Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 290 of 316
Found at i:95959985 original size:5 final size:5
Alignment explanation
Indices: 95959975--95960011 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
95959965 AACAACAATA
95959975 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
95960012 CTATTTACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:95960418 original size:5 final size:5
Alignment explanation
Indices: 95960410--95960494 Score: 109
Period size: 5 Copynumber: 17.0 Consensus size: 5
95960400 TATTTATTTC
95960410 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * *
95960460 ATGATT ATAAC ATAAT -TATT ATAAT TTAAC ATAAT
1 AT-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
95960495 TAAATTTATA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
4 3 0.04
5 61 0.90
6 4 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:95963300 original size:11 final size:10
Alignment explanation
Indices: 95963287--95963326 Score: 66
Period size: 10 Copynumber: 4.2 Consensus size: 10
95963277 TTTTTTTTAT
95963287 TTTTAAAATA
1 TTTTAAAATA
95963297 TTTTAAAATA
1 TTTTAAAATA
95963307 TTTTAAAATA
1 TTTTAAAATA
95963317 --TTAAAATA
1 TTTTAAAATA
95963325 TT
1 TT
95963327 ATATTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.29
10 20 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:95963310 original size:20 final size:18
Alignment explanation
Indices: 95963287--95963326 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
95963277 TTTTTTTTAT
95963287 TTTTAAAATATTTTAAAATA
1 TTTTAAAATA--TTAAAATA
95963307 TTTTAAAATATTAAAATA
1 TTTTAAAATATTAAAATA
95963325 TT
1 TT
95963327 ATATTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTAAAATATTAAAATA
Found at i:95963384 original size:16 final size:16
Alignment explanation
Indices: 95963363--95963412 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
95963353 ATATTTAATC
95963363 ATATAATAAATTATTA
1 ATATAATAAATTATTA
95963379 ATATAATAAA-TA-TA
1 ATATAATAAATTATTA
*
95963393 AT-TTATAAATTATTTA
1 ATATAATAAATTA-TTA
95963409 ATAT
1 ATAT
95963413 TTAAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 2 0.07
16 14 0.48
17 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:95963423 original size:18 final size:19
Alignment explanation
Indices: 95963393--95963430 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
95963383 AATAAATATA
95963393 ATTTATAAATTA-TTTAAT
1 ATTTATAAATTATTTTAAT
95963411 ATTTA-AAATTTATTTTAAT
1 ATTTATAAA-TTATTTTAAT
95963430 A
1 A
95963431 AATTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 8 0.44
19 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTATAAATTATTTTAAT
Found at i:95963425 original size:29 final size:31
Alignment explanation
Indices: 95963366--95963470 Score: 77
Period size: 29 Copynumber: 3.6 Consensus size: 31
95963356 TTTAATCATA
95963366 TAATAAATTATTAATATAATAAATATAA-TT
1 TAATAAATTATTAATATAATAAATATAATTT
* *
95963396 T-ATAAATTATTTAATAT-TTAAA-ATTTATTT
1 TAATAAATTA-TTAATATAATAAATA-TAATTT
95963426 TAATAAATT-TTAA-A-AAT--A-ATAATTT
1 TAATAAATTATTAATATAATAAATATAATTT
*
95963451 TAAATAATATTATTCATATA
1 T-AATAA-ATTATTAATATA
95963471 TTATTAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
25 6 0.10
26 7 0.12
27 3 0.05
28 6 0.10
29 19 0.32
30 12 0.20
31 7 0.12
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
TAATAAATTATTAATATAATAAATATAATTT
Found at i:95963447 original size:16 final size:16
Alignment explanation
Indices: 95963426--95963459 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
95963416 AAATTTATTT
95963426 TAATAAATTTTAAA-AA
1 TAAT-AATTTTAAATAA
95963442 TAATAATTTTAAATAA
1 TAATAATTTTAAATAA
95963458 TA
1 TA
95963460 TTATTCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:95963512 original size:15 final size:15
Alignment explanation
Indices: 95963492--95963548 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
95963482 ATTCAATATT
95963492 AATATTTTAATAATA
1 AATATTTTAATAATA
*
95963507 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
95963526 AATATATTAATAATA
1 AATATTTTAATAATA
95963541 AATATTTT
1 AATATTTT
95963549 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:95969036 original size:20 final size:20
Alignment explanation
Indices: 95969007--95969072 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
95968997 TTGTTTAGAT
95969007 CAAAACTAAAATTAAGTTAA
1 CAAAACTAAAATTAAGTTAA
*
95969027 CAAAATTAAAA-T-A--T-A
1 CAAAACTAAAATTAAGTTAA
95969042 -AAAACTAAAATTAAGTTAA
1 CAAAACTAAAATTAAGTTAA
*
95969061 CAAAATTAAAAT
1 CAAAACTAAAAT
95969073 ATAAAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
14 9 0.24
15 2 0.05
16 2 0.05
18 2 0.05
19 2 0.05
20 20 0.54
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (20 bp):
CAAAACTAAAATTAAGTTAA
Found at i:95969046 original size:34 final size:34
Alignment explanation
Indices: 95969008--95969079 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
95968998 TGTTTAGATC
95969008 AAAACTAAAATTAAGTTAACAAAATTAAAATATA
1 AAAACTAAAATTAAGTTAACAAAATTAAAATATA
95969042 AAAACTAAAATTAAGTTAACAAAATTAAAATATA
1 AAAACTAAAATTAAGTTAACAAAATTAAAATATA
95969076 AAAA
1 AAAA
95969080 TTAATTAGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.25
Consensus pattern (34 bp):
AAAACTAAAATTAAGTTAACAAAATTAAAATATA
Found at i:95973923 original size:13 final size:13
Alignment explanation
Indices: 95973907--95973949 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
95973897 TTTTTCTTAT
*
95973907 TTTATTTTGTTTA
1 TTTATTTTATTTA
95973920 TTTATTTTATTTA
1 TTTATTTTATTTA
* *
95973933 TTTTTTGTTATTAA
1 TTTATT-TTATTTA
95973947 TTT
1 TTT
95973950 TAAAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:95973944 original size:10 final size:9
Alignment explanation
Indices: 95973903--95973936 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
95973893 ATATTTTTTC
95973903 TTATTTTAT
1 TTATTTTAT
95973912 TT-TGTTTAT
1 TTAT-TTTAT
95973921 TTATTTTAT
1 TTATTTTAT
95973930 TTATTTT
1 TTATTTT
95973937 TTGTTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:95974017 original size:21 final size:22
Alignment explanation
Indices: 95973979--95974023 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
95973969 ATTTGAAATG
95973979 TTTTATAATATATATTTTTAAAA
1 TTTTATAATATATA-TTTTAAAA
95974002 TTTTA-AATAT-TATTTTAAAA
1 TTTTATAATATATATTTTAAAA
95974022 TT
1 TT
95974024 ATTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 5 0.23
23 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTATAATATATATTTTAAAA
Found at i:95974030 original size:13 final size:13
Alignment explanation
Indices: 95974009--95974071 Score: 57
Period size: 13 Copynumber: 5.1 Consensus size: 13
95973999 AAATTTTAAA
95974009 TATTATTTTAAAAT
1 TATT-TTTTAAAAT
95974023 TATTTTTT-AAA-
1 TATTTTTTAAAAT
95974034 -A--TTTTAAATAT
1 TATTTTTTAAA-AT
95974045 ATATTTTTT-AAAT
1 -TATTTTTTAAAAT
95974058 TATTTTTTAAAAT
1 TATTTTTTAAAAT
95974071 T
1 T
95974072 TTAAATATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 17
0.71 0.00 0.29
Matches are distributed among these distances:
8 4 0.10
9 2 0.05
10 2 0.05
12 11 0.27
13 12 0.29
14 6 0.15
15 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTTTTAAAAT
Found at i:95974037 original size:21 final size:23
Alignment explanation
Indices: 95974013--95974056 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
95974003 TTTAAATATT
95974013 ATTTTAAA-AT-TATTTTTTAAA
1 ATTTTAAATATATATTTTTTAAA
95974034 ATTTTAAATATATATTTTTTAAA
1 ATTTTAAATATATATTTTTTAAA
95974057 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.38
22 2 0.10
23 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTTAAATATATATTTTTTAAA
Found at i:95974065 original size:35 final size:34
Alignment explanation
Indices: 95973979--95974090 Score: 172
Period size: 35 Copynumber: 3.2 Consensus size: 34
95973969 ATTTGAAATG
95973979 TTTTATAATATATATTTTTAAAATTTTAAATATTA-T
1 TTTTA-AAT-TAT-TTTTTAAAATTTTAAATATTATT
*
95974015 TTTAAAATTATTTTTTAAAATTTTAAATATATATT
1 TTTTAAATTATTTTTTAAAATTTTAAATAT-TATT
95974050 TTTTAAATTATTTTTTAAAATTTTAAATATTATT
1 TTTTAAATTATTTTTTAAAATTTTAAATATTATT
95974084 TTTTAAA
1 TTTTAAA
95974091 AAATTAAATA
Statistics
Matches: 72, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
33 19 0.26
34 16 0.22
35 33 0.46
36 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TTTTAAATTATTTTTTAAAATTTTAAATATTATT
Found at i:95974072 original size:22 final size:22
Alignment explanation
Indices: 95974056--95974109 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
95974046 TATTTTTTAA
95974056 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATTTTAAAT
**
95974078 ATTATTTTTTAAAAAATTAAAT
1 ATTATTTTTTAAAATTTTAAAT
95974100 ATATATTTTT
1 AT-TATTTTT
95974110 AATAATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATTTTTTAAAATTTTAAAT
Found at i:95974086 original size:13 final size:12
Alignment explanation
Indices: 95974002--95974091 Score: 59
Period size: 12 Copynumber: 7.7 Consensus size: 12
95973992 ATTTTTAAAA
95974002 TTTTAAATATTA-
1 TTTTAAA-ATTAT
95974014 TTTTAAAATTAT
1 TTTTAAAATTAT
*
95974026 TTTTTAAA--A-
1 TTTTAAAATTAT
95974035 TTTTAAATATATAT
1 TTTTAAA-AT-TAT
*
95974049 TTTTTAAATTAT
1 TTTTAAAATTAT
*
95974061 TTTTTAAA--A-
1 TTTTAAAATTAT
95974070 TTTTAAATATTATT
1 TTTTAAA-ATTA-T
95974084 TTTTAAAA
1 TTTTAAAA
95974092 AATTAAATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 21
0.72 0.05 0.24
Matches are distributed among these distances:
9 12 0.19
10 4 0.06
11 4 0.06
12 26 0.41
13 4 0.06
14 13 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:95974387 original size:20 final size:21
Alignment explanation
Indices: 95974362--95974414 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
95974352 AAATATTATT
95974362 AAAAATATACTTA-ATATTTA-
1 AAAAATATACTTACA-ATTTAG
*
95974382 AAAAATAATATTTACAATTTAG
1 AAAAAT-ATACTTACAATTTAG
95974404 AAAAAT-TACTT
1 AAAAATATACTT
95974415 TCAAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 10 0.36
21 11 0.39
22 7 0.25
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAAATATACTTACAATTTAG
Found at i:95974421 original size:35 final size:35
Alignment explanation
Indices: 95974377--95974515 Score: 160
Period size: 36 Copynumber: 4.0 Consensus size: 35
95974367 TATACTTAAT
* *
95974377 ATTTAAAAAATA-ATATTTACAA-TTTAGAAAAATTA
1 ATTTCAAAAATATATATTTAAAATTTTA-AAAAA-TA
* * * *
95974412 CTTTCAAAAATATATTTTTAAAATTTATAAGAAACA
1 ATTTCAAAAATATATATTTAAAATTT-TAAAAAATA
95974448 ATTTCAAAAATATATATTTAAAATTTTAAAAAATA
1 ATTTCAAAAATATATATTTAAAATTTTAAAAAATA
*
95974483 ATTT-TAAAATA-ATATTTAAAATTTTAAAAAATA
1 ATTTCAAAAATATATATTTAAAATTTTAAAAAATA
95974516 TATTATAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
33 22 0.24
34 6 0.07
35 21 0.23
36 33 0.37
37 6 0.07
38 2 0.02
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (35 bp):
ATTTCAAAAATATATATTTAAAATTTTAAAAAATA
Found at i:95974472 original size:22 final size:21
Alignment explanation
Indices: 95974447--95974492 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
95974437 TATAAGAAAC
95974447 AATTTC-AAAAATATATATTTAA
1 AATTTCAAAAAATA-AT-TTTAA
*
95974469 AATTTTAAAAAATAATTTTAA
1 AATTTCAAAAAATAATTTTAA
95974490 AAT
1 AAT
95974493 AATATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 7 0.32
23 7 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTCAAAAAATAATTTTAA
Found at i:95974485 original size:13 final size:14
Alignment explanation
Indices: 95974469--95974504 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
95974459 ATATATTTAA
95974469 AATTTTAAAA-AAT
1 AATTTTAAAATAAT
95974482 AATTTTAAAATAAT
1 AATTTTAAAATAAT
95974496 -A-TTTAAAAT
1 AATTTTAAAAT
95974505 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.36
13 11 0.50
14 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTTTAAAATAAT
Found at i:95974512 original size:21 final size:21
Alignment explanation
Indices: 95974482--95974525 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
95974472 TTTAAAAAAT
95974482 AATTTT-AAAATAATATT-TAA
1 AATTTTAAAAAT-ATATTATAA
95974502 AATTTTAAAAAATATATTATAA
1 AATTTT-AAAAATATATTATAA
95974524 AA
1 AA
95974526 CATTTCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 5 0.24
22 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTTAAAAATATATTATAA
Found at i:95974586 original size:13 final size:13
Alignment explanation
Indices: 95974554--95974609 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 13
95974544 CAAATTTTTA
* *
95974554 AAATTAATAACAAG
1 AAATAAATAA-AAT
95974568 AAATAAATAAAAT
1 AAATAAATAAAAT
*
95974581 AAATAAACAAAAT
1 AAATAAATAAAAT
95974594 AAATAAAATAAAAT
1 AAAT-AAATAAAAT
95974608 AA
1 AA
95974610 GAAAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
13 18 0.49
14 19 0.51
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:95974624 original size:9 final size:8
Alignment explanation
Indices: 95974572--95974634 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 8
95974562 AACAAGAAAT
95974572 AAATAAAA
1 AAATAAAA
95974580 TAAATAAACA
1 -AAATAAA-A
95974590 AAATAAATA
1 AAATAAA-A
95974599 AAATAAAA
1 AAATAAAA
* *
95974607 TAAGAAAA
1 AAATAAAA
95974615 AAATATAAA
1 AAATA-AAA
**
95974624 ACTTAAAA
1 AAATAAAA
95974632 AAA
1 AAA
95974635 ATTAAAGAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
8 14 0.33
9 28 0.65
10 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (8 bp):
AAATAAAA
Found at i:95975725 original size:23 final size:22
Alignment explanation
Indices: 95975699--95975758 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
95975689 AAATGCCTCT
** *
95975699 AAAATAGTAATAAAATTAACAAG
1 AAAATAGTAA-AAAAACAACAAA
* * *
95975722 AAAATAATAACAAAACAATAAA
1 AAAATAGTAAAAAAACAACAAA
95975744 AAAATAGTAAAAAAA
1 AAAATAGTAAAAAAA
95975759 AGCAACTGTC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAATAGTAAAAAAACAACAAA
Found at i:95984307 original size:31 final size:31
Alignment explanation
Indices: 95984272--95984332 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
95984262 AATAATACAT
**
95984272 TGACTTAAAT-AAAATCTTTTGAATAATTTAG
1 TGACTTAAATGAAAA-CTTTCAAATAATTTAG
95984303 TGACTTAAATGAAAACTTTCAAATAATTTA
1 TGACTTAAATGAAAACTTTCAAATAATTTA
95984333 CCAAATTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTCAAATAATTTAG
Found at i:95987604 original size:28 final size:28
Alignment explanation
Indices: 95987573--95987629 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
95987563 AGATTATGTT
95987573 ACCAAAATTTACCAACACAAAATAAGAC
1 ACCAAAATTTACCAACACAAAATAAGAC
* * *
95987601 ACCAAAATTTACCCACACAAGATATGAC
1 ACCAAAATTTACCAACACAAAATAAGAC
95987629 A
1 A
95987630 AATTTTTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (28 bp):
ACCAAAATTTACCAACACAAAATAAGAC
Found at i:95990240 original size:2 final size:2
Alignment explanation
Indices: 95990233--95990265 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
95990223 AGTGAGAATC
95990233 AT AT AT AT AT AT AT AT CAT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
95990266 GCAACTCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95990252 original size:17 final size:17
Alignment explanation
Indices: 95990230--95990265 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
95990220 TTGAGTGAGA
95990230 ATCATATATATATATAT
1 ATCATATATATATATAT
95990247 ATCATATATATATATAT
1 ATCATATATATATATAT
95990264 AT
1 AT
95990266 GCAACTCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATCATATATATATATAT
Found at i:95990255 original size:15 final size:15
Alignment explanation
Indices: 95990235--95990263 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
95990225 TGAGAATCAT
95990235 ATATATATATATATC
1 ATATATATATATATC
95990250 ATATATATATATAT
1 ATATATATATATAT
95990264 ATGCAACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATATATATATC
Found at i:95994023 original size:21 final size:21
Alignment explanation
Indices: 95993991--95994031 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
95993981 AGGCTCGAGG
95993991 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
95994012 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
95994032 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:96001891 original size:131 final size:129
Alignment explanation
Indices: 96001656--96001985 Score: 484
Period size: 131 Copynumber: 2.6 Consensus size: 129
96001646 CTATTCATTC
* * * *
96001656 AAAAATGCTTTAAAACGAAGGCAACGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCGTG
1 AAAAATTC-TTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
* **
96001721 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTGGAATTTCACTCATGTCTT
65 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCAAATATTCCTTTAAAATTTCACTCATGT-TT
96001786 T
129 T
* *
96001787 AAAAATTCTTCAAAACGAAGGAAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCTTATCGTG
1 AAAAATTCTT-AAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
*
96001852 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAAAATTTCACTCATGTTTT
65 CTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCAAATATTCCTTTAAAATTTCACTCATGTTTT
** * * *
96001917 CTAAATT-TTAAAA-GAAGGCAATGTTCAATGTTTGGAAATTTGGGGAATCGTGCCCTACCGTGC
1 AAAAATTCTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGC
96001980 TGGGTT
66 TGGGTT
96001986 TCGATTTTTC
Statistics
Matches: 181, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
127 51 0.28
128 4 0.02
129 2 0.01
130 10 0.06
131 114 0.63
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (129 bp):
AAAAATTCTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGC
TGGGTTGCAATTTCCCGTTTGCTCAAAATAATCAAATATTCCTTTAAAATTTCACTCATGTTTT
Found at i:96003917 original size:42 final size:41
Alignment explanation
Indices: 96003839--96003918 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 41
96003829 ATGCAGGGGA
* * *
96003839 CACACGGTCTATCAACATGCTCGTGTGCAAGCCGTGTGTCT
1 CACACGGTCTATCAACACGCCCGTGGGCAAGCCGTGTGTCT
96003880 CACACGGTCTGATC-ACACGCCCGTGGGACAAGCCGTGTG
1 CACACGGTCT-ATCAACACGCCCGTGGG-CAAGCCGTGTG
96003919 GACTCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 20 0.59
42 14 0.41
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.21
Consensus pattern (41 bp):
CACACGGTCTATCAACACGCCCGTGGGCAAGCCGTGTGTCT
Found at i:96005655 original size:30 final size:30
Alignment explanation
Indices: 96005621--96005678 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
96005611 CTGTTTCTTA
* *
96005621 CTTTTGTTTC-TTTATTCTTTTTTATTATTT
1 CTTTTATTTCTTTTATT-TATTTTATTATTT
96005651 CTTTTATTTCTTTTATTTATTTTATTAT
1 CTTTTATTTCTTTTATTTATTTTATTAT
96005679 ATTATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.76
Consensus pattern (30 bp):
CTTTTATTTCTTTTATTTATTTTATTATTT
Found at i:96005659 original size:9 final size:9
Alignment explanation
Indices: 96005645--96005676 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
96005635 TTCTTTTTTA
96005645 TTATTTCTT
1 TTATTTCTT
96005654 TTATTTCTT
1 TTATTTCTT
*
96005663 TTATTTATT
1 TTATTTCTT
96005672 TTATT
1 TTATT
96005677 ATATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTCTT
Found at i:96005664 original size:22 final size:21
Alignment explanation
Indices: 96005627--96005672 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
96005617 CTTACTTTTG
96005627 TTTCTTTATTCTTTTT-TATTA
1 TTTCTTTATTCTTTTTAT-TTA
96005648 TTTCTTTTATT-TCTTTTATTTA
1 TTTC-TTTATTCT-TTTTATTTA
96005670 TTT
1 TTT
96005673 TATTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 5 0.23
22 16 0.73
23 1 0.05
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTCTTTATTCTTTTTATTTA
Found at i:96005712 original size:20 final size:18
Alignment explanation
Indices: 96005674--96005712 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
96005664 TATTTATTTT
*
96005674 ATTATATTATATTTTTTA
1 ATTATATTATATTTCTTA
96005692 ATTATAATTATTATTTCTTA
1 ATTAT-ATTA-TATTTCTTA
96005712 A
1 A
96005713 AAAATAAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATTATATTTCTTA
Found at i:96020651 original size:15 final size:15
Alignment explanation
Indices: 96020631--96020663 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
96020621 TGGTTAATTG
*
96020631 TAATTAAGGTTTAAT
1 TAATTAAAGTTTAAT
96020646 TAATTAAAGTTTAAT
1 TAATTAAAGTTTAAT
96020661 TAA
1 TAA
96020664 GTGATTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (15 bp):
TAATTAAAGTTTAAT
Found at i:96029583 original size:6 final size:6
Alignment explanation
Indices: 96029572--96029614 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
96029562 CGAAGGTATG
*
96029572 AGATGA AGATGA AGATGA AGATGA AGATGG AGATGA AGATGA A
1 AGATGA AGATGA AGATGA AGATGA AGATGA AGATGA AGATGA A
96029615 AGTGGAGGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
AGATGA
Found at i:96029716 original size:27 final size:27
Alignment explanation
Indices: 96029686--96029757 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
96029676 ATTTTCCAGT
* *
96029686 AGGCTTGGTGAGTAGGGGTTCGCTAGA
1 AGGCTTGGTGAGCAGGGGTTCACTAGA
* * *
96029713 AGGCTTAGTGAGCAGGGGTTTATTAGA
1 AGGCTTGGTGAGCAGGGGTTCACTAGA
96029740 AGGCTTGGTGAGCAGGGG
1 AGGCTTGGTGAGCAGGGG
96029758 GTTTTCCAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.10, G:0.44, T:0.25
Consensus pattern (27 bp):
AGGCTTGGTGAGCAGGGGTTCACTAGA
Found at i:96031829 original size:19 final size:17
Alignment explanation
Indices: 96031792--96031830 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
96031782 TTACAATGCG
*
96031792 AATATTTGAATTTATTA
1 AATATTTGAATTTAGTA
96031809 AATATTTGAAATTTTAGTA
1 AATATTTG-AA-TTTAGTA
96031828 AAT
1 AAT
96031831 TTTTATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (17 bp):
AATATTTGAATTTAGTA
Found at i:96031874 original size:27 final size:28
Alignment explanation
Indices: 96031844--96031897 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
96031834 TATAGTTTTT
96031844 TTGTAA-TTTTAT-ATTTTTAATATATTA
1 TTGTAATTTTTATCATTTTTAA-ATATTA
*
96031871 TTGTAATTTTTTTCATTTTTAAATATT
1 TTGTAATTTTTATCATTTTTAAATATT
96031898 TTTATTAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 10 0.42
29 8 0.33
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (28 bp):
TTGTAATTTTTATCATTTTTAAATATTA
Found at i:96037054 original size:16 final size:16
Alignment explanation
Indices: 96037019--96037057 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
96037009 TGAATTACTT
* *
96037019 ATTACAGCTCTATTTA
1 ATTACAGCCCTATTCA
*
96037035 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
96037051 ATTACAG
1 ATTACAG
96037058 TGAACCAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:96039416 original size:76 final size:76
Alignment explanation
Indices: 96039299--96039439 Score: 189
Period size: 76 Copynumber: 1.9 Consensus size: 76
96039289 TGTATTTTAC
* *
96039299 ATCAATAATATACTCATTTACAATCTACGAAAAAAATT-AAAAATTTT-TTTGTGTTGTATTCTA
1 ATCAATAATATACTCATTTACAATCTACGAAAAAAATTAAAAAATTTTGTTTATATTGTATTCTA
96039362 TTGCATCGAAT
66 TTGCATCGAAT
** *
96039373 ATCAATAATATAAACTTGTTTACAATCTATGAAAAAGAA-TAAAAAATTTTGTTTATATTGTATT
1 ATCAATAATAT--ACTCATTTACAATCTACGAAAAA-AATTAAAAAATTTTGTTTATATTGTATT
96039437 CTA
63 CTA
96039440 CTATATATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
74 11 0.19
76 21 0.37
77 11 0.19
78 14 0.25
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (76 bp):
ATCAATAATATACTCATTTACAATCTACGAAAAAAATTAAAAAATTTTGTTTATATTGTATTCTA
TTGCATCGAAT
Found at i:96040504 original size:27 final size:27
Alignment explanation
Indices: 96040482--96040820 Score: 308
Period size: 27 Copynumber: 12.6 Consensus size: 27
96040472 TTAGTTTACT
*
96040482 AAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* ** * *
96040509 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
96040536 AAATCACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* **
96040563 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
96040590 AAATTACCAAAATATCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * ** * *
96040617 AAATTACTAAAATATCATTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
96040644 AAATTACC-AAATACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
96040670 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
96040697 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
96040724 AAATTACCAAAATATCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
** * **
96040751 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
** * *
96040778 AAATTATTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
96040805 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
96040821 ATTGATTTAC
Statistics
Matches: 261, Mismatches: 47, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
26 25 0.10
27 235 0.90
28 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:96040549 original size:54 final size:54
Alignment explanation
Indices: 96040482--96040737 Score: 343
Period size: 54 Copynumber: 4.8 Consensus size: 54
96040472 TTAGTTTACT
* *
96040482 AAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* * * * * *
96040536 AAATCACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* * * *
96040590 AAATTACCAAAATATCCCTAGTTTGTAAAATTACTAAAATATCATTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* * ** *
96040644 AAATTACC-AAATACTCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
*
96040697 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA
96040738 TCCCTGATTT
Statistics
Matches: 172, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 43 0.25
54 129 0.75
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
Found at i:96040716 original size:107 final size:107
Alignment explanation
Indices: 96040473--96040739 Score: 394
Period size: 107 Copynumber: 2.5 Consensus size: 107
96040463 TAGAATACTT
* *
96040473 TAGTTTACTAAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAAA
1 TAGTTTACAAAATTAC-AAAATACCCCTAGTTTGTAAAATTACTAAAATATCATTGGTTTATAAA
*
96040538 ATCACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCT
65 ATCACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCC
* *
96040581 TAGTTTACAAAATTACCAAAATATCCCTAGTTTGTAAAATTACTAAAATATCATTTGTTTATAAA
1 TAGTTTACAAAATTA-CAAAATACCCCTAGTTTGTAAAATTACTAAAATATCATTGGTTTATAAA
*
96040646 ATTACC-AAATACTC-CTGGTTTGTAAAATTACCAAAATACCCC
65 ATCACCAAAATAC-CACTGGTTTGTAAAATTACCAAAATACCCC
* ** *
96040688 TGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATC
1 TAGTTTACAAAATTA-CAAAATACCCCTAGTTTGTAAAATTACTAAAATATC
96040740 CCTGATTTGT
Statistics
Matches: 145, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
107 79 0.54
108 65 0.45
109 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (107 bp):
TAGTTTACAAAATTACAAAATACCCCTAGTTTGTAAAATTACTAAAATATCATTGGTTTATAAAA
TCACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCC
Found at i:96040719 original size:134 final size:135
Alignment explanation
Indices: 96040482--96040766 Score: 387
Period size: 134 Copynumber: 2.1 Consensus size: 135
96040472 TTAGTTTACT
* * *
96040482 AAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAAAATCACCAAA
1 AAATTACTAAAATACCACTAGTTTATAAAATTACTAAAATACCACTGGTTTATAAAATCACCAAA
*
96040547 ATACCACTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATATCCCT-AG
66 ATACCACTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATATCCCTGA-
96040611 TTTGTA
130 TTTGTA
* * * * * *
96040617 AAATTACTAAAATATCATTTGTTTATAAAATTAC-CAAATACTC-CTGGTTTGTAAAATTACCAA
1 AAATTACTAAAATACCACTAGTTTATAAAATTACTAAAATAC-CACTGGTTTATAAAATCACCAA
* * **
96040680 AATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTGA
65 AATACCACTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATATCCCTGA
*
96040745 TTTGTG
130 TTTGTA
*
96040751 AAATTACTGAAATACC
1 AAATTACTAAAATACC
96040767 CTCGACCTGT
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
134 100 0.76
135 31 0.24
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (135 bp):
AAATTACTAAAATACCACTAGTTTATAAAATTACTAAAATACCACTGGTTTATAAAATCACCAAA
ATACCACTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATATCCCTGAT
TTGTA
Found at i:96040894 original size:27 final size:27
Alignment explanation
Indices: 96040864--96041052 Score: 254
Period size: 27 Copynumber: 7.0 Consensus size: 27
96040854 TTACAAAATC
* *
96040864 ACCGAAATACCCTTATAGGGTAGAAAT
1 ACCGAAATACCCTTGTAGGGTAGAATT
96040891 ACCGAAATACCCTTGTAGGGTAGAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
* *
96040918 ACTGAAATACCCCTGTAGGGTAGAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
* *
96040945 ACCGGAATACCCCTGTAGGGTAGAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
*
96040972 ACCGGAATACCCTTGTAGGGTAGAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
* * *
96040999 ACCGAAATACCCCTGTAGGATGGAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
* * *
96041026 ACCGAGATA-CCTTGTGGGGTAAAATT
1 ACCGAAATACCCTTGTAGGGTAGAATT
96041052 A
1 A
96041053 TCATTTTGCC
Statistics
Matches: 145, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 13 0.09
27 132 0.91
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (27 bp):
ACCGAAATACCCTTGTAGGGTAGAATT
Found at i:96041533 original size:22 final size:22
Alignment explanation
Indices: 96041481--96041545 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
96041471 TTAAAGCCTT
* *
96041481 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
96041503 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
96041525 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
96041546 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:96041761 original size:27 final size:27
Alignment explanation
Indices: 96041703--96041805 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
96041693 TATTCTGTTA
* * * * *
96041703 AGTGGCTTTGCCATATTATCTGTTTTT
1 AGTGGCTCTGCCACAATATCTGTATCT
* *
96041730 GGTGGCTATGCCACAAATATCTGT-TCT
1 AGTGGCTCTGCCAC-AATATCTGTATCT
96041757 AGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGTATCT
* * *
96041784 GGTGACTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTG
96041806 ATAACTGAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 9 0.14
27 47 0.73
28 8 0.12
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTGTATCT
Found at i:96041761 original size:54 final size:53
Alignment explanation
Indices: 96041703--96041805 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 53
96041693 TATTCTGTTA
* * * * * *
96041703 AGTGGCTTTGCCATATTATCTGTTTTTGGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTGTTCT
* *
96041757 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTG
96041806 ATAACTGAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (53 bp):
AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTCT
Found at i:96041996 original size:24 final size:24
Alignment explanation
Indices: 96041943--96042004 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
96041933 TCACATTCTG
*
96041943 GTTT-TGATTCTGTTACCTGATACT
1 GTTTCTGATTCTGTTA-CTGATAAT
*
96041967 GATTCTGATTCTAGTT-CTGATAAT
1 GTTTCTGATTCT-GTTACTGATAAT
*
96041991 GTTTCTTATTCTGT
1 GTTTCTGATTCTGT
96042005 AATGGGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 2 0.06
24 20 0.62
25 7 0.22
26 3 0.09
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.52
Consensus pattern (24 bp):
GTTTCTGATTCTGTTACTGATAAT
Found at i:96043722 original size:19 final size:20
Alignment explanation
Indices: 96043700--96043738 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
96043690 TGTGTATATA
96043700 TACCTT-TGTAAAGTATCGG
1 TACCTTATGTAAAGTATCGG
96043719 TACCTTAATGTAAAGTATCG
1 TACCTT-ATGTAAAGTATCG
96043739 ATACTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (20 bp):
TACCTTATGTAAAGTATCGG
Found at i:96044878 original size:22 final size:22
Alignment explanation
Indices: 96044824--96044868 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
96044814 ACATAAATCT
* *
96044824 TAAGCAAAGAGTACTGAAGTGC
1 TAAGCAGAGAGAACTGAAGTGC
96044846 TAAGCAGAGAGAACTGAAGTGC
1 TAAGCAGAGAGAACTGAAGTGC
96044868 T
1 T
96044869 GAATAGAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.18
Consensus pattern (22 bp):
TAAGCAGAGAGAACTGAAGTGC
Found at i:96046771 original size:10 final size:10
Alignment explanation
Indices: 96046750--96046784 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
96046740 TCTATTTCAC
*
96046750 CATTTCTATT
1 CATTTCTGTT
*
96046760 CATTTTTGTT
1 CATTTCTGTT
96046770 CATTTCTGTT
1 CATTTCTGTT
96046780 CATTT
1 CATTT
96046785 GATTCAACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.14, C:0.17, G:0.06, T:0.63
Consensus pattern (10 bp):
CATTTCTGTT
Found at i:96050942 original size:42 final size:42
Alignment explanation
Indices: 96050889--96051008 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 42
96050879 AGGATTACTG
* * **
96050889 AGATTATGTGTAAGACCATATTTGGGATATGGCATCGATATG
1 AGATTACGTGTAAGACCATATATGGGATATGGCATCGATACA
* *
96050931 AGACTT-CGTGTAAGACCATAGATGGGCTATTGGCATCGATACA
1 AGA-TTACGTGTAAGACCATATATGGGATA-TGGCATCGATACA
** * *
96050974 AGATTATATATAAGACCATATCTGGGATATGGCAT
1 AGATTACGTGTAAGACCATATATGGGATATGGCAT
96051009 TAGTACGGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATATGGGATATGGCATCGATACA
Found at i:96057924 original size:49 final size:48
Alignment explanation
Indices: 96057861--96057963 Score: 129
Period size: 49 Copynumber: 2.1 Consensus size: 48
96057851 GGTTATACAT
* * *
96057861 TCACGGGTTTAAGTATAACT-AGAG-CTCCTAGTTGACGATGGTTATGTG
1 TCACGGGTTGAAGTATAACTCAG-GCCT-CAAGTTGACGATGGTTATGCG
*
96057909 ATCACGGGTTGAAGTATAACTCAGGCCTCAAGTTGACGGTGGTTATGCG
1 -TCACGGGTTGAAGTATAACTCAGGCCTCAAGTTGACGATGGTTATGCG
96057958 TCACGG
1 TCACGG
96057964 ATTCAAGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
48 6 0.12
49 38 0.79
50 4 0.08
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (48 bp):
TCACGGGTTGAAGTATAACTCAGGCCTCAAGTTGACGATGGTTATGCG
Found at i:96067493 original size:17 final size:16
Alignment explanation
Indices: 96067444--96067492 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
96067434 AGTCCATTTA
*
96067444 TTTTTACTTTATTTTG
1 TTTTTATTTTATTTTG
* *
96067460 TTTTTCCTTTTCCTTTTG
1 TTTTT-ATTTT-ATTTTG
96067478 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
96067493 TATTTCTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 9 0.35
17 7 0.27
18 10 0.38
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.78
Consensus pattern (16 bp):
TTTTTATTTTATTTTG
Found at i:96071532 original size:27 final size:27
Alignment explanation
Indices: 96071502--96071554 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
96071492 ATAATTAAAG
96071502 ACAAATGAAA-TAAAATAATATAAAAAA
1 ACAAATGAAAGT-AAATAATATAAAAAA
* *
96071529 ACAATTTAAAGTAAATAATATAAAAA
1 ACAAATGAAAGTAAATAATATAAAAA
96071555 GGTTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (27 bp):
ACAAATGAAAGTAAATAATATAAAAAA
Found at i:96071575 original size:26 final size:25
Alignment explanation
Indices: 96071509--96071979 Score: 339
Period size: 26 Copynumber: 18.1 Consensus size: 25
96071499 AAGACAAATG
*
96071509 AAATAAAATAATATAAAAAAACAATTTA
1 AAAT-AAATAATAT-ATAAAA-AATTTA
* **
96071537 AAGTAAATAATATA-AAAAGGTTTA
1 AAATAAATAATATATAAAAAATTTA
96071561 AAATAAATAATATATGAAAAAAATTTA
1 AAATAAATAATATAT--AAAAAATTTA
*
96071588 AAATAAATAATACA-AAAAAATGGTTCA
1 AAATAAATAATATATAAAAAAT--TT-A
* *
96071615 AAATAAACAATATATGAAAAAAAATTA
1 AAATAAATAATATAT--AAAAAATTTA
* * *
96071642 ACAA-AATATAATATA-AAACAGTTTG
1 A-AATAA-ATAATATATAAAAAATTTA
*
96071667 AAATAAATAAT-T-TAAAGCAATTTA
1 AAATAAATAATATATAAA-AAATTTA
* * * *
96071691 AAATAAACAACACATAAAACAGTTTA
1 AAATAAATAATATATAAAA-AATTTA
* * *
96071717 AAAGAAATAATATGTGAAAAAAAATCTA
1 AAATAAATAATA--T-ATAAAAAATTTA
*
96071745 AAATAAATAATATATATAATACAGTTTA
1 AAATAAATAATATATA-AA-A-AATTTA
* *
96071773 AAATAAAATAATATATAAAGCAATTCA
1 AAAT-AAATAATATATAAA-AAATTTA
*
96071800 AAATAAATAATATATGAAACAATTTA
1 AAATAAATAATATAT-AAAAAATTTA
*
96071826 AAATAAATAATATCTAAAACAATTTA
1 AAATAAATAATATATAAAA-AATTTA
* * *
96071852 AAATAGATAATATA-AAACAGTTTA
1 AAATAAATAATATATAAAAAATTTA
*
96071876 ATATAAATAATATATAAAAAATTTA
1 AAATAAATAATATATAAAAAATTTA
* * *
96071901 AAATAAATAAAATATAAAACCATTAA
1 AAATAAATAATATATAAAA-AATTTA
*
96071927 AAATAAATAGTATATAAAAAATTTA
1 AAATAAATAATATATAAAAAATTTA
* *
96071952 AAA-AGAATAAGTAAATAACAAA-TTA
1 AAATA-AATAA-TATATAAAAAATTTA
96071977 AAA
1 AAA
96071980 GGATAAAATC
Statistics
Matches: 354, Mismatches: 59, Indels: 63
0.74 0.12 0.13
Matches are distributed among these distances:
23 4 0.01
24 63 0.18
25 63 0.18
26 103 0.29
27 59 0.17
28 39 0.11
29 17 0.05
30 6 0.02
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (25 bp):
AAATAAATAATATATAAAAAATTTA
Found at i:96071713 original size:50 final size:52
Alignment explanation
Indices: 96071509--96071954 Score: 421
Period size: 51 Copynumber: 8.6 Consensus size: 52
96071499 AAGACAAATG
* * *
96071509 AAATAAAATAATATAAAAAAACAATTTAAAGTAAATAATATA-AAAA-GGTTTA
1 AAAT-AAATAATAT-ATAAAACAATTTAAAATAAATAATATATAAAACAGTTTA
* * * *
96071561 AAATAAATAATATATGAAAAAAATTTAAAATAAATAATACA-AAAAAATGGTTCA
1 AAATAAATAATATAT-AAAACAATTTAAAATAAATAATATATAAAACA--GTTTA
* * * * *
96071615 AAATAAACAATATATGAAAAAAAATTAACA-AAAT-ATAATATAAAACAGTTTG
1 AAATAAATAATATAT-AAAACAATTTAAAATAAATAAT-ATATAAAACAGTTTA
* * * *
96071667 AAATAAATAAT-T-TAAAGCAATTTAAAATAAACAACACATAAAACAGTTTA
1 AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAAACAGTTTA
* * * *
96071717 AAAGAAATAATATGTGAAAAAAAATCTAAAATAAATAATATATATAATACAGTTTA
1 AAATAAATAATATAT--AAAACAATTTAAAATAAATAATATATA-AA-ACAGTTTA
* * * *
96071773 AAATAAAATAATATATAAAGCAATTCAAAATAAATAATATATGAAACAATTTA
1 AAAT-AAATAATATATAAAACAATTTAAAATAAATAATATATAAAACAGTTTA
* *
96071826 AAATAAATAATATCTAAAACAATTTAAAATAGAT-A-ATATAAAACAGTTTA
1 AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAAACAGTTTA
* * *
96071876 ATATAAATAATATATAAAA-AATTTAAAATAAATAAAATATAAAACCA-TTAA
1 AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAAA-CAGTTTA
*
96071927 AAATAAATAGTATATAAAA-AATTTAAAA
1 AAATAAATAATATATAAAACAATTTAAAA
96071955 AGAATAAGTA
Statistics
Matches: 327, Mismatches: 49, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
49 23 0.07
50 59 0.18
51 76 0.23
52 48 0.15
53 17 0.05
54 59 0.18
55 24 0.07
56 11 0.03
57 10 0.03
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (52 bp):
AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAAACAGTTTA
Found at i:96071778 original size:185 final size:182
Alignment explanation
Indices: 96071559--96071910 Score: 401
Period size: 185 Copynumber: 1.9 Consensus size: 182
96071549 TAAAAAGGTT
96071559 TAAAATAAATAATATATGAAAAAAATTTAAAAT-AAATAATACA-AAA-AAATGGTTCAAAATAA
1 TAAAATAAATAATATATGAAAAAAATTTAAAATAAAATAATACATAAAGAAA---TTCAAAATAA
* * * *
96071621 ACAATATATGAAAAAAAATTAACAA-AATATAATA-TAAAACAGTTTGAAATAAATAATTTAAAG
63 ACAATATATG-AAAAAAATTAA-AATAA-ATAATACTAAAACAATTTAAAATAAATAATATAAAA
*
96071684 CAATTTAAAATAAACAACACATAAAACAGTTTAAAAGAAATAATATGTGAAAAAAAATC
125 CAATTTAAAATAAACAACACATAAAA-AATTTAAAAGAAATAATATGTGAAAAAAAATC
* * * *
96071743 TAAAATAAATAATATAT-ATAATACAGTTTAAAATAAAATAATATATAAAGCAATTCAAAATAAA
1 TAAAATAAATAATATATGA-AA-AAAATTTAAAATAAAATAATACATAAAGAAATTCAAAATAAA
* * * * *
96071807 TAATATATGAAACAATTTAAAATAAATAATATCTAAAACAATTTAAAATAGATAATATAAAACAG
64 CAATATATGAAAAAAATTAAAATAAATAATA-CTAAAACAATTTAAAATAAATAATATAAAACAA
* * * * *
96071872 TTTAATATAAATAATATATAAAAAATTTAAAATAAATAA
128 TTTAAAATAAACAACACATAAAAAATTTAAAAGAAATAA
96071911 AATATAAAAC
Statistics
Matches: 141, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
183 9 0.06
184 44 0.31
185 74 0.52
186 9 0.06
187 3 0.02
188 2 0.01
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (182 bp):
TAAAATAAATAATATATGAAAAAAATTTAAAATAAAATAATACATAAAGAAATTCAAAATAAACA
ATATATGAAAAAAATTAAAATAAATAATACTAAAACAATTTAAAATAAATAATATAAAACAATTT
AAAATAAACAACACATAAAAAATTTAAAAGAAATAATATGTGAAAAAAAATC
Found at i:96073415 original size:89 final size:88
Alignment explanation
Indices: 96073250--96073462 Score: 223
Period size: 89 Copynumber: 2.4 Consensus size: 88
96073240 GAATTGTAAT
* * * * * *
96073250 TTCAATCTATTCCACTACAACTTCAAGGAGATAAGATTTGTAACCTCGATCTGCTTCACTGCAAC
1 TTCAATCTACTCCACTGCAACTTCAAAGAGATAAGAATTGTAACCTCAATCTGCTCCACTGCAAC
* *
96073315 TTCAGGTAGATATGATTTA-GGCC
66 TTCAGGTAGATAAGATTAATGG-C
* * * * *
96073338 TTCAATCTACTCTACTGCAACTTCAAAGAGATGAGAATTGCTATCTTCAATCTGCTCCACTGCAG
1 TTCAATCTACTCCACTGCAACTTCAAAGAGATAAGAATTG-TAACCTCAATCTGCTCCACTGCAA
96073403 CTTCAAGG-AGATAAGATTAATGGC
65 CTTC-AGGTAGATAAGATTAATGGC
* * * **
96073427 TTCAATCTTCTCCACTGTAGCTTCAGGGAGATAAGA
1 TTCAATCTACTCCACTGCAACTTCAAAGAGATAAGA
96073463 TTCACCAAGG
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 34 0.33
89 63 0.62
90 5 0.05
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (88 bp):
TTCAATCTACTCCACTGCAACTTCAAAGAGATAAGAATTGTAACCTCAATCTGCTCCACTGCAAC
TTCAGGTAGATAAGATTAATGGC
Found at i:96073443 original size:44 final size:44
Alignment explanation
Indices: 96073250--96073464 Score: 173
Period size: 44 Copynumber: 4.9 Consensus size: 44
96073240 GAATTGTAAT
** * * *
96073250 TTCAATCTATTCCACTACAACTTCAAGGAGATAAGATTTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTATAGC
* * * * *
96073294 CTCGATCTGCTTCACTGCAACTTC-AGGTAGATATGATTTA-GGCC
1 TTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTATAG-C
* * * * ** *
96073338 TTCAATCTACTCTACTGCAACTTCAAAGAGATGAGAATTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG-ATTTATAGC
* * *
96073383 TTCAATCTGCTCCACTGCAGCTTCAAGGAGATAAGATTAATGGC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTATAGC
* * * *
96073427 TTCAATCTTCTCCACTGTAGCTTCAGGGAGATAAGATT
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT
96073465 CACCAAGGTA
Statistics
Matches: 132, Mismatches: 34, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
43 3 0.02
44 93 0.70
45 36 0.27
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTATAGC
Found at i:96073635 original size:44 final size:44
Alignment explanation
Indices: 96073538--96073697 Score: 169
Period size: 44 Copynumber: 3.6 Consensus size: 44
96073528 TATAATCTAT
* * * *
96073538 TCCACTGTAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGC
* *
96073583 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTGG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
* * * **
96073627 TCCACTGCAAATTCAGGGGGATAAGGTTTGTGGCCTT-AATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGT-AACTTCAATCTGC
* * *
96073671 TCCCCTTCAACTTCAGTGAGATAAGAT
1 TCCACTGCAACTTCAGGGAGATAAGAT
96073698 CCGCCATGAT
Statistics
Matches: 95, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
44 65 0.68
45 30 0.32
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
Found at i:96078095 original size:37 final size:37
Alignment explanation
Indices: 96078050--96078161 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
96078040 ATCCATATGA
* *
96078050 TTGGTTATGAATGAAATGGAAAGAATAAAAAAATATT
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
96078087 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
*
96078124 TTAGTTATGAATGAAATGAAAAGAATAAAAGAATATT
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
96078161 T
1 T
96078162 GCTCAGAATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (37 bp):
TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
Found at i:96085624 original size:14 final size:14
Alignment explanation
Indices: 96085589--96085627 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
96085579 AATTTTTTTT
96085589 AAAATAAATAATTC
1 AAAATAAATAATTC
*
96085603 AAAA-AAATAGTTC
1 AAAATAAATAATTC
96085616 AAAATAAATAAT
1 AAAATAAATAAT
96085628 ATATGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAATAAATAATTC
Found at i:96085722 original size:129 final size:126
Alignment explanation
Indices: 96085587--96085924 Score: 323
Period size: 129 Copynumber: 2.7 Consensus size: 126
96085577 GAAATTTTTT
*
96085587 TTAAAATAAATAAT-TCAAAAA-AATAGTTCAAAATAAATAATATATGAAAAAAAATTAACATAA
1 TTAAAATAAATAATAT-AAAAAGAA-A-TTCAAAATAAATAATATATG-AAAAAAATTAAAATAA
* * *
96085650 ATAAAATATAAAACAATTTGAAATAAAT-ATTTAAAGCAATTTAAAATAAACAATACATAAAACA
62 ATAAAATATAAAACAATTTAAAATAAATAATATAAAACAATTTAAAATAAACAATACATAAAA-A
*
96085714 G
126 A
* * *
96085715 TTAAAAATAAAATAATATAAAAAGCAATTCAAAATAAATAATATATGAAACAATTTAAAATAAAT
1 TT-AAAAT-AAATAATATAAAAAGAAATTCAAAATAAATAATATATGAAAAAAATTAAAATAAAT
* * * * ** * *
96085780 AATATCTAAAACAATTTAAAATAGATAATATAAAACAGTTTACTATAAATAATATATAAAAAA
64 AAAATATAAAACAATTTAAAATAAATAATATAAAACAATTTAAAATAAACAATACATAAAAAA
* *** * *
96085843 TTAAAATAAATAAAATATAAAA-CCGTTAAAAATAAATAGTATAT-AAAAAAATTAAAA-AGAAT
1 TTAAAATAAATAATATA-AAAAGAAATTCAAAATAAATAATATATGAAAAAAATTAAAATA-AAT
*
96085905 -AAATA-AATAACAAATTAAAA
64 AAAATATAA-AACAATTTAAAA
96085925 GGTTAAAATC
Statistics
Matches: 176, Mismatches: 26, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
123 2 0.01
124 15 0.09
125 14 0.08
126 27 0.15
127 9 0.05
128 42 0.24
129 52 0.30
130 13 0.07
131 2 0.01
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (126 bp):
TTAAAATAAATAATATAAAAAGAAATTCAAAATAAATAATATATGAAAAAAATTAAAATAAATAA
AATATAAAACAATTTAAAATAAATAATATAAAACAATTTAAAATAAACAATACATAAAAAA
Found at i:96085770 original size:102 final size:101
Alignment explanation
Indices: 96085586--96085900 Score: 325
Period size: 102 Copynumber: 3.1 Consensus size: 101
96085576 TGAAATTTTT
* * * *
96085586 TTTAAAATAAATAATTCAAAAAAATAGTTCAAAATAAATAATATATGAAAAAAAATTAACATAAA
1 TTTAAAATAAATAA-TC-ATAAAACAGTTAAAAATAAATAATATAT---AAAAAATTAAAATAAA
* *
96085651 TAAAATATAAAACAATTTGAAATAAAT-AT-T-TAAAGCAA
61 TAAAATATAAAACAATTTAAAATAAATAATATCTAAAACAA
*
96085689 TTTAAAATAAACAATACATAAAACAGTTAAAAATAAAATAATATA-AAAAGCAATTCAAAATAAA
1 TTTAAAATAAATAAT-CATAAAACAGTTAAAAAT-AAATAATATATAAAA--AATT-AAAATAAA
* *
96085753 TAATATATGAAACAATTTAAAATAAATAATATCTAAAACAA
61 TAAAATATAAAACAATTTAAAATAAATAATATCTAAAACAA
* * **
96085794 TTTAAAATAGATAAT-ATAAAACAGTTTACTATAAATAATATATAAAAAATTAAAATAAATAAAA
1 TTTAAAATAAATAATCATAAAACAGTTAAAAATAAATAATATATAAAAAATTAAAATAAATAAAA
** * * * *
96085858 TATAAAACCGTTAAAAATAAATAGTATATAAAAAAA
66 TATAAAACAATTTAAAATAAATAATATCTAAAACAA
*
96085894 TTAAAAA
1 TTTAAAA
96085901 GAATAAATAA
Statistics
Matches: 180, Mismatches: 23, Indels: 21
0.80 0.10 0.09
Matches are distributed among these distances:
99 4 0.02
100 47 0.26
101 8 0.04
102 56 0.31
103 44 0.24
104 1 0.01
105 20 0.11
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.28
Consensus pattern (101 bp):
TTTAAAATAAATAATCATAAAACAGTTAAAAATAAATAATATATAAAAAATTAAAATAAATAAAA
TATAAAACAATTTAAAATAAATAATATCTAAAACAA
Found at i:96085790 original size:79 final size:76
Alignment explanation
Indices: 96085646--96085924 Score: 245
Period size: 76 Copynumber: 3.7 Consensus size: 76
96085636 AAAAATTAAC
* ** *
96085646 ATAAATAAAATATAAAACAATTTGAAATAAAT-AT-T-TAAAGCAATTTAAAATAAACAATA-CA
1 ATAAATAATATA-AAAACAATTCAAAATAAATAATATATAAA-CAATTTAAAATAAATAATATC-
96085707 TAAAACAGTTAAAA
63 TAAAACAGTTAAAA
96085721 ATAAAATAATATAAAAAGCAATTCAAAATAAATAATATATGAAACAATTTAAAATAAATAATATC
1 AT-AAATAATATAAAAA-CAATTCAAAATAAATAATATAT-AAACAATTTAAAATAAATAATATC
* *
96085786 TAAAACAATTTAAA
63 TAAAACAGTTAAAA
* * * ** * * *
96085800 ATAGATAATAT-AAAACAGTTTACTATAAATAATATATAAA-AAATTAAAATAAATAAAATATAA
1 ATAAATAATATAAAAACAATTCAAAATAAATAATATATAAACAATTTAAAATAAATAATATCTAA
*
96085863 AACCGTTAAAA
66 AACAGTTAAAA
* *
96085874 ATAAATAGTATATAAAAA-AATT-AAAA-AGAATAA-ATAAATAACAAATTAAAA
1 ATAAATA--ATATAAAAACAATTCAAAATA-AATAATATATA-AACAATTTAAAA
96085925 GGTTAAAATC
Statistics
Matches: 169, Mismatches: 22, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
74 39 0.23
75 18 0.11
76 56 0.33
77 10 0.06
78 9 0.05
79 33 0.20
80 4 0.02
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (76 bp):
ATAAATAATATAAAAACAATTCAAAATAAATAATATATAAACAATTTAAAATAAATAATATCTAA
AACAGTTAAAA
Found at i:96085840 original size:50 final size:50
Alignment explanation
Indices: 96085515--96085911 Score: 301
Period size: 50 Copynumber: 7.8 Consensus size: 50
96085505 AAATGAATTA
* * *
96085515 AAATAATATACAAAAACAATTTAAAGTAAATAATATAAAA-AGGTTTGAAAT
1 AAATAATATA-TAAAACAATTTAAAATAAATAATATAAAACA-GTTTAAAAT
**** * * *
96085566 AAATAATATATGAAATTTTTTTTAAAATAAATAATTCAAAAAAATAGTTCAAAAT
1 AAATAATATAT-AAA-ACAATTTAAAATAAATAA-T--ATAAAACAGTTTAAAAT
* * * * *
96085621 AAATAATATATGAAAAAAAATTAACATAAATAAAATATAAAACAATTTGAAAT
1 AAATAATATAT-AAAACAATTTAAAATAAAT--AATATAAAACAGTTTAAAAT
* * *
96085674 AAAT-AT-T-TAAAGCAATTTAAAATAAACAATACATAAAACAGTTAAAAAT
1 AAATAATATATAAAACAATTTAAAATAAATAAT--ATAAAACAGTTTAAAAT
* *
96085723 AAAATAATATA-AAAAGCAATTCAAAATAAATAATATATGAAACAATTTAAAAT
1 -AAATAATATATAAAA-CAATTTAAAATAAATAATATA--AAACAGTTTAAAAT
* * **
96085776 AAATAATATCTAAAACAATTTAAAATAGATAATATAAAACAGTTTACTAT
1 AAATAATATATAAAACAATTTAAAATAAATAATATAAAACAGTTTAAAAT
* *
96085826 AAATAATATATAAAA-AA-TTAAAATAAATAAAATATAAAACCGTTAAAAAT
1 AAATAATATATAAAACAATTTAAAATAAAT--AATATAAAACAGTTTAAAAT
* *
96085876 AAATAGTATATAAAA-AAATTAAAA-AGAATAA-ATAAA
1 AAATAATATATAAAACAATTTAAAATA-AATAATATAAA
96085912 TAACAAATTA
Statistics
Matches: 278, Mismatches: 46, Indels: 47
0.75 0.12 0.13
Matches are distributed among these distances:
47 3 0.01
48 15 0.05
49 32 0.12
50 63 0.23
51 28 0.10
52 47 0.17
53 49 0.18
54 10 0.04
55 28 0.10
56 3 0.01
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (50 bp):
AAATAATATATAAAACAATTTAAAATAAATAATATAAAACAGTTTAAAAT
Found at i:96085897 original size:26 final size:26
Alignment explanation
Indices: 96085515--96085924 Score: 296
Period size: 26 Copynumber: 16.0 Consensus size: 26
96085505 AAATGAATTA
* *
96085515 AAATAATATACAAAAACAATTTAAAGT
1 AAATAATATA-TAAAACAATTTAAAAT
** *
96085542 AAATAATATA-AAAA-GGTTTGAAAT
1 AAATAATATATAAAACAATTTAAAAT
****
96085566 AAATAATATATGAAATTTTTTTTAAAAT
1 AAATAATATAT-AAA-ACAATTTAAAAT
96085594 AAATAAT-TCA-AAAA-AATAGTTCAAAAT
1 AAATAATAT-ATAAAACAAT--TT-AAAAT
* * *
96085621 AAATAATATATGAAAAAAAATTAACAT
1 AAATAATATAT-AAAACAATTTAAAAT
* *
96085648 AAATAAAATATAAAACAATTTGAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
96085674 AAAT-AT-T-TAAAGCAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* * * *
96085697 AAACAATACATAAAACAGTTAAAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
96085723 AAAATAATATA-AAAAGCAATTCAAAAT
1 -AAATAATATATAAAA-CAATTTAAAAT
*
96085750 AAATAATATATGAAACAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
96085776 AAATAATATCTAAAACAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* * **
96085802 AGAT-A-ATATAAAACAGTTTACTAT
1 AAATAATATATAAAACAATTTAAAAT
96085826 AAATAATATATAAAA-AA-TTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* ** *
96085850 AAATAAAATATAAAACCGTTAAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* *
96085876 AAATAGTATATAAAA-AAATTAAAA-
1 AAATAATATATAAAACAATTTAAAAT
*
96085900 AGAATAA-ATA-AATAACAAATTAAAA
1 A-AATAATATATAA-AACAATTTAAAA
96085925 GGTTAAAATC
Statistics
Matches: 304, Mismatches: 54, Indels: 52
0.74 0.13 0.13
Matches are distributed among these distances:
23 19 0.06
24 63 0.21
25 26 0.09
26 114 0.38
27 58 0.19
28 18 0.06
29 4 0.01
30 2 0.01
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (26 bp):
AAATAATATATAAAACAATTTAAAAT
Found at i:96086556 original size:21 final size:24
Alignment explanation
Indices: 96086521--96086564 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
96086511 AGATTTGTAA
96086521 AAAAAAACAAGAAACAA-GAAAAC
1 AAAAAAACAAGAAACAAGGAAAAC
96086544 AAAAAAA-AA-AAACAAGGAAAA
1 AAAAAAACAAGAAACAAGGAAAA
96086565 GATCAAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
23 7 0.35
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (24 bp):
AAAAAAACAAGAAACAAGGAAAAC
Found at i:96088227 original size:15 final size:15
Alignment explanation
Indices: 96088207--96088237 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96088197 AAATATGAAA
96088207 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
96088222 GATATGTTTTGTATT
1 GATATGTTTTGGATT
96088237 G
1 G
96088238 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:96088863 original size:45 final size:45
Alignment explanation
Indices: 96088789--96088918 Score: 206
Period size: 45 Copynumber: 2.9 Consensus size: 45
96088779 TTGCTATGTG
*
96088789 TTTTCGTGTAAGACCACATCTGGGACGTTGGCATCGATATATATA
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATATA
* * * * *
96088834 TTTTCGTGTAAGACCACGTTTGAGCCGTTGGCATTGATATATATG
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATATA
96088879 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATAT
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATAT
96088919 GTGGTTACGA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (45 bp):
TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATATA
Found at i:96088945 original size:43 final size:42
Alignment explanation
Indices: 96088881--96089002 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
96088871 TATATATGTT
* * * *
96088881 TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGG
1 TTCGAGTAAGACCATGTCTGGGACATTGGCATCGATATGTGA
* * *
96088923 TTACGAGTAAGACCATGCCTGGGACATCGGCATCG-TATTTGA
1 TT-CGAGTAAGACCATGTCTGGGACATTGGCATCGATATGTGA
* * * *
96088965 TTTGTGTAAGACCCTGTCTGGGACAATGGCATCGATAT
1 TTCGAGTAAGACCATGTCTGGGACATTGGCATCGATAT
96089003 AGCATGTAAG
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 26 0.40
42 12 0.18
43 27 0.42
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (42 bp):
TTCGAGTAAGACCATGTCTGGGACATTGGCATCGATATGTGA
Found at i:96088986 original size:41 final size:42
Alignment explanation
Indices: 96088883--96089002 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 42
96088873 TATATGTTTT
* *
96088883 CGTGTAAGACCAC-GTCTGGGACGTTGGCATCGATATGTGGTTA
1 CGTGTAAGACC-CTGTCTGGGAC-ATGGCATCGATATGTGATTA
* * * *
96088926 CGAGTAAGACCATGCCTGGGACATCGGCATCG-TATTTGATT-
1 CGTGTAAGACCCTGTCTGGGACAT-GGCATCGATATGTGATTA
*
96088967 TGTGTAAGACCCTGTCTGGGACAATGGCATCGATAT
1 CGTGTAAGACCCTGTCTGGGAC-ATGGCATCGATAT
96089003 AGCATGTAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
41 25 0.40
42 13 0.21
43 25 0.40
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCCTGTCTGGGACATGGCATCGATATGTGATTA
Found at i:96090094 original size:14 final size:14
Alignment explanation
Indices: 96090072--96090105 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
96090062 GGTTGATGAA
96090072 TATAAATATTGAGT
1 TATAAATATTGAGT
*
96090086 TATATATATTGAGT
1 TATAAATATTGAGT
96090100 TGATAA
1 T-ATAA
96090106 TGTATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
TATAAATATTGAGT
Found at i:96092755 original size:14 final size:14
Alignment explanation
Indices: 96092722--96092755 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
96092712 TTTAATAGAA
*
96092722 AATATTTTTAATTT
1 AATATTTTTAATAT
*
96092736 ATTATTTTTAATAT
1 AATATTTTTAATAT
96092750 AATATT
1 AATATT
96092756 ATCCTATAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
AATATTTTTAATAT
Found at i:96093287 original size:3 final size:3
Alignment explanation
Indices: 96093279--96093312 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
96093269 TTAGGATTTT
*
96093279 TTG TTG TTG TTG TTG TTA TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
96093313 GTTTTTGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:96095162 original size:15 final size:15
Alignment explanation
Indices: 96095142--96095171 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
96095132 CATCTCTAAC
96095142 TTGTAGAACCAATAT
1 TTGTAGAACCAATAT
96095157 TTGTAGAACCAATAT
1 TTGTAGAACCAATAT
96095172 GACATCGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
TTGTAGAACCAATAT
Found at i:96096413 original size:11 final size:12
Alignment explanation
Indices: 96096393--96096424 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
96096383 ATATCACGAG
96096393 AATAGT-AAAAA
1 AATAGTAAAAAA
96096404 AATA-TAAAAAA
1 AATAGTAAAAAA
96096415 AATAGTAAAA
1 AATAGTAAAA
96096425 TCTTGATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (12 bp):
AATAGTAAAAAA
Found at i:96096823 original size:6 final size:7
Alignment explanation
Indices: 96096805--96096829 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
96096795 CTTGCAGCAG
96096805 CAAAAAC
1 CAAAAAC
96096812 CAAAAAC
1 CAAAAAC
96096819 CAAAAAC
1 CAAAAAC
96096826 CAAA
1 CAAA
96096830 TATACATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAC
Found at i:96104945 original size:18 final size:19
Alignment explanation
Indices: 96104909--96104953 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
96104899 AATAGAGTTC
*
96104909 AAAATATAAAGACAAAATA
1 AAAATAAAAAGACAAAATA
*
96104928 AACATAAAAAGA-AAAATA
1 AAAATAAAAAGACAAAATA
96104946 AAAATAAA
1 AAAATAAA
96104954 TCTAAAGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAATAAAAAGACAAAATA
Found at i:96112403 original size:25 final size:25
Alignment explanation
Indices: 96112375--96112435 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
96112365 AAACGATAAC
*
96112375 AATGCTCACACAAGCTGGGA-TAGTA
1 AATGCTCACACAAGCTAGGACT-GTA
*
96112400 AATGCTCACACAAGCTATGACTGTA
1 AATGCTCACACAAGCTAGGACTGTA
96112425 AATGCTCACAC
1 AATGCTCACAC
96112436 GAGTTGTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (25 bp):
AATGCTCACACAAGCTAGGACTGTA
Found at i:96114753 original size:20 final size:21
Alignment explanation
Indices: 96114713--96114759 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
96114703 TTATAATGTA
*
96114713 TTAAAATTATCAAATTAAATT
1 TTAAAATTATAAAATTAAATT
* *
96114734 TTAAATTTATAAAATTAATTT
1 TTAAAATTATAAAATTAAATT
96114755 TTAAA
1 TTAAA
96114760 GTTTTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAATTATAAAATTAAATT
Found at i:96115978 original size:12 final size:13
Alignment explanation
Indices: 96115960--96115994 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
96115950 TCGATATCTC
96115960 AATTTCAATTCAT
1 AATTTCAATTCAT
96115973 -ATTTCAATTCAT
1 AATTTCAATTCAT
96115985 AATTTCAATT
1 AATTTCAATT
96115995 TCTCATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:96116340 original size:47 final size:47
Alignment explanation
Indices: 96116270--96116372 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
96116260 ATCCAACCAA
* * * **
96116270 AACAGTATGGCACTCAGTGCCTCATCGGCTT-TGCCGAAGTAAACAGT
1 AACAGTACGGCACTCAGTACCTCATCGGATTAAACCGAAGT-AACAGT
* *
96116317 AACAGTACGGTACTCATTACCTCATCGGATTAAACCGAAGTAACAGT
1 AACAGTACGGCACTCAGTACCTCATCGGATTAAACCGAAGTAACAGT
96116364 AACAGTACG
1 AACAGTACG
96116373 ACACACAAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 41 0.85
48 7 0.15
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (47 bp):
AACAGTACGGCACTCAGTACCTCATCGGATTAAACCGAAGTAACAGT
Found at i:96117598 original size:24 final size:23
Alignment explanation
Indices: 96117571--96117635 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 23
96117561 ATCTCTAATT
96117571 TTTCCTTTTTCTTTTCTTTCTGTC
1 TTTCCTTTTTCTTTTCTTTCT-TC
96117595 TTTCCTTTCAATCTCTTTTCTTTCTTC
1 TTTCCTTT---T-TCTTTTCTTTCTTC
*
96117622 TTT-ATTTTTCTTTT
1 TTTCCTTTTTCTTTT
96117636 GTTTTATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
22 6 0.17
23 1 0.03
24 8 0.22
26 3 0.08
27 6 0.17
28 12 0.33
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTCCTTTTTCTTTTCTTTCTTC
Found at i:96118150 original size:3 final size:3
Alignment explanation
Indices: 96118142--96118166 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
96118132 GGTATCATTT
96118142 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
96118167 TAAATCTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:96119134 original size:38 final size:36
Alignment explanation
Indices: 96119081--96119157 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 36
96119071 ACCTTACAAT
* *
96119081 CTCCCTTAATATTTCTACCCCAAACCTTAAGATTGCAA
1 CTCCCTTAAGATTTCTA-CCAAAACCTTAAGATT-CAA
*
96119119 CTCCCTTAAGGTTTCTACCAAAACCTTAAGATTCAA
1 CTCCCTTAAGATTTCTACCAAAACCTTAAGATTCAA
96119155 CTC
1 CTC
96119158 TCTCAAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 6 0.17
37 15 0.42
38 15 0.42
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (36 bp):
CTCCCTTAAGATTTCTACCAAAACCTTAAGATTCAA
Found at i:96142497 original size:19 final size:19
Alignment explanation
Indices: 96142473--96142518 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
96142463 AATGCCTATT
96142473 TTTGCATT-CATTGCATGCA
1 TTTGCATTGCATTGCAT-CA
96142492 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTGCATCA
*
96142511 TATGCATT
1 TTTGCATT
96142519 AAACTTCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:96143216 original size:15 final size:15
Alignment explanation
Indices: 96143192--96143221 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96143182 CTAGTGCTCC
96143192 CTCCAAAGTTTAAAA
1 CTCCAAAGTTTAAAA
*
96143207 CTCCAGAGTTTAAAA
1 CTCCAAAGTTTAAAA
96143222 AGTATAATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (15 bp):
CTCCAAAGTTTAAAA
Found at i:96160206 original size:44 final size:44
Alignment explanation
Indices: 96160142--96160268 Score: 202
Period size: 44 Copynumber: 2.9 Consensus size: 44
96160132 CATTATGGCA
* * * *
96160142 AATCTTATCTTCCTGAAGTTGCAATGGAGCAAATTGAAGCCACTT
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGCCA-TT
96160187 -ATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGCCATT
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGCCATT
96160230 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAG
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAG
96160269 ATAGCGAATC
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
43 2 0.03
44 75 0.97
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGCCATT
Found at i:96160490 original size:144 final size:143
Alignment explanation
Indices: 96160225--96160742 Score: 586
Period size: 144 Copynumber: 3.7 Consensus size: 143
96160215 CAAATTGAAG
* * *
96160225 CCAT-TAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGATAGCGAATCTTATTTCTCT
1 CCATGTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCT
*
96160289 AA-TTGCAGTGGAAT-GAATTAAAGCTACAAGTCACAAATCCTATACCTCTAAAGTTGCAGTAGG
66 AAGTTGCAGTGGAATAG-ATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAGG
96160352 TTGGATCAAATCTA
130 TTGGATCAAATCTA
* * *
96160366 CCATGGTGAATCTTATCTCCCTAAAGTTCCAATAGAGCAGATTGAAGATAGCGAATCTTATTTCC
1 CCAT-GT-AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCC
96160431 CT-AGTTGCAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAG
64 CTAAGTTGCAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAG
96160495 GTTGGATCAAATCTA
129 GTTGGATCAAATCTA
* * * * *
96160510 CCATGTCCAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCC
1 CCATGT--AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCC
* * * * *
96160575 CTGAAGTAGTAGTGGAGTAGATTGAAA---A-TAG--A-AAATCTTAT-CTCTCTGAAGTTGCAG
64 CT-AAGTTGCAGTGGAATAGATT-AAAGCTACAAGTCACAAATCCTATAC-CTCTGAAGTTGCAG
** * * *
96160632 TAGAG-CAGATTAAAGCCA
126 TAG-GTTGGATCAAATCTA
* * *
96160650 -CA---AATCTTATCTCCCTGAAGTTGCAGTGCAACAGATTGAAGAT-GCGAATCTTATTTCCCT
1 CCATGTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCT
*
96160710 GAAGTTGCAGTGGAACAGATTAAAGCTACAAGT
66 -AAGTTGCAGTGGAATAGATTAAAGCTACAAGT
96160743 TATGAATCTT
Statistics
Matches: 325, Mismatches: 36, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
132 3 0.01
133 32 0.10
134 37 0.11
135 1 0.00
136 2 0.01
139 3 0.01
140 33 0.10
141 6 0.02
143 6 0.02
144 182 0.56
145 1 0.00
146 16 0.05
147 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (143 bp):
CCATGTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCT
AAGTTGCAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAGGT
TGGATCAAATCTA
Found at i:96160668 original size:44 final size:45
Alignment explanation
Indices: 96160518--96161000 Score: 422
Period size: 45 Copynumber: 10.7 Consensus size: 45
96160508 TACCATGTCC
* * *
96160518 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
96160563 AATCTTATCTCCCTGAAGTAGTAGTGGAGTAGATTGAAA-ATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGATAGCA
* * **
96160608 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
96160652 AATCTTATCTCCCTGAAGTTGCAGTGCAACAGATTGAAGAT-GCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
96160696 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--A-TAG-CA
* * **
96160745 TGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * * * **
96160792 AATCTCATCTCCATGAAGTTGCAGTGGAGTAAAGTCAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * *
96160836 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
96160881 AACCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAGCTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * *
96160925 AACCTTATCTCCCT-AGAGTTGTAGTGGGGCA-AGTTAAATATAACA
1 AATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGA-TTAAAGATAGCA
* * *
96160970 AATCCTATCTCCCTAAAGTTGCAGTAGAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA
96161001 CTGGGTTGGA
Statistics
Matches: 355, Mismatches: 68, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.01
44 143 0.40
45 166 0.47
46 4 0.01
47 1 0.00
48 3 0.01
49 1 0.00
51 35 0.10
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
Found at i:96160668 original size:89 final size:89
Alignment explanation
Indices: 96160518--96161000 Score: 438
Period size: 89 Copynumber: 5.3 Consensus size: 89
96160508 TACCATGTCC
* * * ** *
96160518 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAAATCTTATCTCCCTGAAGTT
*
96160583 GTAGTGGAGTAGATTGAAAATAGAA
65 GTAGTGGAGCAGATTGAAAATAGAA
* *
96160608 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTG
* * * * **
96160673 CAGTGCAACAGATTGAAGAT-GCG
66 TAGTGGAGCAGATTGAAAATAGAA
* * *
96160696 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATGAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC--C-A--CA--AATCTTATCTCCCT
* **
96160761 GAAGTTGTAGTGGAGCAGATTGAAGATAGTG
59 GAAGTTGTAGTGGAGCAGATTGAAAATAGAA
* * * * * * * *
96160792 AATCTCATCTCCATGAAGTTGCAGTGGAGTAAAGTCAAGCCACAAATCTTATCTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTG
* * *
96160857 CAGTGGAGTAGATT-AAAGATAGCA
66 TAGTGGAGCAGATTGAAA-ATAGAA
* * * * *
96160881 AACCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAGCTACAAACCTTATCTCCCT-AGAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGA-AGTT
*
96160945 GTAGTGGGGCA-AGTT-AAATATA-ACA
65 GTAGTGGAGCAGA-TTGAAA-ATAGA-A
* * *
96160970 AATCCTATCTCCCTAAAGTTGCAGTAGAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA
96161001 CTGGGTTGGA
Statistics
Matches: 320, Mismatches: 61, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
88 41 0.13
89 166 0.52
90 36 0.11
91 2 0.01
93 2 0.01
94 1 0.00
95 38 0.12
96 34 0.11
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTG
TAGTGGAGCAGATTGAAAATAGAA
Found at i:96160755 original size:184 final size:185
Alignment explanation
Indices: 96160563--96160925 Score: 496
Period size: 184 Copynumber: 2.0 Consensus size: 185
96160553 GAAGATAGCA
* *
96160563 AATCTTATCTCCCTGAAGTAGTAGTGGAGTAGATTGAAAATAGAAAATCTTATCTCTC-TGAAGT
1 AATCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAAATAGAAAATCTCATCTC-CATGAAGT
* * * * *
96160627 TGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGCAACAGATTGAAGA
65 TGCAGTAGAGCAAAGTAAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGCAACAGATTAAAGA
* * * *
96160692 T-GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATG
130 TAGCAAACCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAAGTTATG
* * **
96160747 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTGAATCTCATCTCCATGAAGTT
1 AATCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAAATAGAAAATCTCATCTCCATGAAGTT
* * * * **
96160812 GCAGTGGAGTAAAGTCAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
66 GCAGTAGAGCAAAGTAAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGCAACAGATTAAAGAT
**
96160877 AGCAAACCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAGCTACAA
131 AGCAAACCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAA
96160926 ACCTTATCTC
Statistics
Matches: 154, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
183 1 0.01
184 111 0.72
185 42 0.27
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (185 bp):
AATCTTATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAAATAGAAAATCTCATCTCCATGAAGTT
GCAGTAGAGCAAAGTAAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGCAACAGATTAAAGAT
AGCAAACCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAAGTTATG
Found at i:96170217 original size:31 final size:31
Alignment explanation
Indices: 96170179--96170241 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
96170169 CCTAAGTAAG
96170179 AATGTTTGATGATGCCATATGAGATAGTCGT
1 AATGTTTGATGATGCCATATGAGATAGTCGT
*
96170210 AATGTTTGATGATGCCATATGAGTTAGTCGT
1 AATGTTTGATGATGCCATATGAGATAGTCGT
96170241 A
1 A
96170242 CAGACATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.37
Consensus pattern (31 bp):
AATGTTTGATGATGCCATATGAGATAGTCGT
Found at i:96175153 original size:26 final size:26
Alignment explanation
Indices: 96175124--96175174 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
96175114 TGAGCTTTCC
96175124 AATGTGCAAGCTACAAGCTCAGCAAA
1 AATGTGCAAGCTACAAGCTCAGCAAA
* *
96175150 AATGTGCAAGTTGCAAGCTCAGCAA
1 AATGTGCAAGCTACAAGCTCAGCAA
96175175 GATGTCAAAA
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:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AATGTGCAAGCTACAAGCTCAGCAAA
Found at i:96179821 original size:137 final size:137
Alignment explanation
Indices: 96179570--96179856 Score: 486
Period size: 137 Copynumber: 2.1 Consensus size: 137
96179560 CATTGGGCCT
** *
96179570 AAGCCCATTCAGGTAACAGTGGTACTGGGCTAGAGCCTTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* * *
96179635 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAACATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
96179700 CATATGC
131 CATATGC
*
96179707 AAGCCCATTTGGGTAACAGTGGTACTGGG-TCAGAGCCCTTTTCAGATTACAATAAACTGGGTCT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCT-AGAGCCCTTTTCAGATTACAATAAACTGGGCCT
*
96179771 TCGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
65 TAGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
96179836 ACATATGC
130 ACATATGC
96179844 AAGCCCATTTGGG
1 AAGCCCATTTGGG
96179857 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
136 1 0.01
137 140 0.99
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:96181681 original size:26 final size:26
Alignment explanation
Indices: 96181645--96181754 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
96181635 CATGAAATTC
96181645 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
96181671 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
96181697 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
96181723 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
96181749 TTATCA
1 TTATCA
96181755 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:96185778 original size:137 final size:137
Alignment explanation
Indices: 96185532--96185818 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
96185522 CATTGGGCCT
**
96185532 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
96185597 AGCCCCTTATTCAGATAACAGTATGGCCCAAAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGCATGGCCCAAAGGCCCATTTCAAAATACATGCAACATCAATAAA
96185662 CATATGC
131 CATATGC
*
96185669 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTATAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
96185734 AGCCCCTTATTCAGATAACAGCATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGATAACAGCATGGCCCAAAGGCCCATTTCAAAATACATGCAACATCAATAAA
96185799 CATATGC
131 CATATGC
96185806 AAGCCCATTTGGG
1 AAGCCCATTTGGG
96185819 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGCATGGCCCAAAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:96187642 original size:26 final size:26
Alignment explanation
Indices: 96187606--96187689 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
96187596 CATGAAATTC
96187606 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
96187632 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
96187658 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
96187684 TTATCA
1 TTATCA
96187690 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:96189713 original size:11 final size:12
Alignment explanation
Indices: 96189685--96189714 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
96189675 AGCAAAACAG
*
96189685 GTTTTTAGCGGC
1 GTTTTTAGCGCC
96189697 GTTTTTAGCGCC
1 GTTTTTAGCGCC
96189709 GTTTTT
1 GTTTTT
96189715 CAGAAAGCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.17, G:0.27, T:0.50
Consensus pattern (12 bp):
GTTTTTAGCGCC
Found at i:96189981 original size:40 final size:38
Alignment explanation
Indices: 96189910--96189997 Score: 97
Period size: 40 Copynumber: 2.3 Consensus size: 38
96189900 TTAGCGACGC
* *
96189910 TTTTTAAAAACGCCGCTATAGGCACACCTTTAGCGGTGCT
1 TTTTTAAAAACGCCGCTATAGGCACACCTTTAAC-G-GCA
* * *
96189950 TTTTTAAAAACGCCGCTA-ATGCTCGATCTTTAACGGCA
1 TTTTTAAAAACGCCGCTATAGGCAC-ACCTTTAACGGCA
96189988 TTTTTAAAAA
1 TTTTTAAAAA
96189998 AGTGCCACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 12 0.29
39 5 0.12
40 25 0.60
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (38 bp):
TTTTTAAAAACGCCGCTATAGGCACACCTTTAACGGCA
Found at i:96190714 original size:15 final size:15
Alignment explanation
Indices: 96190694--96190727 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
96190684 ACTATTTTAA
*
96190694 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
96190709 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
96190724 GGTT
1 GGTT
96190728 ATGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:96190739 original size:22 final size:23
Alignment explanation
Indices: 96190689--96190739 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
96190679 GAGTTACTAT
* *
96190689 TTTAA-GGTTTATGGATTATGGG
1 TTTAAGGGATTATGGATTATGGA
*
96190711 TTT-AGGGATTATGGGTTAT-GA
1 TTTAAGGGATTATGGATTATGGA
96190732 TTTAAGGG
1 TTTAAGGG
96190740 TTGGGGTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (23 bp):
TTTAAGGGATTATGGATTATGGA
Found at i:96190771 original size:21 final size:21
Alignment explanation
Indices: 96190712--96190771 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
96190702 GATTATGGGT
* ** *
96190712 TTAGGGATTATGGGTTATGAT
1 TTAGGGGTTATGGGTTAAAAC
* *
96190733 TTAAGGGTT-GGGGTTTAAAAC
1 TTAGGGGTTATGGG-TTAAAAC
96190754 TTAGGGGTTATGGGTTAA
1 TTAGGGGTTATGGGTTAA
96190772 GTGTTAGGTT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
20 3 0.10
21 23 0.79
22 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.35, T:0.38
Consensus pattern (21 bp):
TTAGGGGTTATGGGTTAAAAC
Found at i:96193407 original size:137 final size:138
Alignment explanation
Indices: 96193192--96194123 Score: 484
Period size: 137 Copynumber: 6.8 Consensus size: 138
96193182 GTGTTTGAAT
* * *
96193192 GCTGTAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTT
1 GCTGTAAATTGAAGTGTATAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAATGCTT
* *
96193257 AAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGATATTGAGAT
66 AAATGCTGCAAATTGAAGTGTTAAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGATATTGAGAT
96193322 GTTTTATC
131 GTTTTATC
* * * *
96193330 GCTGT-AATTGAGGTGTATAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGC
1 GCTGTAAATTGAAGTGTATAAATGCTGTAAATTGAAG-TGTTTAAA-TGCTGCAAATTGAAATGC
* * * ** *
96193392 TTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT-GAATGCTATAAATTGA
64 TTAAATGCTGCAAATTGAAGTGTTAAAGTACTGCAAATTGAAGTGTTTAG-TTGCTGGATATTGA
*
96193456 -AGTGTTTAAAT-
128 GA-TGTTT-TATC
* * ** * * *
96193467 GCTGTAAATTGAAGTGCT-TAAATGTTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATG-T
1 GCTGTAAATTGAAGTG-TATAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAATGCT
** * * ** ** * *
96193530 TTTATCGCTG-TAATTGAGGTGTATAAATGT--TGTTAATTG-AGATGCTAAAG-TGCTGCAAAT
65 TAAAT-GCTGCAAATTGAAGTGT-TAAA-GTACTGCAAATTGAAG-TG-TTTAGTTGCTGGATAT
**
96193590 TGA-AGTGCTTAAAT-
125 TGAGA-TG-TTTTATC
* * * * * *
96193604 GCTGTAAATTGAAGTGT-TAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAGTTGAAGTGTT
1 GCTGTAAATTGAAGTGTATAAA-TGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAATGCT
* * * * *
96193668 TAAATGCTGTAAATTGATGTGCTTAAATGT--TGCAAATTGAAGTGTTTAAG-TACTGCAAATTG
65 TAAATGCTGCAAATTGAAGTG-TTAAA-GTACTGCAAATTGAAGTGTTT-AGTTGCTGGATATTG
*
96193730 A-A-GTTTTTAGTT
127 AGATG-TTTTA-TC
* * * ** * * * ** *
96193742 GTTGGACATTG-AGATGT-TTTATCGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGAGATG-
1 GCTGTAAATTGAAG-TGTATAAAT-GCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAATGC
* * * * * *
96193803 TAAAAGTGCTGCAAATTGAAGTGCTTAAA-TGCTGTAAATTGAAGTGTTAAAG-TGCTGCAAATT
64 TTAAA-TGCTGCAAATTGAAGTG-TTAAAGTACTGCAAATTGAAGTGTT-TAGTTGCTGGATATT
*
96193866 GA-AGTGTTTGAAT-
126 GAGA-TGTTT-TATC
* * * * * *
96193879 GCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTT
1 GCTGTAAATTGAAGTGTATAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAATGCTT
* * * * * * *
96193944 AAGTACTGCAAATTGAAGTGTT-TAGTCGCTGGACATTG-AGATGTTTTA-TCGCT--ATAATTG
66 AAATGCTGCAAATTGAAGTGTTAAAGT-ACTGCAAATTGAAG-TG-TTTAGTTGCTGGAT-ATTG
* *
96194004 AGGTGTTTAAAT-
127 AGATGTTT-TATC
* * * *
96194016 GTTGTTAATTG-AGATGT-TAAAGTGCTGCAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTG
1 GCTGTAAATTGAAG-TGTATAAA-TGCTGTAAATTGAAGTGTTTAAA-TGCTGCAAATTGAAATG
* * * *
96194078 TTTGAATGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTG
63 CTTAAATGCTGCAAATTGAAGTG-TTAAAGTACTGCAAATTGAAGTG
96194124 CTTAAATGTT
Statistics
Matches: 632, Mismatches: 112, Indels: 101
0.75 0.13 0.12
Matches are distributed among these distances:
135 1 0.00
136 37 0.06
137 386 0.61
138 188 0.30
139 20 0.03
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (138 bp):
GCTGTAAATTGAAGTGTATAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAATGCTT
AAATGCTGCAAATTGAAGTGTTAAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGATATTGAGAT
GTTTTATC
Found at i:96193501 original size:206 final size:205
Alignment explanation
Indices: 96193140--96194309 Score: 1101
Period size: 206 Copynumber: 5.7 Consensus size: 205
96193130 ATATAATAGA
* * * * *
96193140 ATAAATATTGTTAATTGAGGTGTTAAACTGCTGCAAACTGAAGTGTTTGAATGCTGTAAATTGAA
1 ATAAATGTTGTTAATTGAGATGTTAAA-TGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAA
* * * * *
96193205 GTGTTTGAA-TGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAA
65 GTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAA
* * * *
96193269 TTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGATATTGAGATGTTTTA-TCGCT
129 TTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGA-ATGTTTTAGTCGCT
96193333 GTAATTGAGGTGT
193 GTAATTGAGGTGT
96193346 ATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAA
1 ATAAATGTTGTTAATTGAGATGTTAAA-TGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAA
* * *
96193411 GTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGAAGTGTTTAAATGCTGTAAAT
65 GTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAAT
* * * *
96193476 TGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTA-TCGCTG
130 TGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGA-ATGTTTTAGTCGCTG
96193540 TAATTGAGGTGT
194 TAATTGAGGTGT
*
96193552 ATAAATGTTGTTAATTGAGATGCTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAA
1 ATAAATGTTGTTAATTGAGATGTTAAA-TGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAA
* * *
96193617 GTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAGTTGAAGTGTTTAAATGCTGTAAAT
65 GTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAAT
* * * * * *
96193682 TGATGTGCTTAAATGTTGCAAATTGAAGTGTTTAAG-TACTGCAAATTGAA-GTTTTTAGTTGTT
130 TGAAGTGTTTAAATGCTGCAAATTGAAGTGTTT-AGTTGCTGCAAATTGAATG-TTTTAGTCGCT
* *
96193745 GGACATTGAGATGT
193 GTA-ATTGAGGTGT
** * * * ** * *
96193759 -TTTATCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTG-AGATG-TAAAAGTGCTGCAAATT
1 ATAAAT-GTTGTTAATTGAGATGT-TAAATGCTGCAAATTGAAG-TGCTTAAA-TGCTGTAAATT
* * *
96193820 GAAGTGCTTAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTG
62 GAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATGCTG
* * ** * *
96193883 CAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGT
125 CAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAA-TGTTTTAGT
* * *
96193948 -ACTGCAAATTGAAGTGT
189 CGCTG-TAATTGAGGTGT
* * * * ** * * * *
96193965 -TTAGTCGCTG-GACATTGAGATGTTTTAT-C-GCTATAATTGAGGTGTTTAAATGTTGTTAATT
1 ATAAAT-GTTGTTA-ATTGAGATGTTAAATGCTGC-A-AATTGAAGTGCTTAAATGCTGTAAATT
* *
96194026 G-AGATGTTAAAGTGCTGCAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTG
62 GAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATGCTG
* * ** * *
96194089 CAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGT
125 CAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAA-TGTTTTAGT
** * *
96194154 -ATTGCAAATTGAAGTGT
189 CGCTG-TAATTGAGGTGT
* ** * * ** * * * *
96194171 TTAGTTGCTG-GACATTGAGATGTTTTAT-C-GCTATAATTGAGGTGTTTAAATGTTGTTAATTG
1 ATAAATGTTGTTA-ATTGAGATGTTAAATGCTGC-A-AATTGAAGTGCTTAAATGCTGTAAATTG
* *
96194233 -AGATGTTAAAGTGCTGCAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGC
63 AAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATGCTGC
96194296 AAATTGAAGTGTTT
126 AAATTGAAGTGTTT
96194310 CTATTTTGGG
Statistics
Matches: 862, Mismatches: 79, Indels: 46
0.87 0.08 0.05
Matches are distributed among these distances:
204 2 0.00
205 28 0.03
206 785 0.91
207 46 0.05
208 1 0.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (205 bp):
ATAAATGTTGTTAATTGAGATGTTAAATGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAG
TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATT
GAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAATGTTTTAGTCGCTGTA
ATTGAGGTGT
Found at i:96194309 original size:23 final size:23
Alignment explanation
Indices: 96193152--96194309 Score: 908
Period size: 23 Copynumber: 50.6 Consensus size: 23
96193142 AAATATTGTT
*
96193152 AATTGAGGTG-TTAAACTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* * *
96193175 AACTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
96193198 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
*
96193221 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
96193244 AATTGAAATGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
96193267 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
96193290 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
96193313 TATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
96193335 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
96193358 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
96193381 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
96193404 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* **
96193427 AATTGAAGTGTTTGAATGCTATA
1 AATTGAAGTGTTTAAATGCTGCA
*
96193450 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
96193473 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
96193496 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
96193519 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
96193541 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
*
96193564 AATTG-AGATG-CTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
96193587 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
96193610 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
96193633 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
96193656 AGTTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
96193679 AATTGATGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
96193702 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* ** * *
96193725 AATTGAAGTTTTTAGTTGTTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
96193748 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
96193770 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
*
96193793 AATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
96193816 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
96193839 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
96193862 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
96193885 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
96193908 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
96193931 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
96193954 AATTGAAGTGTTT-AGTCGCTGGA
1 AATTGAAGTGTTTAAAT-GCTGCA
* *
96193977 CATTG-AGATGTTT-TAT-C-GCTA
1 AATTGAAG-TGTTTAAATGCTGC-A
* * **
96193998 TAATTGAGGTGTTTAAATGTTGTT
1 -AATTGAAGTGTTTAAATGCTGCA
96194022 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
96194045 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
96194068 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
96194091 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
96194114 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* **
96194137 AATTGAAGTGTTTAAGTATTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
96194160 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* *
96194183 CATTG-AGATGTTT-TAT-C-GCTA
1 AATTGAAG-TGTTTAAATGCTGC-A
* * **
96194204 TAATTGAGGTGTTTAAATGTTGTT
1 -AATTGAAGTGTTTAAATGCTGCA
96194228 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
96194251 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
96194274 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
96194297 AATTGAAGTGTTT
1 AATTGAAGTGTTT
96194310 CTATTTTGGG
Statistics
Matches: 918, Mismatches: 160, Indels: 114
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.00
21 4 0.00
22 109 0.12
23 754 0.82
24 47 0.05
25 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (23 bp):
AATTGAAGTGTTTAAATGCTGCA
Found at i:96194309 original size:229 final size:229
Alignment explanation
Indices: 96193152--96194308 Score: 1344
Period size: 229 Copynumber: 5.1 Consensus size: 229
96193142 AAATATTGTT
* * * * * *
96193152 AATTGAGGTGTTAAACTGCTGCAAACTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTGAATGC
1 AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGC
* * * * * * **
96193217 TGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAA
66 TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT-A
* * * * * * ** *
96193282 GT-ACTGCAAATTGA-A-GTGTTTAGTTGCTGGATATTGAGATGT-TTTATCGCTG-TAATTGAG
130 GTCGCTGGACATTGAGATGT-TTTA-TCGCTGTA-ATTGAGGTGTATAAAT-GTTGTTAATTGAG
* * **
96193342 GTGTATAAA-TGTTGTTAATTG-AGATG-TTAAAGTGCTGCA
191 ATGT-TAAAGTGCTGCAAATTGAAG-TGCTTAAA-TGCTGCA
* *
96193381 AATTGAAGTGCTTAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAAT
1 AATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAAT
* * * * * * **
96193444 GCTATAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTT
64 GCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT
*
96193509 AGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATG
129 AGTCGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATG
* *
96193574 CTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTA
194 TTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGCA
* * *
96193610 AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAGTTGAAGTGTTTAAATGC
1 AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGC
* *
96193675 TGTAAATTGATGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTTTTTAG
66 TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
* * *
96193740 TTGTTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTA
131 TCGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT
*
96193805 AAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTA
196 AAAGTGCTGCAAATTGAAGTGCTTAAATGCTGCA
*
96193839 AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGC
1 AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGC
96193904 TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
66 TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
* *
96193969 TCGCTGGACATTGAGATGTTTTATCGCTATAATTGAGGTGTTTAAATGTTGTTAATTGAGATGTT
131 TCGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT
96194034 AAAGTGCTGCAAATTGAAGTG-TTAAAGTGCTGCA
196 AAAGTGCTGCAAATTGAAGTGCTTAAA-TGCTGCA
* * *
96194068 AATTGAAGTGTTTGAA-TGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATG
1 AATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATG
* * * * * * * *
96194132 TTGCAAATTGAAGTGTTTAAGTATTGCAAATTGAAGTGTTT-AGTTGCTGGACATTG-AGATGTT
65 CTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAG-TACTGCAAATTGAAG-TG-T
** * * * * * **
96194195 TTA-TCGCTATA-ATTGAGGTGTTTAAAT-GTTGTTAATTGAGATGT-TAAAGTGCTGCAAATTG
127 TTAGTCGCTGGACATTGAGATGTTT-TATCGCTG-TAATTGAGGTGTATAAA-TGTTGTTAATTG
* *
96194256 A-AGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCA
189 AGA-TGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGCA
96194297 AATTGAAGTGTT
1 AATTGAAGTGTT
96194309 TCTATTTTGG
Statistics
Matches: 833, Mismatches: 73, Indels: 45
0.88 0.08 0.05
Matches are distributed among these distances:
228 57 0.07
229 741 0.89
230 33 0.04
231 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (229 bp):
AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGC
TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
TCGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT
AAAGTGCTGCAAATTGAAGTGCTTAAATGCTGCA
Found at i:96195211 original size:42 final size:42
Alignment explanation
Indices: 96195141--96195253 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
96195131 GCTAAAGGTT
* * * * *
96195141 ATGACTTTTAGCGACGTTTTTCCTCAAACGCAGCTTAAAGCC
1 ATGACTTTTAGCGGCGCTTTCCCACAAACGCAGCTAAAAGCC
*
96195183 ATGACTTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAAGCC
1 ATGACTTTTAGCGGCGCTTTCCCACAAACGCAGCTAAAAGCC
*
96195225 ATGACTTTTAACGGCGCTTTCCCACAAAC
1 ATGACTTTTAGCGGCGCTTTCCCACAAAC
96195254 ATGGCTTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGACTTTTAGCGGCGCTTTCCCACAAACGCAGCTAAAAGCC
Found at i:96195270 original size:29 final size:30
Alignment explanation
Indices: 96195224--96195283 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
96195214 CGCTAAAAGC
*
96195224 CATGACTTTTAACGGCGC-TTTCCCACAAA
1 CATGACTTTTAACAGCGCTTTTCCCACAAA
* * *
96195253 CATGGCTTTTAGCAGCGCTTTTCTCACAAA
1 CATGACTTTTAACAGCGCTTTTCCCACAAA
96195283 C
1 C
96195284 GCCGCTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (30 bp):
CATGACTTTTAACAGCGCTTTTCCCACAAA
Found at i:96196617 original size:22 final size:22
Alignment explanation
Indices: 96196591--96196635 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
96196581 TTAGTCATAT
96196591 AATA-AAT-TATTAATATAATA
1 AATATAATCTATTAATATAATA
* *
96196611 AATATAATCTATTATTTTAATA
1 AATATAATCTATTAATATAATA
96196633 AAT
1 AAT
96196636 TATTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 3 0.14
22 14 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATAATCTATTAATATAATA
Found at i:96196748 original size:15 final size:15
Alignment explanation
Indices: 96196728--96196784 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
96196718 ATTCAATATT
96196728 AATATTTTAATAATA
1 AATATTTTAATAATA
*
96196743 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
96196762 AATATATTAATAATA
1 AATATTTTAATAATA
*
96196777 AATGTTTT
1 AATATTTT
96196785 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Done.