 ATAAAAT
1 AAAAAAT
95375348 -AAAAAT
1 AAAAAAT
95375354 AAAAAAT
1 AAAAAAT
95375361 AAAAAAT
1 AAAAAAT
95375368 TTTACCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:95375353 original size:13 final size:13
Alignment explanation
Indices: 95375335--95375365 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
95375325 CAAAACATAA
*
95375335 AAAAATATAAAAT
1 AAAAATAAAAAAT
95375348 AAAAATAAAAAAT
1 AAAAATAAAAAAT
95375361 AAAAA
1 AAAAA
95375366 ATTTTACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:95376252 original size:17 final size:19
Alignment explanation
Indices: 95376225--95376294 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 19
95376215 GATTAAGTTT
*
95376225 TTTTATTATA-TATTGCTA
1 TTTTATTATATTATTACTA
95376243 TTTT-TTATATTATTACTA
1 TTTTATTATATTATTACTA
95376261 TTATTATTATTATT-TTA-TA
1 TT-TTATTA-TATTATTACTA
*
95376280 TTATTATTATGTTAT
1 TT-TTATTATATTAT
95376295 ATTTAGTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.11
18 16 0.36
19 14 0.31
20 6 0.13
21 4 0.09
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATTATATTATTACTA
Found at i:95376265 original size:3 final size:3
Alignment explanation
Indices: 95376250--95376461 Score: 97
Period size: 3 Copynumber: 72.0 Consensus size: 3
95376240 CTATTTTTTA
* *
95376250 TAT TAT TAC TAT TAT TAT TAT TAT T-T TA- TAT TAT TAT TA- TGT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
95376294 TATT TAG TAT TAT TTT TAA TAT TA- TAT T-T TTT TAC TAT TA- TAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
95376337 TAC TAT TAT CT-T TGT TAT T-T TCT CTAT TAC TATT TAT TACT CTAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TA-T TAT TA-T -TAT
* * * * * * *
95376382 TTT TAA CAT TTT TAT TA- TAT TA- TAT T-T GTTT TTT TAT ATCT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT
*
95376426 TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
95376462 ATACAATATT
Statistics
Matches: 157, Mismatches: 32, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
2 21 0.13
3 122 0.78
4 12 0.08
5 2 0.01
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:95376704 original size:27 final size:27
Alignment explanation
Indices: 95376649--95376737 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
95376639 TTTTTAATAC
* *
95376649 TATATTTTTAATACCCTATGTATTG--TG
1 TATATTCTTAATA--CTATATATTGTATG
95376676 TATATTCTTAATACTATATATTGTATG
1 TATATTCTTAATACTATATATTGTATG
* *
95376703 TATTTTCTTAATAACTATATTATATGTATA
1 TATATTCTTAAT-ACTATA-TAT-TGTATG
95376733 TATAT
1 TATAT
95376738 ACTATGTACG
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
25 9 0.17
27 25 0.48
28 6 0.12
29 3 0.06
30 9 0.17
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.53
Consensus pattern (27 bp):
TATATTCTTAATACTATATATTGTATG
Found at i:95376728 original size:26 final size:26
Alignment explanation
Indices: 95376674--95376733 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
95376664 CTATGTATTG
*
95376674 TGTATATTCTTAATACTATATATTGTA
1 TGTATATTCTTAATAC-ATATATTATA
*
95376701 TGTATTTTCTTAATA-ACTATATTATA
1 TGTATATTCTTAATACA-TATATTATA
95376727 TGTATAT
1 TGTATAT
95376734 ATATACTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 14 0.48
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (26 bp):
TGTATATTCTTAATACATATATTATA
Found at i:95384850 original size:56 final size:56
Alignment explanation
Indices: 95384764--95384874 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
95384754 TGTCATGGTC
*
95384764 TTTTCATTCTCATTAAAATTTTTTCCCTCTCCTCACAGCCTGTTATTGCATATATA
1 TTTTCATTCTCATTAAAATTTTTTCCCTCTCCTCACAGCCTGTCATTGCATATATA
95384820 TTTTCATTCTCATTAAAATTTTTTCCCTCTCCTCACAGCCTGTCATTGCATATAT
1 TTTTCATTCTCATTAAAATTTTTTCCCTCTCCTCACAGCCTGTCATTGCATATAT
95384875 CTCACATCAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.23, C:0.26, G:0.05, T:0.46
Consensus pattern (56 bp):
TTTTCATTCTCATTAAAATTTTTTCCCTCTCCTCACAGCCTGTCATTGCATATATA
Found at i:95388469 original size:44 final size:44
Alignment explanation
Indices: 95388414--95388525 Score: 158
Period size: 44 Copynumber: 2.6 Consensus size: 44
95388404 AAAAGGAGGA
*
95388414 ATCAAGGTGAAAACCCGAAAAGGGCGTCTTGA-TAATAAAAAAGG
1 ATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAACAAAAAA-G
*
95388458 ATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAACACAAAAG
1 ATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAACAAAAAAG
*
95388502 AT-TAGGATGAAAACCCG-AAAGGGC
1 ATCAAGG-TGAAAACCCGAAAAGGGC
95388526 ATTCTAATGA
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
43 10 0.16
44 45 0.71
45 8 0.13
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.15
Consensus pattern (44 bp):
ATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAACAAAAAAG
Found at i:95389509 original size:73 final size:74
Alignment explanation
Indices: 95389387--95390116 Score: 406
Period size: 77 Copynumber: 9.2 Consensus size: 74
95389377 TTTCTTTTTT
* *
95389387 TTTTCAATTTCTGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCAC
95389451 ACGCTGAGGTA
64 ACGCTGAGGTA
* * * *
95389462 ATTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCAAGAGGTGAGTTGAGCCTCGGG-GCAC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACAC
95389526 GCTGAGGTA
66 GCTGAGGTA
95389535 TTTTCAATCTT-TGTTTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAAT-TTCTG----------T-T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
95389599 GCCTCGGGTCACACACTGAGGTA
53 GCCTCGGG-CACACGCTGAGGTA
* * *
95389622 TTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCTCGGCTCA
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCA
*
95389687 CATGCTGAGGTA
63 CACGCTGAGGTA
* ** * * ** * * * * *
95389699 TTTTCAGTTTCTGTTTTTC-AATTTCTATTCGTCAAAATCAACTCATATTGCGAGAGGTAAG--T
1 TTTTCAATTTCTGTTTTTCAAAAATC-A-AC-TC-ATAT-TGC-GAGA--G-GTGAGTTGAGCCT
* *
95389761 TGAGCCTCAGGACACGCTGAGGTAA
57 CG-G-----GCACACGCTGAGGT-A
* * * *
95389786 TTTT-AATTTCTGTTCTTCAAAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGT
1 TTTTCAATTTCTGTTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGG
95389850 CACA--CTGAGGTA
61 CACACGCTGAGGTA
* * * *
95389862 ATTTCAATTTCAGTTTGTCAAAAGTCAACTCATATTAG-GAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATT-GCGAGAGGTGAGTTGAGCCTCGGG-CAC
*
95389926 ATG-TCGAGGTA
64 ACGCT-GAGGTA
** * * *
95389937 TTTTCAAAATATGCTTTTCAAATTAAGTTTTAAAAACCAACTCATATTGTGAGAGGTGAGTTGAG
1 TTTTC---A-A----TTTC-TGTT---TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
95390002 CCT-TGGCTCACGTGCTGAGCTA
54 CCTCGGGCACAC--GCTGAGGTA
* * * * *
95390024 TTTTCAATTTTTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGG-AC
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCAC
*
95390088 ACGCTGAAGTA
64 ACGCTGAGGTA
95390099 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
95390117 TTCAATTTAT
Statistics
Matches: 502, Mismatches: 86, Indels: 134
0.70 0.12 0.19
Matches are distributed among these distances:
72 1 0.00
73 97 0.19
74 8 0.02
75 58 0.12
76 6 0.01
77 125 0.25
78 7 0.01
79 8 0.02
80 2 0.00
81 2 0.00
82 9 0.02
83 13 0.03
84 7 0.01
85 48 0.10
86 29 0.06
87 74 0.15
88 3 0.01
90 1 0.00
91 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACAC
GCTGAGGTA
Found at i:95389672 original size:77 final size:77
Alignment explanation
Indices: 95389566--95390116 Score: 485
Period size: 77 Copynumber: 7.0 Consensus size: 77
95389556 TTTATGTTTC
* *
95389566 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
95389631 TCTGTTTTTCAA
66 TCTGTTTTTCAA
* * * *
95389643 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCTCGGCTCACATGCTGAGGTATTTTCAGTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
95389708 TCTGTTTTTCAA
66 TCTGTTTTTCAA
* *
95389720 TTTCTATTCGTCAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGG--ACACGCTGAGG
1 -----A------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGG
*
95389783 TAATTTT-AATTTCTGTTCTTCAAAA
55 T-ATTTTCAATTTCTGTTTTTC--AA
* ** *
95389808 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACA--CTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
* *
95389871 TCAGTTTGTC--
66 TCTGTTTTTCAA
* *
95389881 AAAAGTCAACTCATATTAG-GAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAA
1 AAAAATCAACTCATATT-GCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT-GAGGTATTTTCAA
** * *
95389944 AATATGCTTTTCAAATTAA
64 TTTCTG-TTTT----TCAA
* * * * ** *
95389963 GTTTTAAAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 -----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTT
* *
95390028 CAATTTTTGCTTTTCAA
61 CAATTTCTGTTTTTCAA
* * * *
95390045 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGG--ACACGCTGAAGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
95390108 TCTGTTTTT
66 TCTGTTTTT
95390117 TTCAATTTAT
Statistics
Matches: 384, Mismatches: 55, Indels: 72
0.75 0.11 0.14
Matches are distributed among these distances:
73 40 0.10
74 2 0.01
75 39 0.10
76 7 0.02
77 160 0.42
79 3 0.01
80 1 0.00
82 4 0.01
83 1 0.00
86 27 0.07
87 61 0.16
88 39 0.10
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (77 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
TCTGTTTTTCAA
Found at i:95389764 original size:165 final size:156
Alignment explanation
Indices: 95389299--95389882 Score: 706
Period size: 165 Copynumber: 3.6 Consensus size: 156
95389289 TATTTTGATG
*
95389299 TTTT-ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTACGGCACGC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T-CGGCACGC
*
95389363 TGAGGTATTTTCAATTTCTTTTTTTTTTCAATTTCTGTGTTTCAAAAAAATCAACTCATATTGCG
64 TGAGGTATTTTCAATTTC---TGTTTTTCAATTTC--TGTTTC--AAAAATCAACTCATATTGCG
95389428 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
122 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
* * *
95389463 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCACGC
* *
95389528 TGAGGTATTTTCAATCTT-TGTTTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGT
64 TGAGGTATTTTCAAT-TTCTGTTTTTCAATTTCTGTTTCAAAAATCAACTCATATTGCGAGAGGT
* * *
95389592 GAGTTGAGCCTCGGGTCACACACTGAGGTAT
128 GAGTTGAGCCTCAGG--ACACGCTGAGGTAA
*
95389623 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCTCGGCTCAC
1 TTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CAC
* *
95389688 ATGCTGAGGTATTTTCAGTTTCTGTTTTTCAATTTCTATTCGTC-AAAATCAACTCATATTGCGA
62 --GCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTT--TCAAAAATCAACTCATATTGCGA
*
95389752 GAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAA
123 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
* * *
95389786 TTTTAATTTCTGTTCTTCAAAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTC
1 TTTTAATTTCTGTTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGC
* * * *
95389851 ACACTGAGGTAATTTCAATTTCAGTTTGTCAA
60 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
95389883 AAGTCAACTC
Statistics
Matches: 370, Mismatches: 31, Indels: 39
0.84 0.07 0.09
Matches are distributed among these distances:
158 40 0.11
160 37 0.10
162 49 0.13
163 57 0.15
164 35 0.09
165 147 0.40
166 4 0.01
167 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (156 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACGCTG
AGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTCAGGACACGCTGAGGTAA
Found at i:95390026 original size:87 final size:87
Alignment explanation
Indices: 95389887--95390281 Score: 347
Period size: 87 Copynumber: 4.6 Consensus size: 87
95389877 TGTCAAAAGT
* * *
95389887 CAACTCATATTAG-GAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAATATG
1 CAACTCATATT-GCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT-GAGCTATTTTCAAAATCTG
95389950 CTTTTCAAATTAAGTTTTAAAAAC
64 CTTTTCAAATTAAGTTTTAAAAAC
* * * ** *
95389974 CAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTTTGCT
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAAATCTGCT
*
95390039 TTTC-----AA-----AAAAAT
66 TTTCAAATTAAGTTTTAAAAAC
* * * **
95390051 CAACTCATATTGCGAGAGATGAGTTGAGTCTCAGG---ACACGCTGAAG-TATTTTCAATTTCTG
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTG-AGCTATTTTCAAAATCTG
* * * *
95390112 TTTTTTTCAATTTATATTTTTCAAAAAAT
64 --CTTTTCAAATTA-AGTTTT--AAAAAC
* *
95390141 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAATCTGC
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT-GAGCTATTTTCAAAATCTGC
*
95390205 TTTTCAAATTAAGTTTCAAAAAC
65 TTTTCAAATTAAGTTTTAAAAAC
* * * *
95390228 CAACTCATATTGCGAGAGGAGAGTGGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTT
95390282 AAATTTCTGT
Statistics
Matches: 251, Mismatches: 32, Indels: 50
0.75 0.10 0.15
Matches are distributed among these distances:
75 20 0.08
76 2 0.01
77 38 0.15
78 2 0.01
82 3 0.01
83 1 0.00
86 1 0.00
87 109 0.43
88 2 0.01
89 6 0.02
90 46 0.18
91 3 0.01
92 18 0.07
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (87 bp):
CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAAAATCTGCT
TTTCAAATTAAGTTTTAAAAAC
Found at i:95390102 original size:400 final size:400
Alignment explanation
Indices: 95389406--95390172 Score: 1069
Period size: 402 Copynumber: 1.9 Consensus size: 400
95389396 TCTGTGTTTC
* *
95389406 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATT
* * *
95389471 TCTGTTTTTCAAAAATCGACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
66 TCAGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
** * * * * * *
95389536 TTTCAATCTTTGTTTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
131 TTTCAAAATATGCTTTTCAAATTAAGTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * *
95389601 CTCGGGTCACACACTGAGGTATTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGA
196 CTCGGCTCACACACTGAGCTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGA
* * * * *
95389666 GGTGAGTTGATCCTCGGCTCACATGCTGAGGTATTTTCAGTTTCTG-TTTTTCAATTTCTATTCG
261 GATGAGTTGATCCTCGG--CACACGCTGAAGTATTTTCAATTTCTGTTTTTTCAATTTATATTCG
95389730 TC-AAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATT
324 TCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATT
95389794 TCTGTTCTTCAA
389 TCTGTTCTTCAA
* *
95389806 AAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATT
* * *
95389871 TCAGTTTGTCAAAAGTCAACTCATATTAG-GAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAG
66 TCAGTTTGTCAAAAATCAACTCATATT-GCAAGAGGTGAGTTGAGCCTCGGGGCAC--GCT-GAG
* *
95389934 GTATTTTCAAAATATGCTTTTCAAATTAAGTTTTAAAAACCAACTCATATTGTGAGAGGTGAGTT
127 GTATTTTCAAAATATGCTTTTCAAATTAAGTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTT
* *** *
95389999 GAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTTTGCTTTTCAAAAAAATCAACTCATATTGC
192 GAGCCTCGGCTCACACACTGAGCTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGC
95390064 GAGAGATGAGTTGAGT-CTCAGG-ACACGCTGAAGTATTTTCAATTTCTGTTTTTTTCAATTTAT
257 GAGAGATGAGTTGA-TCCTC-GGCACACGCTGAAGTATTTTCAATTTCTG-TTTTTTCAATTTAT
** *
95390127 ATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
319 ATTCGTC-AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTC
95390173 GGGTCACATG
Statistics
Matches: 320, Mismatches: 37, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
400 131 0.41
401 2 0.01
402 148 0.46
403 3 0.01
404 36 0.11
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (400 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATT
TCAGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
TTTCAAAATATGCTTTTCAAATTAAGTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCGGCTCACACACTGAGCTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGA
GATGAGTTGATCCTCGGCACACGCTGAAGTATTTTCAATTTCTGTTTTTTCAATTTATATTCGTC
AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
TGTTCTTCAA
Found at i:95390131 original size:16 final size:16
Alignment explanation
Indices: 95390099--95390132 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95390089 CGCTGAAGTA
* *
95390099 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
95390115 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
95390131 TT
1 TT
95390133 CAAAAAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:95390209 original size:90 final size:89
Alignment explanation
Indices: 95390024--95390357 Score: 267
Period size: 87 Copynumber: 3.8 Consensus size: 89
95390014 TGCTGAGCTA
* ** * *
95390024 TTTTCAATTTTTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGG--A
1 TTTTCAATTTATATTTTTC-AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
* * *
95390087 CACGCTGAAGTATTTTCAATTTCTG
65 CATGCTGAGGTATTTTCAAATTCTG
*
95390112 TTTTTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 ---TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGT
*
95390177 CACATG-TCGAGGTATTTTCAAAATCTG
63 CACATGCT-GAGGTATTTTCAAATTCTG
* * * * * *
95390204 CTTTTCAAATTA-A-GTTTC-AAAAACCAACTCATATTGCGAGAGGA-GAGTGGAGCCTTGGCTC
1 -TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGA-GATGAGTTGAGCCTCGGGTC
* *
95390265 ACGTGCTGAGCTATTTT-AAATTTCTG
64 ACATGCTGAGGTATTTTCAAA-TTCTG
* * * * * * * *
95390291 TTTGT-AATGTCTGTTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGATC
1 TTT-TCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGGTC
95390353 ACATG
64 ACATG
95390358 TCGAGTAGAG
Statistics
Matches: 196, Mismatches: 35, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
86 9 0.05
87 57 0.29
88 43 0.22
89 1 0.01
90 49 0.25
91 17 0.09
92 20 0.10
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (89 bp):
TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCAC
ATGCTGAGGTATTTTCAAATTCTG
Found at i:95391384 original size:13 final size:14
Alignment explanation
Indices: 95391357--95391398 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
95391347 CATATATATC
95391357 AAAACATAAAAAAAT
1 AAAA-ATAAAAAAAT
95391372 ATAAAATAAAAATAA-
1 A-AAAATAAAAA-AAT
95391387 AAAAATAAAAAA
1 AAAAATAAAAAA
95391399 TTTTACCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.04
14 10 0.40
15 9 0.36
16 5 0.20
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:95391388 original size:21 final size:22
Alignment explanation
Indices: 95391357--95391399 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
95391347 CATATATATC
*
95391357 AAAACATAAAAAAATATAAAAT
1 AAAACATAAAAAAATAAAAAAT
95391379 AAAA-ATAAAAAAATAAAAAAT
1 AAAACATAAAAAAATAAAAAAT
95391400 TTTACCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAACATAAAAAAATAAAAAAT
Done.