Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold112
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: 1714866
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32
Warning! 134939 characters in sequence are not A, C, G, or T
File 6 of 11
Found at i:628403 original size:22 final size:21
Alignment explanation
Indices: 628378--628431 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
628368 GAGAATTTAA
628378 TTAATATTAAAAAACTATTATT
1 TTAATATTAAAAAACTA-TATT
** *
628400 TTAATTATTATTAAATTATATT
1 TTAA-TATTAAAAAACTATATT
628422 TTAAT-TTAAA
1 TTAATATTAAA
628432 TACATGTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 3 0.12
21 1 0.04
22 12 0.46
23 10 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATATTAAAAAACTATATT
Found at i:629029 original size:16 final size:16
Alignment explanation
Indices: 629008--629038 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
628998 CTTGATAATA
629008 ATTAAAAATAATTTAT
1 ATTAAAAATAATTTAT
*
629024 ATTAAAAATATTTTA
1 ATTAAAAATAATTTA
629039 AAAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTAAAAATAATTTAT
Found at i:631557 original size:37 final size:37
Alignment explanation
Indices: 631471--631559 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 37
631461 TGAAATATGA
* * *
631471 TTATATTTGAA-ATA-AATATATTTAATTTTTTTAAT
1 TTATATTTGAATATATAAAATAATTAATTTTTATAAT
*
631506 TTATATAT-ATATATATAAAATAATTATATTTTTAT-AT
1 TTATATTTGA-ATATATAAAATAATTA-ATTTTTATAAT
631543 TTATATTTGAATATATA
1 TTATATTTGAATATATA
631560 TTAAACACAT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
34 1 0.02
35 8 0.18
36 3 0.07
37 24 0.55
38 8 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (37 bp):
TTATATTTGAATATATAAAATAATTAATTTTTATAAT
Found at i:632617 original size:27 final size:27
Alignment explanation
Indices: 632578--632633 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
632568 TAAATAAAAT
* *
632578 AATAAAAATATTATATTTTTACACAAC
1 AATAAAAAAATTATATTCTTACACAAC
*
632605 AATAAAAAAATTATGTTCTTACACAAC
1 AATAAAAAAATTATATTCTTACACAAC
632632 AA
1 AA
632634 GATAACATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (27 bp):
AATAAAAAAATTATATTCTTACACAAC
Found at i:632707 original size:23 final size:19
Alignment explanation
Indices: 632652--632695 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
632642 TTATGATGTA
* *
632652 ATAATTATTAATTCATTAG
1 ATAAGTATTAATTTATTAG
632671 ATAAGTATTAATTTATTAG
1 ATAAGTATTAATTTATTAG
632690 ATAAGT
1 ATAAGT
632696 CTAATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (19 bp):
ATAAGTATTAATTTATTAG
Found at i:632780 original size:6 final size:7
Alignment explanation
Indices: 632761--632785 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
632751 ACATAATATA
632761 TATTTTT
1 TATTTTT
632768 TATTTTT
1 TATTTTT
632775 TATTTTT
1 TATTTTT
632782 TATT
1 TATT
632786 CAATACAAAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:633109 original size:13 final size:13
Alignment explanation
Indices: 633070--633100 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
633060 TATTTTTTTA
633070 AATATTTATATTT
1 AATATTTATATTT
633083 AATATTTATATTT
1 AATATTTATATTT
633096 AATAT
1 AATAT
633101 ATATTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:634570 original size:45 final size:45
Alignment explanation
Indices: 634519--634604 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
634509 GTGGAGGTTC
634519 ATGTGATGCTTAA-CTGTACATATTAAGCTTGGTTTTAAAGACGAA
1 ATGTGATGC-TAATCTGTACATATTAAGCTTGGTTTTAAAGACGAA
634564 ATGTGATGCTAATCTGTACATATTAAGCTTGGTTTTAAAGA
1 ATGTGATGCTAATCTGTACATATTAAGCTTGGTTTTAAAGA
634605 GGGAGTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
44 3 0.08
45 37 0.93
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (45 bp):
ATGTGATGCTAATCTGTACATATTAAGCTTGGTTTTAAAGACGAA
Found at i:640285 original size:11 final size:11
Alignment explanation
Indices: 640267--640308 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
640257 TAAATTTTAA
640267 ATTT-ATTTTG
1 ATTTGATTTTG
*
640277 ATTTGATTTTT
1 ATTTGATTTTG
* *
640288 TTTTAATTTTG
1 ATTTGATTTTG
640299 ATTTGATTTT
1 ATTTGATTTT
640309 AAAAATCTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (11 bp):
ATTTGATTTTG
Found at i:640308 original size:17 final size:17
Alignment explanation
Indices: 640251--640310 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
640241 CTGGTTGTTA
*
640251 TGATTTTAAATTTTAAATT
1 TGATTTT-AATTTT-GATT
*
640270 T-ATTTTGA-TTTGATT
1 TGATTTTAATTTTGATT
**
640285 TTTTTTTAATTTTGATT
1 TGATTTTAATTTTGATT
640302 TGATTTTAA
1 TGATTTTAA
640311 AAATCTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
15 4 0.12
16 8 0.24
17 15 0.45
18 5 0.15
19 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (17 bp):
TGATTTTAATTTTGATT
Found at i:640673 original size:17 final size:18
Alignment explanation
Indices: 640651--640688 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
640641 AATATTACGT
*
640651 TTAAATAA-TTTTTTTTA
1 TTAAATAAGTTTTTGTTA
640668 TTAAATAAGTTTTTGTTA
1 TTAAATAAGTTTTTGTTA
640686 TTA
1 TTA
640689 TTATTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TTAAATAAGTTTTTGTTA
Found at i:643204 original size:43 final size:42
Alignment explanation
Indices: 643129--643214 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 42
643119 TTATGATTTA
* *
643129 AAATGTTTGGAAAGTAGAGATCATGCAGCCAACTATTTGATTC
1 AAATGTTTGGAAAGTAAAGATCATGCAGCCAACCA-TTGATTC
*
643172 AAATGTTTGGAAGAG-AAATGATGATGCA-CCAACCATTGATTC
1 AAATGTTTGGAA-AGTAAA-GATCATGCAGCCAACCATTGATTC
643214 A
1 A
643215 TTGATTCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
42 8 0.21
43 20 0.53
44 10 0.26
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (42 bp):
AAATGTTTGGAAAGTAAAGATCATGCAGCCAACCATTGATTC
Found at i:643827 original size:19 final size:18
Alignment explanation
Indices: 643802--643857 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
643792 AAATTAACTT
643802 ATTTTTTAAATAAATTTA
1 ATTTTTTAAATAAATTTA
**
643820 ATTTTTTTACCTAAATTT-
1 A-TTTTTTAAATAAATTTA
643838 ATTTTTTAACATAATATTTA
1 ATTTTTTAA-ATAA-ATTTA
643858 TACCTAAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 7 0.23
18 5 0.17
19 18 0.60
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTTTAAATAAATTTA
Found at i:643858 original size:19 final size:18
Alignment explanation
Indices: 643800--643858 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
643790 AAAAATTAAC
643800 TTATTTTTTAA-ATAAAT
1 TTATTTTTTAACATAAAT
* *
643817 TTAATTTTTTTACCTAAAT
1 TT-ATTTTTTAACATAAAT
643836 TTATTTTTTAACATAATAT
1 TTATTTTTTAACATAA-AT
643855 TTAT
1 TTAT
643859 ACCTAAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 2 0.06
18 20 0.57
19 13 0.37
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTTTTTAACATAAAT
Found at i:644005 original size:21 final size:23
Alignment explanation
Indices: 643981--644030 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
643971 TAAATTAAAA
* *
643981 TAATATATT-TTTATTTAAAT-T
1 TAATATATTAATTATATAAATAT
644002 TAAT-TATTAATTATATAAATAT
1 TAATATATTAATTATATAAATAT
644024 TAATATA
1 TAATATA
644031 AAAATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.17
21 13 0.54
22 5 0.21
23 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TAATATATTAATTATATAAATAT
Found at i:644575 original size:14 final size:14
Alignment explanation
Indices: 644566--644721 Score: 69
Period size: 14 Copynumber: 11.4 Consensus size: 14
644556 TAAATATGAT
644566 TATAT-TAATATAA
1 TATATATAATATAA
644579 TATATATAATATTAA
1 TATATATAATA-TAA
* **
644594 -AAATATGTTATAA
1 TATATATAATATAA
* *
644607 TATAACATGATATTAA
1 TAT-ATATAATA-TAA
* *
644623 TATATATAGTAAAA
1 TATATATAATATAA
*
644637 TTTATATAATATAA
1 TATATATAATATAA
*
644651 -AT-TATTAATATAT
1 TATATA-TAATATAA
*
644664 TA-AAATATATATAA
1 TATATATA-ATATAA
* **
644678 -ATATAAAATATTT
1 TATATATAATATAA
*
644691 TAAATATAAT-TAA
1 TATATATAATATAA
*
644704 -A-ATATAATAAAA
1 TATATATAATATAA
644716 TATATA
1 TATATA
644722 AATTATTAAA
Statistics
Matches: 103, Mismatches: 26, Indels: 27
0.66 0.17 0.17
Matches are distributed among these distances:
11 7 0.07
12 5 0.05
13 25 0.24
14 46 0.45
15 14 0.14
16 6 0.06
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.42
Consensus pattern (14 bp):
TATATATAATATAA
Found at i:644668 original size:32 final size:32
Alignment explanation
Indices: 644626--644739 Score: 95
Period size: 32 Copynumber: 3.3 Consensus size: 32
644616 ATATTAATAT
*
644626 ATATAGTAAAATTTATATAATATAAATTATTA
1 ATATATTAAAATTTATATAATATAAATTATTA
* *
644658 ATATATTAAAATATATATAAATATAAAATATTTTAA
1 ATATATTAAAATTTATAT-AATAT-AAAT-TATT-A
* *
644694 ATATAATTAAAATATAATAAAATATATAAATTATTA
1 ATAT-ATTAAAAT-TTAT-ATA-ATATAAATTATTA
644730 A-ATTATTAAA
1 ATA-TATTAAA
644740 TCTAATTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
32 16 0.24
33 5 0.08
34 4 0.06
35 10 0.15
36 8 0.12
37 11 0.17
38 7 0.11
39 5 0.08
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (32 bp):
ATATATTAAAATTTATATAATATAAATTATTA
Found at i:644671 original size:72 final size:70
Alignment explanation
Indices: 644564--644739 Score: 164
Period size: 72 Copynumber: 2.4 Consensus size: 70
644554 TTTAAATATG
* * *
644564 ATTATATTAATAT-AATATATATAATAT-TAAAAATATGT-TATAATATAACATGATATTAATAT
1 ATTATA-TAATATAAAT-TAT-TAATATATTAAAATATATATA-AATATAAAAT-ATATTAA-AT
644626 ATATAGTAAAAT
60 ATA-AGTAAAAT
* *
644638 -TTATATAATATAAATTATTAATATATTAAAATATATATAAATATAAAATATTTTAAATATAATT
1 ATTATATAATATAAATTATTAATATATTAAAATATATATAAATATAAAATATATTAAATATAAGT
644702 AAAAT
66 AAAAT
* *
644707 ATAATAAAATATATAAATTATTAA-ATTATTAAA
1 ATTAT-ATA-ATATAAATTATTAATA-TATTAAA
644740 TCTAATTTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 16
0.79 0.06 0.14
Matches are distributed among these distances:
69 7 0.08
70 8 0.09
71 15 0.17
72 48 0.55
73 10 0.11
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.42
Consensus pattern (70 bp):
ATTATATAATATAAATTATTAATATATTAAAATATATATAAATATAAAATATATTAAATATAAGT
AAAAT
Found at i:644687 original size:27 final size:26
Alignment explanation
Indices: 644640--644698 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
644630 AGTAAAATTT
*
644640 ATATAATATAAATTATTAATATATTAAA
1 ATAT-ATATAAATTATAAATAT-TTAAA
*
644668 ATATATATAAA-TATAAAATATTTTAA
1 ATATATATAAATTAT-AAATATTTAAA
644694 ATATA
1 ATATA
644699 ATTAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 12 0.43
27 12 0.43
28 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATATATAAATTATAAATATTTAAA
Found at i:644696 original size:16 final size:17
Alignment explanation
Indices: 644622--644699 Score: 67
Period size: 17 Copynumber: 4.7 Consensus size: 17
644612 CATGATATTA
* *
644622 ATATATATAGTAAAATTT
1 ATATAAATA-TAAAATAT
644640 ATAT-AATAT-AAAT-T
1 ATATAAATATAAAATAT
644654 AT-TAATATATTAAAATAT
1 ATATAA-ATA-TAAAATAT
644672 ATATAAATATAAAATAT
1 ATATAAATATAAAATAT
*
644689 -TTTAAATATAA
1 ATATAAATATAA
644700 TTAAAATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
13 1 0.02
14 4 0.08
15 7 0.13
16 12 0.23
17 15 0.29
18 10 0.19
19 3 0.06
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (17 bp):
ATATAAATATAAAATAT
Found at i:644712 original size:16 final size:18
Alignment explanation
Indices: 644602--644730 Score: 85
Period size: 16 Copynumber: 7.0 Consensus size: 18
644592 AAAAATATGT
644602 TATAATATAACATGATATTAA
1 TATAATATAA-A--ATATTAA
644623 TATATATAGTAAAAT-TT-A
1 TATA-ATA-TAAAATATTAA
*
644641 TATAATATAAATTATTAA
1 TATAATATAAAATATTAA
644659 TAT-AT-TAAAATA-T-A
1 TATAATATAAAATATTAA
644673 TATAAATATAAAATATTTTAAA
1 TAT-AATATAAAATA--TT-AA
644695 TATAAT-TAAAATA-TAA
1 TATAATATAAAATATTAA
*
644711 TAAAATATATAAATTATTAA
1 TATAATATA-AAA-TATTAA
644731 ATTATTAAAT
Statistics
Matches: 89, Mismatches: 3, Indels: 33
0.71 0.02 0.26
Matches are distributed among these distances:
14 4 0.04
15 1 0.01
16 20 0.22
17 17 0.19
18 12 0.13
19 4 0.04
20 13 0.15
21 7 0.08
22 8 0.09
23 3 0.03
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.41
Consensus pattern (18 bp):
TATAATATAAAATATTAA
Found at i:644739 original size:16 final size:17
Alignment explanation
Indices: 644648--644740 Score: 61
Period size: 17 Copynumber: 5.3 Consensus size: 17
644638 TTATATAATA
644648 TAAATTATT-AATATAT
1 TAAATTATTAAATATAT
644664 TAAAATATATATAAATATA-
1 T-AAAT-TAT-TAAATATAT
*
644683 -AAATATTTTAAATATAAT
1 TAAAT-TATTAAATAT-AT
*
644701 TAAAATATAATAAA-ATAT
1 T-AAAT-TATTAAATATAT
644719 ATAAATTATTAAAT-TAT
1 -TAAATTATTAAATATAT
644736 TAAAT
1 TAAAT
644741 CTAATTTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
16 13 0.21
17 21 0.33
18 9 0.14
19 4 0.06
20 16 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTATTAAATATAT
Found at i:644740 original size:8 final size:9
Alignment explanation
Indices: 644648--644740 Score: 74
Period size: 8 Copynumber: 10.6 Consensus size: 9
644638 TTATATAATA
644648 TAAAT-TAT
1 TAAATATAT
644656 T-AATATAT
1 TAAATATAT
644664 TAAAATATAT
1 T-AAATATAT
644674 ATAAATATA-
1 -TAAATATAT
*
644683 -AAATATTT
1 TAAATATAT
644691 TAAATATAAT
1 TAAATAT-AT
*
644701 TAAAATATAA
1 T-AAATATAT
644711 TAAA-ATAT
1 TAAATATAT
644719 ATAAAT-TAT
1 -TAAATATAT
644728 TAAAT-TAT
1 TAAATATAT
644736 TAAAT
1 TAAAT
644741 CTAATTTTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
7 9 0.13
8 21 0.30
9 16 0.23
10 18 0.25
11 7 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAATATAT
Found at i:644943 original size:14 final size:15
Alignment explanation
Indices: 644912--644945 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
644902 TCATATTTTT
*
644912 ATATTAATTATATAA
1 ATATAAATTATATAA
644927 ATATAAATTAT-TAA
1 ATATAAATTATATAA
644941 ATATA
1 ATATA
644946 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATAAATTATATAA
Found at i:645358 original size:25 final size:25
Alignment explanation
Indices: 645293--645378 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 25
645283 TATTGAATTT
*
645293 TTAAA-ATTTTAAAATTAAA-AT-TA
1 TTAAATATTTT-ATATTAAATATATA
* *
645316 TCAAATA-TTTATTTTTAAATATATA
1 TTAAATATTTTA-TATTAAATATATA
*
645341 TTAAATATTTTATATTAATTATAT-
1 TTAAATATTTTATATTAAATATATA
645365 TTAAATATATTTAT
1 TTAAATAT-TTTAT
645379 TATATTATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 12 0.24
24 11 0.22
25 23 0.45
26 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAAATATTTTATATTAAATATATA
Found at i:646424 original size:18 final size:18
Alignment explanation
Indices: 646401--646435 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
646391 TGTACCATGT
*
646401 ATGTATGTATGTATGTAC
1 ATGTATATATGTATGTAC
*
646419 ATGTATATGTGTATGTA
1 ATGTATATATGTATGTA
646436 TATGGGAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.46
Consensus pattern (18 bp):
ATGTATATATGTATGTAC
Found at i:650245 original size:37 final size:37
Alignment explanation
Indices: 650199--650276 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
650189 ACCTTTAATC
*
650199 AATGATCATCTTAACGAGACATCAATGCCTCTATGAA
1 AATGATCATCTTAACGAGACATCAAAGCCTCTATGAA
* * * *
650236 AATGCTCATCTTAACGAGACATGAAAGCTTTTATGAA
1 AATGATCATCTTAACGAGACATCAAAGCCTCTATGAA
650273 AATG
1 AATG
650277 TGTAGCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (37 bp):
AATGATCATCTTAACGAGACATCAAAGCCTCTATGAA
Found at i:650939 original size:14 final size:14
Alignment explanation
Indices: 650917--650950 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
650907 CATAAATTGA
*
650917 TTATATTTTTATTT
1 TTATATTTTTATCT
*
650931 TTATTTTTTTATCT
1 TTATATTTTTATCT
650945 TTATAT
1 TTATAT
650951 AAAATAAAGA
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:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATATTTTTATCT
Found at i:657145 original size:14 final size:15
Alignment explanation
Indices: 657116--657157 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
657106 ATGTAATTAC
657116 ATATTATAAAATAATT
1 ATATTA-AAAATAATT
*
657132 TTATTAAAAA-AATT
1 ATATTAAAAATAATT
657146 ATA-TAAAAATAA
1 ATATTAAAAATAA
657158 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.26
14 8 0.35
15 4 0.17
16 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATTAAAAATAATT
Found at i:657598 original size:2 final size:2
Alignment explanation
Indices: 657591--657619 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
657581 AATCAATGTG
657591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
657620 AAAGAAGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:658634 original size:20 final size:20
Alignment explanation
Indices: 658596--658634 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
658586 ATTTATTTAA
*
658596 TTAATCTTTAAAATATTATT
1 TTAATCTTAAAAATATTATT
658616 TTAATCTCTAAAAAT-TTAT
1 TTAATCT-TAAAAATATTAT
658635 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAATCTTAAAAATATTATT
Found at i:659199 original size:18 final size:18
Alignment explanation
Indices: 659171--659238 Score: 92
Period size: 18 Copynumber: 4.1 Consensus size: 18
659161 AATAATATAA
659171 AAATA-ATTAAAATTTAT
1 AAATATATTAAAATTTAT
659188 AAATATATTAAAATTTAT
1 AAATATATTAAAATTTAT
*
659206 ATA-ATA-T-AAA-TTAT
1 AAATATATTAAAATTTAT
659220 AAATATATTAAAATTTAT
1 AAATATATTAAAATTTAT
659238 A
1 A
659239 TAAATTTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
14 6 0.14
15 6 0.14
16 2 0.05
17 11 0.25
18 19 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATATTAAAATTTAT
Found at i:659239 original size:14 final size:14
Alignment explanation
Indices: 659190--659240 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
659180 AAATTTATAA
659190 ATATATTAAAATTT
1 ATATATTAAAATTT
*
659204 ATATAATATAAATTAT
1 ATATATTA-AAATT-T
659220 AAATATATTAAAATTT
1 --ATATATTAAAATTT
659236 ATATA
1 ATATA
659241 AATTTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 12 0.39
15 5 0.16
16 2 0.06
17 5 0.16
18 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:660180 original size:31 final size:30
Alignment explanation
Indices: 660145--660204 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
660135 AATTGAAGAA
660145 TTAA-TTTATATATTAATTGAGATTAAATTTT
1 TTAATTTTA-ATATTAATTGA-ATTAAATTTT
* *
660176 TTAATTTTAATTTTAATTTAATTAAATTT
1 TTAATTTTAATATTAATTGAATTAAATTT
660205 GATTTGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 9 0.35
31 13 0.50
32 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TTAATTTTAATATTAATTGAATTAAATTTT
Found at i:660271 original size:16 final size:16
Alignment explanation
Indices: 660261--660313 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
660251 AAAAAATATC
660261 TAAATTTAAAATAATT
1 TAAATTTAAAATAATT
*
660277 TAAAATTAAAATAATT
1 TAAATTTAAAATAATT
*
660293 TAAATTTAAAAATAATA
1 TAAATTT-AAAATAATT
660310 TAAA
1 TAAA
660314 AATAAAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 21 0.64
17 12 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATTTAAAATAATT
Found at i:660298 original size:32 final size:33
Alignment explanation
Indices: 660253--660330 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 33
660243 TCTAACCTAA
* * *
660253 AAAAT-ATCTAAATTT-AAAATAATTTAAAATT
1 AAAATAATTTAAATTTAAAAATAATATAAAAAT
660284 AAAATAATTTAAATTTAAAAATAATATAAAAAT
1 AAAATAATTTAAATTTAAAAATAATATAAAAAT
*
660317 AAAA-AACTTAAATT
1 AAAATAATTTAAATT
660331 AACTTACTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
31 5 0.12
32 18 0.44
33 18 0.44
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.35
Consensus pattern (33 bp):
AAAATAATTTAAATTTAAAAATAATATAAAAAT
Found at i:660320 original size:16 final size:16
Alignment explanation
Indices: 660261--660332 Score: 76
Period size: 16 Copynumber: 4.6 Consensus size: 16
660251 AAAAAATATC
*
660261 TAAATTTAAAATAATT
1 TAAAATTAAAATAATT
660277 TAAAATTAAAATAATT
1 TAAAATTAAAATAATT
* *
660293 TAAATTTAAAAATAATA
1 TAAAATT-AAAATAATT
* *
660310 TAAAAATAAAA-AACT
1 TAAAATTAAAATAATT
660325 T-AAATTAA
1 TAAAATTAA
660333 CTTACTCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
14 6 0.13
15 3 0.06
16 25 0.53
17 13 0.28
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATTAAAATAATT
Found at i:660708 original size:3 final size:3
Alignment explanation
Indices: 660702--660747 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
660692 GATGATGATG
*
660702 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
660748 AGTCTTGCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:660931 original size:37 final size:38
Alignment explanation
Indices: 660871--660962 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 38
660861 ATTATTTTAT
*
660871 TTATTTAAAAAAT-AT-TTTATTTAAATTTAATTA-TAA
1 TTATTTAAATAATAATATTTATTTAAATTTAATTACT-A
*
660907 TTA-TTAATATAATAATATTT-TTTAATTTTAATTACTA
1 TTATTTAA-ATAATAATATTTATTTAAATTTAATTACTA
660944 TTATTTTAAATAATAATAT
1 TTA-TTTAAATAATAATAT
660963 AAACTTTCGA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
35 4 0.08
36 7 0.15
37 19 0.40
38 14 0.29
39 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (38 bp):
TTATTTAAATAATAATATTTATTTAAATTTAATTACTA
Found at i:665660 original size:25 final size:24
Alignment explanation
Indices: 665586--665665 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 24
665576 CATAAATTAA
* *
665586 TAAAATGTGATATAATATCATAGAAT
1 TAAAAT-TAATATAATATCA-ATAAT
* *
665612 AAAAATTAATATAACTATAAAATATAT
1 TAAAATTAATATAA-TAT-CAATA-AT
*
665639 TAAAATTTATATAATATCAATAAT
1 TAAAATTAATATAATATCAATAAT
665663 TAA
1 TAA
665666 TATGTTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
24 5 0.11
25 11 0.25
26 13 0.30
27 15 0.34
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
TAAAATTAATATAATATCAATAAT
Found at i:666179 original size:21 final size:22
Alignment explanation
Indices: 666128--666197 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 22
666118 AAAAATATAT
666128 TAAT-ATTTATAATTAAATTTAAA
1 TAATAATTTA-AATT-AATTTAAA
*
666151 TAAAAATAATTTTAATT-ATTTAAA
1 T---AATAATTTAAATTAATTTAAA
666175 TAATAATTTAAATTAATTTAAA
1 TAATAATTTAAATTAATTTAAA
666197 T
1 T
666198 CAATTAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
21 12 0.30
22 8 0.20
23 1 0.03
24 8 0.20
26 7 0.17
27 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATAATTTAAATTAATTTAAA
Found at i:666193 original size:10 final size:10
Alignment explanation
Indices: 666157--666209 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
666147 TAAATAAAAA
*
666157 TAATTTTAAT
1 TAATTTAAAT
666167 T-ATTTAAAT
1 TAATTTAAAT
666176 AATAATTTAAAT
1 --TAATTTAAAT
666188 TAATTTAAAT
1 TAATTTAAAT
* *
666198 CAATTAAAAT
1 TAATTTAAAT
666208 TA
1 TA
666210 TAATTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 7 0.19
10 20 0.56
11 1 0.03
12 8 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
TAATTTAAAT
Found at i:666214 original size:47 final size:47
Alignment explanation
Indices: 666128--666219 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 47
666118 AAAAATATAT
*
666128 TAATATTTATAATTAAATTTAAATAAAAATAATTTTAATTATTTAAA
1 TAATATTTATAATTAAATTTAAATAAAAATAATTATAATTATTTAAA
* *
666175 TAATAATTTA-AATT-AATTTAAATCAATTAA-AATTATAATTTTTTA
1 TAAT-ATTTATAATTAAATTTAAAT-AA-AAATAATTATAATTATTTA
666220 TTAAATTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
46 9 0.23
47 23 0.59
48 7 0.18
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (47 bp):
TAATATTTATAATTAAATTTAAATAAAAATAATTATAATTATTTAAA
Found at i:667983 original size:27 final size:32
Alignment explanation
Indices: 667949--668018 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
667939 GACATGATTC
667949 AAATATAAA-AAT-A-TT-TTAAAATTTATAT
1 AAATATAAATAATAATTTATTAAAATTTATAT
*
667977 -AATATAAATTATCAATTTATTAAAATTTATAT
1 AAATATAAATAAT-AATTTATTAAAATTTATAT
668009 AAATATAAAT
1 AAATATAAAT
668019 TTTTTTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
27 8 0.23
28 2 0.06
30 1 0.03
31 2 0.06
32 13 0.37
33 9 0.26
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AAATATAAATAATAATTTATTAAAATTTATAT
Found at i:669960 original size:17 final size:16
Alignment explanation
Indices: 669940--670000 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 16
669930 TAATCATTAA
669940 TTTTTAAAATTATAATT
1 TTTTTAAAATTAT-ATT
669957 TTTTTAACAAATATATTATT
1 TTTTT-A-AAAT-TA-TATT
*
669977 TTATTAAAA-TATATT
1 TTTTTAAAATTATATT
*
669992 TTTATAAAA
1 TTTTTAAAA
670001 ATTAATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
15 11 0.30
16 2 0.05
17 5 0.14
18 4 0.11
19 5 0.14
20 9 0.24
21 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTTAAAATTATATT
Found at i:669971 original size:18 final size:16
Alignment explanation
Indices: 669940--670002 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 16
669930 TAATCATTAA
*
669940 TTTTTAAAATTATAATT
1 TTTTTAAAAATAT-ATT
669957 TTTTTAACAAATATATT
1 TTTTTAA-AAATATATT
*
669974 ATTTTATTAAAATATATT
1 -TTTT-TAAAAATATATT
*
669992 TTTATAAAAAT
1 TTTTTAAAAAT
670003 TAATTATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.15
17 13 0.33
18 18 0.46
19 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTTAAAAATATATT
Found at i:670001 original size:16 final size:16
Alignment explanation
Indices: 669940--670002 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
669930 TAATCATTAA
*
669940 TTTT-TAAAATTATAAT
1 TTTTATAAAAATAT-AT
*
669956 TTTTTTAACAAATATATT
1 TTTTATAA-AAATATA-T
*
669974 ATTTTATTAAAATATAT
1 -TTTTATAAAAATATAT
669991 TTTTATAAAAAT
1 TTTTATAAAAAT
670003 TAATTATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 15 0.38
17 5 0.13
18 13 0.33
19 6 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTATAAAAATATAT
Found at i:670032 original size:26 final size:26
Alignment explanation
Indices: 669985--670037 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
669975 TTTTATTAAA
669985 ATATATTTTTATAAAAATTAATTATT
1 ATATATTTTTATAAAAATTAATTATT
*
670011 ATATATTTTTATTTAAAA-TAATTATT
1 ATATATTTTTA-TAAAAATTAATTATT
670037 A
1 A
670038 AATAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATATTTTTATAAAAATTAATTATT
Found at i:670533 original size:19 final size:20
Alignment explanation
Indices: 670506--670544 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
670496 TATAAAATAT
670506 AATTCTAAAA-ATATATTAAA
1 AATTCTAAAATA-ATATTAAA
670526 AATT-TAAAATAATATTAAA
1 AATTCTAAAATAATATTAAA
670545 TATATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTCTAAAATAATATTAAA
Found at i:670551 original size:11 final size:11
Alignment explanation
Indices: 670472--670551 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 11
670462 TTAAAATATG
*
670472 TATATCAAATA
1 TATATTAAATA
*
670483 TATTTTAAATA
1 TATATTAAATA
* *
670494 AATATAAAATA
1 TATATTAAATA
*
670505 TA-ATTCTAAAAA
1 TATA-T-TAAATA
670517 TATATTAAA-A
1 TATATTAAATA
670527 -AT-TTAAA-A
1 TATATTAAATA
670535 TAATATTAAATA
1 T-ATATTAAATA
670547 TATAT
1 TATAT
670552 GTTAACATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
8 6 0.11
9 2 0.04
10 4 0.07
11 32 0.59
12 9 0.17
13 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
TATATTAAATA
Found at i:671445 original size:32 final size:32
Alignment explanation
Indices: 671409--671473 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
671399 TTATATAATA
*
671409 TTATAATAT-AAATATTAAAAAAATTAAATTAT
1 TTATAATATAAAAT-TTAAAAAAATAAAATTAT
* * *
671441 TTATATTTTAAAATTTAATAAAATAAAATTAT
1 TTATAATATAAAATTTAAAAAAATAAAATTAT
671473 T
1 T
671474 AAGTTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
TTATAATATAAAATTTAAAAAAATAAAATTAT
Found at i:671983 original size:3 final size:3
Alignment explanation
Indices: 671977--672007 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
671967 CAAAAGCGTC
*
671977 AAG AAG AAG AAG AAG AAG AAG AAG ACG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
672008 GACAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:675010 original size:17 final size:17
Alignment explanation
Indices: 674987--675044 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 17
674977 ATTATATTTC
*
674987 ATAATTTTAAATATCAT
1 ATAATTTTAAATATGAT
*
675004 ATCATTTTAGATATTATGAT
1 ATAATTTTA-A-A-TATGAT
675024 ATAATTTTAAATATGAT
1 ATAATTTTAAATATGAT
675041 ATAA
1 ATAA
675045 AAATATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 18 0.51
18 2 0.06
19 2 0.06
20 13 0.37
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (17 bp):
ATAATTTTAAATATGAT
Found at i:675071 original size:18 final size:17
Alignment explanation
Indices: 675039--675084 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 17
675029 TTTAAATATG
675039 ATATAAAAATATAATAA
1 ATATAAAAATATAATAA
*
675056 ATATAAAATATTTAATAA
1 ATATAAAA-ATATAATAA
675074 ATATAAAAATA
1 ATATAAAAATA
675085 ATATAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAATATAATAA
Found at i:675138 original size:15 final size:14
Alignment explanation
Indices: 675120--675192 Score: 68
Period size: 15 Copynumber: 5.4 Consensus size: 14
675110 TTAATTACGA
675120 TTAATATGATATATT
1 TTAATATGATATA-T
675135 TTAATATGATATAT
1 TTAATATGATATAT
675149 TTAATAT-ATATA-
1 TTAATATGATATAT
675161 --AA-ATG-TATAT
1 TTAATATGATATAT
*
675171 TTCAAATTTGATATAT
1 TT--AATATGATATAT
675187 TTAATA
1 TTAATA
675193 ATTATGATGA
Statistics
Matches: 48, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
13 5 0.10
14 13 0.27
15 15 0.31
16 7 0.15
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (14 bp):
TTAATATGATATAT
Found at i:675539 original size:21 final size:21
Alignment explanation
Indices: 675515--675557 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
675505 TTCTATTAAT
675515 AATATAAATATT-TAAAAAAAA
1 AATATAAAT-TTATAAAAAAAA
* *
675536 AATATCAATTTATATAAAAAA
1 AATATAAATTTATAAAAAAAA
675557 A
1 A
675558 TTAAATGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AATATAAATTTATAAAAAAAA
Found at i:675936 original size:16 final size:15
Alignment explanation
Indices: 675915--675945 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
675905 TAATTATTTG
675915 AATAATTTCGAAGTTT
1 AATAATTTCG-AGTTT
675931 AATAATTTCGAGTTT
1 AATAATTTCGAGTTT
675946 GAATTATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (15 bp):
AATAATTTCGAGTTT
Found at i:676694 original size:2 final size:2
Alignment explanation
Indices: 676687--676719 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
676677 ATTCATATAA
676687 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
676720 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:676724 original size:2 final size:2
Alignment explanation
Indices: 676719--676754 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
676709 TCTCTCTCTC
676719 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
676755 AAATAATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:676966 original size:26 final size:26
Alignment explanation
Indices: 676930--676981 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
676920 TTTCGTCAGG
676930 AACAATTTTATCTTAATTATTCTTTT
1 AACAATTTTATCTTAATTATTCTTTT
676956 AACAATTTTATCTTAATTATTCTTTT
1 AACAATTTTATCTTAATTATTCTTTT
676982 TGGGTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.58
Consensus pattern (26 bp):
AACAATTTTATCTTAATTATTCTTTT
Found at i:677014 original size:2 final size:2
Alignment explanation
Indices: 677001--677044 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
676991 TTAAATATTA
*
677001 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
677043 AT
1 AT
677045 TGTTTTTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:680692 original size:2 final size:2
Alignment explanation
Indices: 680685--680713 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
680675 TTCTCCAACA
680685 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
680714 AAATCGTGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:681355 original size:16 final size:16
Alignment explanation
Indices: 681336--681366 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
681326 TCATTTTGAA
681336 TTTAAATTATTTCAAT
1 TTTAAATTATTTCAAT
*
681352 TTTAAGTTATTTCAA
1 TTTAAATTATTTCAA
681367 GTTCATGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAAATTATTTCAAT
Found at i:687731 original size:21 final size:20
Alignment explanation
Indices: 687707--687770 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 20
687697 ATTTTTTATT
687707 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAA-ATA
687728 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
**
687748 -ATTTTTAATTATAAAAA-A
1 TAAATTTAATTATAAAAATA
687766 TAAAT
1 TAAAT
687771 ATAGATAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 5 0.14
19 12 0.33
20 3 0.08
21 12 0.33
22 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:688219 original size:6 final size:6
Alignment explanation
Indices: 688208--688248 Score: 73
Period size: 6 Copynumber: 6.7 Consensus size: 6
688198 GAATCGTAAG
688208 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T-AAAAA TAAA
688249 TATTAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:688639 original size:23 final size:23
Alignment explanation
Indices: 688592--688665 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
688582 TTATATAATA
*
688592 TATTTTAAAAATTAAATATATTT
1 TATTTTAAAAATAAAATATATTT
*
688615 TATTTTAAAAATAATAATGTATTT
1 TATTTTAAAAATAA-AATATATTT
* *
688639 ATAATTTAGATCAAATAAAATTTATTT
1 -TATTTTA-A--AAATAAAATATATTT
688666 ATGATAATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
23 13 0.31
24 8 0.19
25 6 0.14
26 1 0.02
27 8 0.19
28 6 0.14
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTTTAAAAATAAAATATATTT
Found at i:689057 original size:3 final size:3
Alignment explanation
Indices: 689049--689089 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
689039 GATTGTAAAC
689049 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
689090 ATACTTTGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:689575 original size:22 final size:23
Alignment explanation
Indices: 689529--689585 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
689519 ATAGCATATA
689529 ATAATATTTAAAAACTAGAAAATTT
1 ATAAT-TTTAAAAAC-AGAAAATTT
*
689554 ATAATTTTAAAAA-ATAAAATTT
1 ATAATTTTAAAAACAGAAAATTT
* *
689576 AAAATATTAA
1 ATAATTTTAA
689586 TTTTGTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.55
24 8 0.28
25 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
ATAATTTTAAAAACAGAAAATTT
Found at i:690437 original size:20 final size:20
Alignment explanation
Indices: 690412--690451 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
690402 TAACGTGTCA
690412 AAATATGAATCTTAATATAT
1 AAATATGAATCTTAATATAT
690432 AAATATGAATCTTAATATAT
1 AAATATGAATCTTAATATAT
690452 TAAACTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
AAATATGAATCTTAATATAT
Found at i:691269 original size:3 final size:3
Alignment explanation
Indices: 691257--691301 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
691247 GAGAAAAAAG
691257 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
691302 TTAAAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:691787 original size:109 final size:109
Alignment explanation
Indices: 691661--691925 Score: 297
Period size: 109 Copynumber: 2.4 Consensus size: 109
691651 TCCAAGTACT
* * * * ** * *
691661 ATGTACTT-ATGCCAAAAATGAATTATCTTATGTAAAGGGTGTTCGTACGGAACTTTATGACTCT
1 ATGTAATTAATGCAAAAAATAAATTATCTTATATAAAGGACGTTCGTACGCAACTTTATAACTCT
* *
691725 AGATAATGATTTATTTCCAGA-CCAATC-TCTTGGTG-CCTAAATCC
66 AGACAATGACTTATTT-CAGAGCCAATCAT-TTGGTGTCC-AAATCC
* * *
691769 ATGTAATTAATGCAAAAAATAAATTATCTTATATAAAAGACGTTCGTGCGCCACTTTATAACTCT
1 ATGTAATTAATGCAAAAAATAAATTATCTTATATAAAGGACGTTCGTACGCAACTTTATAACTCT
* * *
691834 AGACGATGACTTATTTTAGAGCCAATCATTTGGTGTCCAAATCT
66 AGACAATGACTTATTTCAGAGCCAATCATTTGGTGTCCAAATCC
**
691878 ACATAATTAATGCAAAAAATAAATTAGT-TTATATAAAGGACGTTCGTA
1 ATGTAATTAATGCAAAAAATAAATTA-TCTTATATAAAGGACGTTCGTA
691926 TGTTACTTCA
Statistics
Matches: 132, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
108 10 0.08
109 118 0.89
110 4 0.03
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (109 bp):
ATGTAATTAATGCAAAAAATAAATTATCTTATATAAAGGACGTTCGTACGCAACTTTATAACTCT
AGACAATGACTTATTTCAGAGCCAATCATTTGGTGTCCAAATCC
Found at i:692146 original size:111 final size:111
Alignment explanation
Indices: 691940--692233 Score: 273
Period size: 111 Copynumber: 2.7 Consensus size: 111
691930 ACTTCATAAA
* *
691940 TCTAAACAATGGTCTATTTCAGGGTCAATCCTTTGATGCCCGAATACTATGTAATTTTATACAAA
1 TCTAAACAATGATCTATTTCAAGGTCAATCCTTTGATGCCCGAATACTATGTAATTTTATACAAA
* * ** * *
692005 AAATGAATTGGCCTATATAAAAGGTGTTCGTATACCAATTTATGAC
66 AAAAGAATTAGCCTATATAAAAGGCATTCGTACACCAATTTACGAC
* * * * *
692051 TCTAAACAATGATCTATTTCAAGGTTAAT-CTTTTA-GTCCTCGAGTACTGTGTAATTTATGTA-
1 TCTAAACAATGATCTATTTCAAGGTCAATCCTTTGATG-CC-CGAATACTATGTAATTT-TATAC
* * *
692113 AAAAAAAGAATTATCCTATATAAAAGGCATTCGTACACTACTTTACGAC
63 AAAAAAAGAATTAGCCTATATAAAAGGCATTCGTACACCAATTTACGAC
* * * * *
692162 TTTAAACAATAATCTATTT--TGGAACTAATCTTTTAGTAT--CCGAATACTATGTAA--TTATA
1 TCTAAACAATGATCTATTTCAAGG-TC-AATCCTTT-G-ATGCCCGAATACTATGTAATTTTATA
692221 CAAAAAAAGAATT
62 CAAAAAAAGAATT
692234 GTTTTATATA
Statistics
Matches: 147, Mismatches: 26, Indels: 22
0.75 0.13 0.11
Matches are distributed among these distances:
108 3 0.02
109 16 0.11
110 7 0.05
111 113 0.77
112 7 0.05
114 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (111 bp):
TCTAAACAATGATCTATTTCAAGGTCAATCCTTTGATGCCCGAATACTATGTAATTTTATACAAA
AAAAGAATTAGCCTATATAAAAGGCATTCGTACACCAATTTACGAC
Found at i:692453 original size:16 final size:16
Alignment explanation
Indices: 692434--692471 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
692424 AATATCAACT
692434 AATTTAAATACTTTAA
1 AATTTAAATACTTTAA
* *
692450 AATTT-AATATTTTTA
1 AATTTAAATACTTTAA
692465 AATTTAA
1 AATTTAA
692472 CTCATTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTAAATACTTTAA
Found at i:692644 original size:21 final size:20
Alignment explanation
Indices: 692619--692675 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
692609 GACACTAACT
692619 AATTATAAAAATATATAAACA
1 AATTATAAAAATATATAAA-A
* *
692640 AATTA-AATAAATACATTAAA
1 AATTATAA-AAATATATAAAA
692660 AATTAATACAAAATAT
1 AATT-ATA-AAAATAT
692676 CAAATCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 7 0.24
21 15 0.52
22 6 0.21
23 1 0.03
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
AATTATAAAAATATATAAAA
Found at i:692790 original size:8 final size:8
Alignment explanation
Indices: 692779--692816 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
692769 GTCCTTTAAT
*
692779 ATATATAT
1 ATATATAC
692787 ATATATAC
1 ATATATAC
*
692795 ATACATAC
1 ATATATAC
692803 ATATATAC
1 ATATATAC
692811 ATATAT
1 ATATAT
692817 TCTTTTTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:694386 original size:13 final size:13
Alignment explanation
Indices: 694370--694397 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
694360 AAATTAAAAA
694370 ATTAAATATACAT
1 ATTAAATATACAT
694383 ATTAAATATACAT
1 ATTAAATATACAT
694396 AT
1 AT
694398 CCGAGATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (13 bp):
ATTAAATATACAT
Found at i:695933 original size:18 final size:17
Alignment explanation
Indices: 695901--695934 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
695891 AATACTTAAA
*
695901 TTTAACTCGTTTGATAG
1 TTTAACTCATTTGATAG
695918 TTTAACTCAATTTGATA
1 TTTAACTC-ATTTGATA
695935 ATAATCAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTAACTCATTTGATAG
Found at i:698336 original size:13 final size:13
Alignment explanation
Indices: 698314--698344 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
698304 TTTGTTACTC
698314 AAAT-TCGAATAT
1 AAATATCGAATAT
698326 AAATATCGAATAT
1 AAATATCGAATAT
698339 AAATAT
1 AAATAT
698345 ATATTTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (13 bp):
AAATATCGAATAT
Found at i:700380 original size:2 final size:2
Alignment explanation
Indices: 700373--700398 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
700363 AACAAATTAA
700373 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
700399 TGCTCGAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:701773 original size:16 final size:15
Alignment explanation
Indices: 701747--701788 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
701737 TTCTACATAA
*
701747 AATATTTTATAT-TT
1 AATAATTTATATATT
701761 ATATAAATTTATATATT
1 A-AT-AATTTATATATT
701778 AATAATTTATA
1 AATAATTTATA
701789 ATATATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 10 0.42
16 10 0.42
17 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATAATTTATATATT
Found at i:701850 original size:25 final size:26
Alignment explanation
Indices: 701812--701861 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
701802 AAGATATATA
701812 TTTATGTCATATCATATTTTAATAAC
1 TTTATGTCATATCATATTTTAATAAC
* *
701838 TTTAT-TCGTATCATATTTTTATAA
1 TTTATGTCATATCATATTTTAATAA
701862 TCGTGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (26 bp):
TTTATGTCATATCATATTTTAATAAC
Found at i:702423 original size:17 final size:15
Alignment explanation
Indices: 702363--702467 Score: 56
Period size: 14 Copynumber: 6.7 Consensus size: 15
702353 GAGTGAAAAT
702363 ATTATAAAATATGTTAA
1 ATTATAAAA-AT-TTAA
*
702380 ATTATTTAAAATTTAA
1 ATTA-TAAAAATTTAA
702396 ATTTTAATAAAAATATTAA
1 A--TT-ATAAAAAT-TTAA
702415 ATTACTAAAAA-TTAA
1 ATTA-TAAAAATTTAA
* * * *
702430 TTTTTAAAAA-ATAT
1 ATTATAAAAATTTAA
702444 ATT-TAAAAA-TTAA
1 ATTATAAAAATTTAA
*
702457 ATTAAAAAAAT
1 ATTATAAAAAT
702468 AATATGAATG
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
13 11 0.16
14 15 0.21
15 6 0.09
16 6 0.09
17 14 0.20
18 12 0.17
19 6 0.09
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (15 bp):
ATTATAAAAATTTAA
Found at i:702435 original size:34 final size:36
Alignment explanation
Indices: 702366--702446 Score: 105
Period size: 34 Copynumber: 2.3 Consensus size: 36
702356 TGAAAATATT
* * *
702366 ATAAAATATGTTAAATTATTTAAAATTTAAATTTTA
1 ATAAAATATATTAAATTATCTAAAAATTAAATTTTA
*
702402 ATAAAA-ATATTAAATTA-CTAAAAATTAATTTTTA
1 ATAAAATATATTAAATTATCTAAAAATTAAATTTTA
702436 A-AAAATATATT
1 ATAAAATATATT
702447 TAAAAATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.10
34 20 0.50
35 10 0.25
36 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (36 bp):
ATAAAATATATTAAATTATCTAAAAATTAAATTTTA
Found at i:704013 original size:16 final size:16
Alignment explanation
Indices: 703994--704054 Score: 88
Period size: 16 Copynumber: 3.9 Consensus size: 16
703984 TCAAAACAAC
703994 TTATATTTAAAATAAT
1 TTATATTTAAAATAAT
704010 TTATATTTAAAATAAT
1 TTATATTTAAAATAAT
* * *
704026 TTACATTCAAAATAAC
1 TTATATTTAAAATAAT
704042 TT-TATTTAAAATA
1 TTATATTTAAAATA
704055 GCATATTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
15 9 0.22
16 31 0.77
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
TTATATTTAAAATAAT
Found at i:704639 original size:170 final size:172
Alignment explanation
Indices: 704351--704672 Score: 452
Period size: 170 Copynumber: 1.9 Consensus size: 172
704341 ATGAGCCTTT
* * ** * *
704351 ATTCATTATTACTACTAATAATTTAAATATTATTAAATAAAATATTAATAATTGTAACTGACAAC
1 ATTCACTATTACTACCAATAATTTAAATACCATTAAACAAAATAATAATAATTGTAACTGACAAC
*
704416 CTTTCATTATATCTATTAAATTATACAAAGACAGTAACTCATATTATATCAATACAAGT-AA-TT
66 CTTTCATTATATCTATTAAATTATACAAAGACAGTAACTCATATTACATCAATACAAGTAAATTT
704479 TTTTCTAAAACCTTATAAATAAGGTTTTCTAAAACCTTAATA
131 TTTTCTAAAACCTTATAAATAAGGTTTTCTAAAACCTTAATA
* * ** *
704521 ATTCACTATTACTACCAATAATTTAAATCCCATTAAACAAAATAATAATACTTGTAGTTGATAAC
1 ATTCACTATTACTACCAATAATTTAAATACCATTAAACAAAATAATAATAATTGTAACTGACAAC
* * * *
704586 TTTTCATTATA-CATATTAAATTATATAGAGACAGTAACTCATATTCCATCAATACAAGTAAATT
66 CTTTCATTATATC-TATTAAATTATACAAAGACAGTAACTCATATTACATCAATACAAGTAAATT
* *
704650 TTTTTCTGAAACCTTGTAAATAA
130 TTTTTCTAAAACCTTATAAATAA
704673 AGTTCTTTTT
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
169 1 0.01
170 106 0.81
171 2 0.02
172 22 0.17
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (172 bp):
ATTCACTATTACTACCAATAATTTAAATACCATTAAACAAAATAATAATAATTGTAACTGACAAC
CTTTCATTATATCTATTAAATTATACAAAGACAGTAACTCATATTACATCAATACAAGTAAATTT
TTTTCTAAAACCTTATAAATAAGGTTTTCTAAAACCTTAATA
Found at i:705012 original size:19 final size:21
Alignment explanation
Indices: 704988--705027 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
704978 ATACACTTTT
704988 AATTTTTAA-T-TTTATTTAA
1 AATTTTTAACTATTTATTTAA
705007 AATTTTTAACTATTTATTTAA
1 AATTTTTAACTATTTATTTAA
705028 TACAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 9 0.47
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
AATTTTTAACTATTTATTTAA
Found at i:705570 original size:18 final size:19
Alignment explanation
Indices: 705547--705584 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
705537 TTTTCATATA
*
705547 TAAATTTTTATA-ATATTT
1 TAAATTTTAATATATATTT
705565 TAAATTTTAATATATATTT
1 TAAATTTTAATATATATTT
705584 T
1 T
705585 TTCTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TAAATTTTAATATATATTT
Found at i:706718 original size:2 final size:2
Alignment explanation
Indices: 706711--706759 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
706701 ATTAAAGGAT
706711 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
706753 TA TA TA T
1 TA TA TA T
706760 GATGTAGCAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:706895 original size:2 final size:2
Alignment explanation
Indices: 706890--706920 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
706880 CCTTTTTTAA
*
706890 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
706921 AATAAGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:708941 original size:28 final size:27
Alignment explanation
Indices: 708886--708956 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
708876 GCTACCAATT
**
708886 TGTTTGTCAAAAATTATGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
708913 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
708941 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
708957 AGGCTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.50
28 18 0.47
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:711671 original size:26 final size:26
Alignment explanation
Indices: 711639--711708 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 26
711629 GCCACCTATT
711639 TGTTTGTCAAAATGGTGGTTAT-TTTG
1 TGTTTGTCAAAATGGTGGTT-TCTTTG
711665 TGTTTGTCAAAAATGGTGGTTTCCTTTG
1 TGTTTGTC-AAAATGGTGGTTT-CTTTG
*
711693 TATTTGTCAAATATGG
1 TGTTTGTCAAA-ATGG
711709 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 9 0.23
27 15 0.38
28 15 0.38
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.47
Consensus pattern (26 bp):
TGTTTGTCAAAATGGTGGTTTCTTTG
Found at i:711685 original size:27 final size:27
Alignment explanation
Indices: 711639--711708 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
711629 GCCACCTATT
711639 TGTTTGTC-AAAATGGTGGTTAT-TTTG
1 TGTTTGTCAAAAATGGTGGTT-TCTTTG
711665 TGTTTGTCAAAAATGGTGGTTTCCTTTG
1 TGTTTGTCAAAAATGGTGGTTT-CTTTG
* *
711693 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
711709 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 9 0.23
27 12 0.31
28 18 0.46
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.47
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTTCTTTG
Found at i:711701 original size:28 final size:27
Alignment explanation
Indices: 711641--711729 Score: 87
Period size: 28 Copynumber: 3.4 Consensus size: 27
711631 CACCTATTTG
*
711641 TTTGTC-AAAATGGTGGTTATTTTGTG
1 TTTGTCAAAAATGGTGGTTATTTTGTA
711667 TTTGTCAAAAATGGTGGTT-TCCTTTGTA
1 TTTGTCAAAAATGGTGGTTAT--TTTGTA
* * * *
711695 TTTGTCAAATATGGAGGCT-TGTT-TA
1 TTTGTCAAAAATGGTGGTTATTTTGTA
711720 TTTGTCAAAA
1 TTTGTCAAAA
711730 TTTGTGGCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
25 11 0.20
26 9 0.17
27 12 0.22
28 22 0.41
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTGTA
Found at i:712304 original size:2 final size:2
Alignment explanation
Indices: 712297--712334 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
712287 TAGTTAGAGT
712297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
712335 GCATTACCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:713004 original size:30 final size:31
Alignment explanation
Indices: 712945--713004 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
712935 AATTTAATTT
**
712945 AAAATTTAAATTATTATTTATAAATTAATAA
1 AAAATTTAAAAAATTATTTATAAATTAATAA
*
712976 AAAATTTAAAAAATTATTT-TATATTAATA
1 AAAATTTAAAAAATTATTTATAAATTAATA
713005 TTTTTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
AAAATTTAAAAAATTATTTATAAATTAATAA
Found at i:713016 original size:23 final size:23
Alignment explanation
Indices: 712990--713035 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
712980 TTTAAAAAAT
*
712990 TATTTTAT-ATTAATATTTTTATA
1 TATTTTATAATTAA-ATTTATATA
713013 TATTTTATAATTAAATTTATATA
1 TATTTTATAATTAAATTTATATA
713036 AAAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTTATAATTAAATTTATATA
Found at i:713275 original size:18 final size:17
Alignment explanation
Indices: 713250--713295 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
713240 TTTGTCAATA
713250 ATTA-TATTAAATATAAT
1 ATTATTATTAAA-ATAAT
713267 ATTATTATTATAAATAAT
1 ATTATTATTA-AAATAAT
713285 A-TATTAATTAA
1 ATTATT-ATTAA
713296 CGTTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.35
18 15 0.58
19 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTATTATTAAAATAAT
Found at i:713550 original size:22 final size:23
Alignment explanation
Indices: 713517--713582 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
713507 ATTTAAATGA
713517 TTATTT-AA-TTAATA-AAAAAT
1 TTATTTAAATTTAATATAAAAAT
713537 TTATTTAAATTTAATTATAAAAA-
1 TTATTTAAATTTAA-TATAAAAAT
*
713560 -TATATAAATATTAATATAAAAAT
1 TTATTTAAAT-TTAATATAAAAAT
713583 AATTTTTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 6 0.15
21 2 0.05
22 20 0.51
23 6 0.15
24 5 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTATTTAAATTTAATATAAAAAT
Found at i:717402 original size:9 final size:9
Alignment explanation
Indices: 717388--717417 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
717378 TCACAACCCA
717388 TTTAGGCAT
1 TTTAGGCAT
717397 TTTAGGCAT
1 TTTAGGCAT
717406 TTTAGGCAT
1 TTTAGGCAT
717415 TTT
1 TTT
717418 TATCACTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (9 bp):
TTTAGGCAT
Found at i:717740 original size:18 final size:18
Alignment explanation
Indices: 717679--717746 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
717669 ATTTTTATAA
717679 TTAAATTTAAATAAATTATAT
1 TTAAA-TTAAATAAA-T-TAT
** * *
717700 TTTTATTAAAAATAATAAT
1 TTAAATTAAATA-AATTAT
717719 TTAAATTAAATAAATTAT
1 TTAAATTAAATAAATTAT
717737 TTAAATTAAA
1 TTAAATTAAA
717747 GTAGACATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
18 15 0.39
19 11 0.29
20 7 0.18
21 5 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAATTAAATAAATTAT
Found at i:718507 original size:2 final size:2
Alignment explanation
Indices: 718500--718543 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
718490 AGGTGGGCAA
718500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
718542 AT
1 AT
718544 TTCTTTTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:723745 original size:7 final size:8
Alignment explanation
Indices: 723729--723753 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
723719 AACATTAATA
723729 TTTAATTT
1 TTTAATTT
723737 TTTAATTT
1 TTTAATTT
723745 TTTAATTT
1 TTTAATTT
723753 T
1 T
723754 ATATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTAATTT
Found at i:723870 original size:17 final size:17
Alignment explanation
Indices: 723848--723880 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
723838 TAAAAAATTT
723848 ATTTAA-TAATCTAAATA
1 ATTTAATTAAT-TAAATA
723865 ATTTAATTAATTAAAT
1 ATTTAATTAATTAAAT
723881 TAAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAATTAATTAAATA
Found at i:723888 original size:21 final size:20
Alignment explanation
Indices: 723840--723888 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
723830 TAAAATATTA
*
723840 AAAAATTTATTTAATAATCT
1 AAAAATTTAATTAATAATCT
723860 AAATAATTTAATTAATTAAAT-T
1 AAA-AATTTAATTAA-T-AATCT
723882 AAAAATT
1 AAAAATT
723889 AAAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 14 0.56
22 5 0.20
23 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAAATTTAATTAATAATCT
Found at i:723895 original size:28 final size:30
Alignment explanation
Indices: 723850--723907 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
723840 AAAAATTTAT
* *
723850 TTAATAATCTAAATAATTTAATTAATTAAA
1 TTAAAAATCTAAATAATTTAATCAATTAAA
723880 TTAAAAAT-TAAA-AATTTAATCAATTAAA
1 TTAAAAATCTAAATAATTTAATCAATTAAA
723908 ATTTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 15 0.58
29 4 0.15
30 7 0.27
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (30 bp):
TTAAAAATCTAAATAATTTAATCAATTAAA
Found at i:723916 original size:17 final size:16
Alignment explanation
Indices: 723848--723908 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
723838 TAAAAAATTT
723848 ATTTAAT-AATCTAAATA
1 ATTTAATCAAT-TAAA-A
*
723865 ATTTAATTAATT--AA
1 ATTTAATCAATTAAAA
*
723879 A-TTAA-AAATTAAAA
1 ATTTAATCAATTAAAA
723893 ATTTAATCAATTAAAA
1 ATTTAATCAATTAAAA
723909 TTTTTAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
12 4 0.11
13 4 0.11
14 5 0.14
15 5 0.14
16 8 0.22
17 8 0.22
18 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTTAATCAATTAAAA
Found at i:724431 original size:19 final size:17
Alignment explanation
Indices: 724375--724437 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 17
724365 TGTACAAAAA
724375 AATTT-TTTATATTTTT
1 AATTTATTTATATTTTT
*
724391 AATTGATTTATAATTTTT
1 AATTTATTTAT-ATTTTT
724409 AATTTATTTATATTTAATT
1 AATTTATTTATATTT--TT
724428 AATTTATTTA
1 AATTTATTTA
724438 AAGATAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
16 4 0.10
17 9 0.22
18 16 0.39
19 12 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
AATTTATTTATATTTTT
Found at i:724445 original size:19 final size:19
Alignment explanation
Indices: 724407--724459 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
724397 TTTATAATTT
* **
724407 TTAATTTATTTATATTTAA
1 TTAATTTATTTAAAGATAA
724426 TTAATTTATTTAAAGATAA
1 TTAATTTATTTAAAGATAA
* *
724445 TATTATATATTTAAA
1 T-TAATTTATTTAAA
724460 TTTTTTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAATTTATTTAAAGATAA
Found at i:724480 original size:16 final size:17
Alignment explanation
Indices: 724375--724480 Score: 64
Period size: 17 Copynumber: 6.4 Consensus size: 17
724365 TGTACAAAAA
*
724375 AATTTTTTAT-ATTTTT
1 AATTTTTTATAATTTAT
* *
724391 AATTGATTTATAATTTTT
1 AATT-TTTTATAATTTAT
724409 AATTTATTTAT-ATTTAATT
1 AATTT-TTTATAATTT-A-T
*
724428 AATTTATTTA-AA--GAT
1 AATTT-TTTATAATTTAT
* *
724443 AATATTATAT-ATTTA-
1 AATTTTTTATAATTTAT
724458 AATTTTTTATAATTTAT
1 AATTTTTTATAATTTAT
724475 AATTTT
1 AATTTT
724481 AAAAATTTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
14 4 0.06
15 13 0.19
16 11 0.16
17 15 0.21
18 15 0.21
19 12 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
AATTTTTTATAATTTAT
Found at i:725073 original size:23 final size:24
Alignment explanation
Indices: 725046--725095 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
725036 TGAATTACTA
725046 TTTAATAATAAAA-ATTATTT-AAT
1 TTTAATAATAAAATATT-TTTAAAT
*
725069 TTTAATTATAAAATATTTTTAAAT
1 TTTAATAATAAAATATTTTTAAAT
725093 TTT
1 TTT
725096 TTATTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTAATAATAAAATATTTTTAAAT
Found at i:728276 original size:19 final size:20
Alignment explanation
Indices: 728254--728292 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
728244 TAATAAAAAA
728254 TTTAAA-TTTAAAAAATATT
1 TTTAAATTTTAAAAAATATT
*
728273 TTTAAATTTTTAAAAATATT
1 TTTAAATTTTAAAAAATATT
728293 AACATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAATTTTAAAAAATATT
Found at i:734047 original size:21 final size:20
Alignment explanation
Indices: 734031--734080 Score: 55
Period size: 24 Copynumber: 2.3 Consensus size: 20
734021 ATTTAACTAT
734031 TAAAAAAATAATTTTAATAA
1 TAAAAAAATAATTTTAATAA
*
734051 TAAATAAATATAATAATTAATTAA
1 TAAA-AAA-ATAAT-TTTAA-TAA
734075 TAAAAA
1 TAAAAA
734081 TATATATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.16
21 3 0.12
22 5 0.20
23 6 0.24
24 7 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAAAATAATTTTAATAA
Found at i:734625 original size:15 final size:15
Alignment explanation
Indices: 734605--734649 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
734595 AATAATTTTT
734605 TTAATTTAATTTAAA
1 TTAATTTAATTTAAA
**
734620 TTAATTTAACATAAA
1 TTAATTTAATTTAAA
734635 TT-A-TT-ATTTAAA
1 TTAATTTAATTTAAA
734647 TTA
1 TTA
734650 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 7 0.28
13 2 0.08
14 1 0.04
15 15 0.60
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAATTTAATTTAAA
Found at i:735349 original size:52 final size:52
Alignment explanation
Indices: 735283--735389 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
735273 ATATTACTCT
* * *
735283 GTTTAGAGATATTTTATTGTTTAAGTTTTCTTTC-TCGCTGATATTAGTATCC
1 GTTTACAGATATTTTATGGTTTAAGTTTTC-TTCGTCACTGATATTAGTATCC
* *
735335 GTTTACAGGTATTTTATGGTTTCAGTTTTCTTCGTCACTGATATTAGTATCC
1 GTTTACAGATATTTTATGGTTTAAGTTTTCTTCGTCACTGATATTAGTATCC
735387 GTT
1 GTT
735390 ATTTCTGTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
51 3 0.06
52 46 0.94
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.50
Consensus pattern (52 bp):
GTTTACAGATATTTTATGGTTTAAGTTTTCTTCGTCACTGATATTAGTATCC
Found at i:736226 original size:21 final size:22
Alignment explanation
Indices: 736200--736242 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
736190 ATCAAGTTAG
736200 TTAAGT-ATTT-TAATATTTAAT
1 TTAAGTAATTTATAA-ATTTAAT
736221 TTAAGTAATTTATAAATTTAAT
1 TTAAGTAATTTATAAATTTAAT
736243 CAATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 11 0.55
23 3 0.15
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
TTAAGTAATTTATAAATTTAAT
Found at i:736318 original size:12 final size:12
Alignment explanation
Indices: 736301--736330 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
736291 AATATAAAAT
*
736301 AATTAAATTTAA
1 AATTAAATATAA
736313 AATTAAATATAA
1 AATTAAATATAA
736325 AATTAA
1 AATTAA
736331 TATCATATTT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATTAAATATAA
Found at i:736367 original size:14 final size:14
Alignment explanation
Indices: 736348--736374 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
736338 TTTTACTTGA
736348 TAAATAAATTTAAT
1 TAAATAAATTTAAT
736362 TAAATAAATTTAA
1 TAAATAAATTTAA
736375 GTAATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAATAAATTTAAT
Found at i:736386 original size:14 final size:14
Alignment explanation
Indices: 736348--736378 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
736338 TTTTACTTGA
*
736348 TAAATAAATTTAAT
1 TAAATAAATTTAAG
736362 TAAATAAATTTAAG
1 TAAATAAATTTAAG
736376 TAA
1 TAA
736379 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
TAAATAAATTTAAG
Found at i:737379 original size:3 final size:3
Alignment explanation
Indices: 737371--737424 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
737361 CAGAAGCTTG
737371 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
737419 ATT ATT
1 ATT ATT
737425 TAACTCACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:737859 original size:47 final size:46
Alignment explanation
Indices: 737766--737852 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 46
737756 ATATTTTTAT
*
737766 ATTTTTATATTCGTATCATATTTATTTTTATATTATATTTTAATTAA
1 ATTTTTATA-TCGTATCATATTTATTTTTATATTATATTTAAATTAA
* *
737813 TTTTTTATATCGTGTTCATA-TTATTTTT-TA-TATATTTAAA
1 ATTTTTATATCGT-ATCATATTTATTTTTATATTATATTTAAA
737853 ATATTAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 9 0.25
45 2 0.06
46 12 0.33
47 13 0.36
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (46 bp):
ATTTTTATATCGTATCATATTTATTTTTATATTATATTTAAATTAA
Done.