Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold510
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: 507550
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 4
Found at i:1269 original size:36 final size:37
Alignment explanation
Indices: 1198--1272 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
1188 TACATATGTG
1198 TAAGCTCAACATATAGAATTTTTTAGATTTCTTTCAT
1 TAAGCTCAACATATAGAATTTTTTAGATTTCTTTCAT
* *
1235 TAAGTTCAACATATAGAATTTTTTA-ATTTTTTTCAT
1 TAAGCTCAACATATAGAATTTTTTAGATTTCTTTCAT
1271 TA
1 TA
1273 TTTTGATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 12 0.33
37 24 0.67
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (37 bp):
TAAGCTCAACATATAGAATTTTTTAGATTTCTTTCAT
Found at i:1332 original size:22 final size:20
Alignment explanation
Indices: 1307--1370 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 20
1297 AAAGTATGCC
1307 AATTCATTTCTCATTTATTTAT
1 AATT-ATTT-TCATTTATTTAT
* *
1329 AATTTTTTTCATTTTAATTTTT
1 AATTATTTTCA-TTT-ATTTAT
1351 AATTATTTTCATTTATTTAT
1 AATTATTTTCATTTATTTAT
1371 GTTTTGGTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 8 0.22
21 9 0.25
22 19 0.53
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
AATTATTTTCATTTATTTAT
Found at i:1798 original size:15 final size:13
Alignment explanation
Indices: 1786--1822 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 13
1776 AGAAAAAACT
1786 AGAGAAAAAAAAA
1 AGAGAAAAAAAAA
1799 AGAGAAAGAAAAAAA
1 AGAG-AA-AAAAAAA
1814 AGAGAAAAA
1 AGAGAAAAA
1823 GAATAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.32
14 4 0.18
15 11 0.50
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AGAGAAAAAAAAA
Found at i:1808 original size:17 final size:17
Alignment explanation
Indices: 1788--1842 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
1778 AAAAAACTAG
1788 AGAAAAAAAAAAGAGAA
1 AGAAAAAAAAAAGAGAA
* *
1805 AGAAAAAAAAGAGAAAA
1 AGAAAAAAAAAAGAGAA
* *
1822 AGAATAAAAGAAGAAGAA
1 AGAAAAAAAAAAG-AGAA
1840 AGA
1 AGA
1843 TATTCCAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 25 0.81
18 6 0.19
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (17 bp):
AGAAAAAAAAAAGAGAA
Found at i:3079 original size:20 final size:20
Alignment explanation
Indices: 3054--3110 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
3044 TTTTACCCAG
* * *
3054 ATGTATTGATACATTTTTTA
1 ATGTATCGATACATTCTTCA
3074 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
3094 ATGTATCGACACATTCT
1 ATGTATCGATACATTCT
3111 GTCTTTTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:6656 original size:57 final size:57
Alignment explanation
Indices: 6592--6699 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 57
6582 AGCTTAAAAA
* * *
6592 GACTATTTATGC-ATTCTCATGTATTTTAGGTTTATTCTAGTAATTATTATGTTTTAT
1 GACTATTTATGCAATT-TCATGCATTTTAGGGTCATTCTAGTAATTATTATGTTTTAT
* * *
6649 GACTATTTATGCAATTTCATGCATTTTGGGGTCATTTTAGTAATTTTTATG
1 GACTATTTATGCAATTTCATGCATTTTAGGGTCATTCTAGTAATTATTATG
6700 ATATAAAGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
57 41 0.93
58 3 0.07
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (57 bp):
GACTATTTATGCAATTTCATGCATTTTAGGGTCATTCTAGTAATTATTATGTTTTAT
Found at i:6836 original size:58 final size:58
Alignment explanation
Indices: 6767--6918 Score: 169
Period size: 58 Copynumber: 2.6 Consensus size: 58
6757 TTTAAAGTTT
* * * * * *
6767 ATTATGTAATTTGATGCATTTTTGCATCATTTTAGTAATTTGTCATGGTTTAGGATCA
1 ATTATGCAATTTCATGCATTTTAGCATCATTTTAGTAATTTGTCAAGGTTTAAGACCA
* ** * * *
6825 ATTATGCAATTTCATGTATTTTAAAATCATTTTAGCACTTTGTCAAGTTTTAAGACCA
1 ATTATGCAATTTCATGCATTTTAGCATCATTTTAGTAATTTGTCAAGGTTTAAGACCA
* * *
6883 TTTATGCAATTTCATACATTTTAGCATTATTTTAGT
1 ATTATGCAATTTCATGCATTTTAGCATCATTTTAGT
6919 TATCTTCCAT
Statistics
Matches: 75, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
58 75 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (58 bp):
ATTATGCAATTTCATGCATTTTAGCATCATTTTAGTAATTTGTCAAGGTTTAAGACCA
Found at i:7004 original size:60 final size:58
Alignment explanation
Indices: 6940--7052 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 58
6930 ATTTAGTTGC
* *
6940 TATTATATAATTTCATTCAATTTTAGCATCATTTTTA-TCATTTTTCTATGATTTAAGGGT
1 TATTATATAATTTCATGCAATTTTA-CATCA-TTTTAGTCA-TTTACTATGATTTAAGGGT
* *
7000 TATTATATAATTTCATGCACTTTTATATCATTTTAGTCATTTACTATGATTTA
1 TATTATATAATTTCATGCAATTTTACATCATTTTAGTCATTTACTATGATTTA
7053 GTACCTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 18 0.38
59 7 0.15
60 23 0.48
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (58 bp):
TATTATATAATTTCATGCAATTTTACATCATTTTAGTCATTTACTATGATTTAAGGGT
Found at i:7065 original size:59 final size:60
Alignment explanation
Indices: 6940--7071 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 60
6930 ATTTAGTTGC
* * **
6940 TATTATATAATTTCATTCAATTTTAGCATCATTTTTATCATTTTTCTATGATTTAAGGGT
1 TATTATATAATTTCATGCAATTTTAGCATCATTTTTATCATTTTACTATGATTTAAGCCT
* *
7000 TATTATATAATTTCATGCACTTTTA-TATCA-TTTTAGTCA-TTTACTATGATTT-AGTACCT
1 TATTATATAATTTCATGCAATTTTAGCATCATTTTTA-TCATTTTACTATGATTTAAG--CCT
*
7059 TTTTATATAATTT
1 TATTATATAATTT
7072 TAGATATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
57 2 0.03
58 17 0.27
59 20 0.32
60 23 0.37
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.54
Consensus pattern (60 bp):
TATTATATAATTTCATGCAATTTTAGCATCATTTTTATCATTTTACTATGATTTAAGCCT
Found at i:7765 original size:29 final size:27
Alignment explanation
Indices: 7722--7799 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 27
7712 ACTTGAAACC
* *
7722 GAAAAAATAATATTAATTTTAAATATT
1 GAAAAATTAAAATTAATTTTAAATATT
* *
7749 -ATAAAATATGAAAATT-ATAATTAAGTATT
1 GA-AAAAT-T-AAAATTAAT-TTTAAATATT
7778 GAAAAATTAAAATTAATTTTAA
1 GAAAAATTAAAATTAATTTTAA
7800 TCGAGATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
26 1 0.03
27 14 0.35
28 6 0.15
29 18 0.45
30 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (27 bp):
GAAAAATTAAAATTAATTTTAAATATT
Found at i:9568 original size:22 final size:21
Alignment explanation
Indices: 9535--9585 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
9525 ATATTTTAAA
*
9535 ATATTTAA-TTAAATTAATAATT
1 ATATTAAATTTAAATT-A-AATT
*
9557 ATA-TAAATTTAAGTTAAATT
1 ATATTAAATTTAAATTAAATT
9577 ATATTAAAT
1 ATATTAAAT
9586 AATTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.28
21 9 0.36
22 9 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATTAAATTTAAATTAAATT
Found at i:10089 original size:19 final size:20
Alignment explanation
Indices: 10065--10104 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10055 AAATAGCATT
*
10065 AATATGATATAA-ATATATA
1 AATATGATAGAATATATATA
*
10084 AATATGTTAGAATATATATA
1 AATATGATAGAATATATATA
10104 A
1 A
10105 TACCAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
AATATGATAGAATATATATA
Found at i:10380 original size:23 final size:23
Alignment explanation
Indices: 10343--10389 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
10333 ATATGAACAT
10343 AATATAAATAAAAAATAAT-TAA
1 AATATAAATAAAAAATAATATAA
10365 AATATAATATAAAAAATAATATAA
1 AATATAA-ATAAAAAATAATATAA
10389 A
1 A
10390 TATGATACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.30
23 12 0.52
24 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AATATAAATAAAAAATAATATAA
Found at i:10383 original size:12 final size:12
Alignment explanation
Indices: 10346--10389 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
10336 TGAACATAAT
10346 ATAA-ATAAAAA
1 ATAATATAAAAA
*
10357 ATAAT-TAAAAT
1 ATAATATAAAAA
10368 ATAATATAAAAA
1 ATAATATAAAAA
10380 ATAATATAAA
1 ATAATATAAA
10390 TATGATACGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 14 0.48
12 15 0.52
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAATATAAAAA
Found at i:10525 original size:23 final size:25
Alignment explanation
Indices: 10474--10525 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
10464 TAATACTTTG
10474 AATATATAAAAAATAACACAAATAC
1 AATATATAAAAAATAACACAAATAC
*
10499 AATAT-TAAAAATTAATCA-AAATA-
1 AATATATAAAAAATAA-CACAAATAC
10522 AATA
1 AATA
10526 CAAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 4 0.16
24 14 0.56
25 7 0.28
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (25 bp):
AATATATAAAAAATAACACAAATAC
Found at i:10593 original size:16 final size:17
Alignment explanation
Indices: 10574--10606 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10564 TATAATATTT
*
10574 TAAATAATAAA-AAATA
1 TAAATAAAAAATAAATA
10590 TAAATAAAAAATAAATA
1 TAAATAAAAAATAAATA
10607 CGAAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAAAAAATAAATA
Found at i:10631 original size:12 final size:11
Alignment explanation
Indices: 10616--10666 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 11
10606 ACGAAAATTT
10616 TTTCTTCTTTCC
1 TTTCTT-TTTCC
10628 TTTCTTTTT-C
1 TTTCTTTTTCC
*
10638 TATTTTTTTTCC
1 T-TTCTTTTTCC
10650 TTTC-TTTTCC
1 TTTCTTTTTCC
10660 TTT-TTTT
1 TTTCTTTT
10667 CTCTTTCCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
10 14 0.41
11 12 0.35
12 8 0.24
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTTTCC
Found at i:10649 original size:22 final size:21
Alignment explanation
Indices: 10623--10666 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
10613 TTTTTTCTTC
*
10623 TTTCCTTTCTTTTTCTATTTTT
1 TTTCCTTTCTTTTCCT-TTTTT
10645 TTTCCTTTCTTTTCCTTTTTT
1 TTTCCTTTCTTTTCCTTTTTT
10666 T
1 T
10667 CTCTTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTCCTTTCTTTTCCTTTTTT
Found at i:10652 original size:27 final size:28
Alignment explanation
Indices: 10612--10664 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
10602 AAATACGAAA
10612 ATTTTTTCTTCTTTCCTTT-CTTTTTCT
1 ATTTTTTCTTCTTTCCTTTCCTTTTTCT
*
10639 ATTTTTT-TTCCTTTCTTTTCCTTTTT
1 ATTTTTTCTT-CTTTCCTTTCCTTTTT
10665 TTCTCTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.09
27 15 0.65
28 6 0.26
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (28 bp):
ATTTTTTCTTCTTTCCTTTCCTTTTTCT
Found at i:10657 original size:10 final size:10
Alignment explanation
Indices: 10623--10673 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
10613 TTTTTTCTTC
10623 TTTCCTTTCTT
1 TTTCCTTTC-T
* *
10634 TTTCTATTTTT
1 TTTC-CTTTCT
10645 TTTCCTTTCT
1 TTTCCTTTCT
10655 TTTCCTTT-T
1 TTTCCTTTCT
10664 TTTCTCTTTC
1 TTTC-CTTTC
10674 CCTGCTGAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 5 0.15
10 16 0.48
11 9 0.27
12 3 0.09
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTCCTTTCT
Found at i:10993 original size:2 final size:2
Alignment explanation
Indices: 10986--11023 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
10976 TAAAATATGG
10986 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11024 TAGAAGATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11050 original size:18 final size:18
Alignment explanation
Indices: 11027--11068 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
11017 ATAATATTAG
11027 AAGATTGAATCATCAAAT
1 AAGATTGAATCATCAAAT
11045 AAGATTGAATCATCAAAT
1 AAGATTGAATCATCAAAT
11063 AAGATT
1 AAGATT
11069 TGTTATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (18 bp):
AAGATTGAATCATCAAAT
Found at i:13444 original size:13 final size:13
Alignment explanation
Indices: 13422--13458 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13412 AAATATAAAT
*
13422 TATAAATTTAATA
1 TATAATTTTAATA
*
13435 TATTATTTTAATA
1 TATAATTTTAATA
13448 TATAATTTTAA
1 TATAATTTTAA
13459 ATAAAAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATAATTTTAATA
Found at i:13545 original size:25 final size:24
Alignment explanation
Indices: 13499--13551 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
13489 AGAATATGAT
*
13499 ATAATAATTAAATATATTATATTTA
1 ATAATAATTAAATATA-TATATGTA
13524 ATAATATATTAAATATCA-ATATGTA
1 ATAATA-ATTAAATAT-ATATATGTA
13549 ATA
1 ATA
13552 TTTTTCTCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 15 0.60
26 9 0.36
27 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATAATAATTAAATATATATATGTA
Found at i:17460 original size:17 final size:17
Alignment explanation
Indices: 17438--17473 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17428 AAACCAGAAG
* *
17438 TTCTGCTTCTGGTTTGA
1 TTCTGCCTCTAGTTTGA
17455 TTCTGCCTCTAGTTTGA
1 TTCTGCCTCTAGTTTGA
17472 TT
1 TT
17474 ATTGTTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.08, C:0.19, G:0.19, T:0.53
Consensus pattern (17 bp):
TTCTGCCTCTAGTTTGA
Found at i:17571 original size:36 final size:36
Alignment explanation
Indices: 17530--17691 Score: 98
Period size: 36 Copynumber: 4.3 Consensus size: 36
17520 CTATTGTCGA
17530 TTGTTGCTGTTGCTATTGTCAATCTGCTTCTGGTTG
1 TTGTTGCTGTTGCTATTGTCAATCTGCTTCTGGTTG
* * *
17566 TTGTTGTTGTTG--ATGAGT-AATTGTTGCTAT-TGCTGTTGCCG
1 TTGTTGCTGTTGCTAT-TGTCAA-T-CTGCT-TCTG--GTT---G
** * * *
17607 ATTGTTAATGTTACTATTGTCGATCTGCTTCTAGTTG
1 -TTGTTGCTGTTGCTATTGTCAATCTGCTTCTGGTTG
* * * *
17644 CTGTTGCTATTGCTGTTGTCGATCTGCTTCTGGTTG
1 TTGTTGCTGTTGCTATTGTCAATCTGCTTCTGGTTG
17680 TTGTTGCTGTTG
1 TTGTTGCTGTTG
17692 ATGAGTAATT
Statistics
Matches: 93, Mismatches: 19, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
34 4 0.04
35 3 0.03
36 56 0.60
37 2 0.02
38 3 0.03
40 3 0.03
41 2 0.02
42 14 0.15
43 3 0.03
44 3 0.03
ACGTcount: A:0.10, C:0.14, G:0.26, T:0.49
Consensus pattern (36 bp):
TTGTTGCTGTTGCTATTGTCAATCTGCTTCTGGTTG
Found at i:17609 original size:78 final size:78
Alignment explanation
Indices: 17479--17649 Score: 252
Period size: 78 Copynumber: 2.2 Consensus size: 78
17469 TGATTATTGT
* ** *
17479 TTCTGGTTGTTGTTGTTGTTCATGAGTAAATGTTGCTATTGCTATTGTCGATTGTTGCTGTTGCT
1 TTCTGGTTGTTGTTGTTGTTCATGAGTAAATGTTGCTATTGCTATTGCCGATTGTTAATGTTACT
17544 ATTGTCAATCTGC
66 ATTGTCAATCTGC
* * *
17557 TTCTGGTTGTTGTTGTTGTTGATGAGTAATTGTTGCTATTGCTGTTGCCGATTGTTAATGTTACT
1 TTCTGGTTGTTGTTGTTGTTCATGAGTAAATGTTGCTATTGCTATTGCCGATTGTTAATGTTACT
*
17622 ATTGTCGATCTGC
66 ATTGTCAATCTGC
* *
17635 TTCTAGTTGCTGTTG
1 TTCTGGTTGTTGTTG
17650 CTATTGCTGT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 83 1.00
ACGTcount: A:0.13, C:0.12, G:0.25, T:0.49
Consensus pattern (78 bp):
TTCTGGTTGTTGTTGTTGTTCATGAGTAAATGTTGCTATTGCTATTGCCGATTGTTAATGTTACT
ATTGTCAATCTGC
Found at i:17749 original size:22 final size:22
Alignment explanation
Indices: 17724--17783 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
17714 GTTGCCGATT
* * *
17724 GTTGCTGTTGCTGTTAGGTTTA
1 GTTGCTGCTACTGTTAGATTTA
*
17746 GTTGCTGCTATTGTTAGATTTA
1 GTTGCTGCTACTGTTAGATTTA
*
17768 GTTGCTGCTAGTGTTA
1 GTTGCTGCTACTGTTA
17784 AGGGATGCCG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.13, C:0.10, G:0.28, T:0.48
Consensus pattern (22 bp):
GTTGCTGCTACTGTTAGATTTA
Found at i:17866 original size:19 final size:19
Alignment explanation
Indices: 17825--17875 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
17815 ACTATGATAT
* *
17825 CTTTCTTTTTTTAATTTTG
1 CTTTGTTTTTTTAATTTGG
17844 CTTTGTTTTTTTAA-TTGG
1 CTTTGTTTTTTTAATTTGG
17862 ACTTTGTTATTTTT
1 -CTTTGTT-TTTTT
17876 TTAATTGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 3 0.11
19 20 0.71
20 5 0.18
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.71
Consensus pattern (19 bp):
CTTTGTTTTTTTAATTTGG
Found at i:19798 original size:13 final size:13
Alignment explanation
Indices: 19780--19805 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19770 ACACCAAAGT
19780 ATGTATCGATACA
1 ATGTATCGATACA
19793 ATGTATCGATACA
1 ATGTATCGATACA
19806 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:19803 original size:33 final size:33
Alignment explanation
Indices: 19761--19825 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
19751 CAGCCAAACT
* *
19761 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
19794 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
19826 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:24101 original size:13 final size:13
Alignment explanation
Indices: 24083--24135 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
24073 AAAGAAACCC
24083 ATGTATCGATACA
1 ATGTATCGATACA
*
24096 ATGTATTGATACA
1 ATGTATCGATACA
24109 ATGTATCGATACA
1 ATGTATCGATACA
* *
24122 TTGTATCAATACA
1 ATGTATCGATACA
24135 A
1 A
24136 GGAATATTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:30290 original size:20 final size:21
Alignment explanation
Indices: 30265--30318 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
30255 GTTACAAGCA
*
30265 ATGTATCGATACAATT-CATC
1 ATGTATCGATACAATTGCACC
*
30285 ATGTATCGATAC-ATTGTACC
1 ATGTATCGATACAATTGCACC
30305 ATGTATCGATACAA
1 ATGTATCGATACAA
30319 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 26 0.87
21 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATTGCACC
Found at i:30391 original size:19 final size:19
Alignment explanation
Indices: 30347--30402 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
30337 CTGCCAATCT
* **
30347 CATGTATTGATACAATTGTC
1 CATGTATCGATACAA-TGAA
30367 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
30386 CATGTATCGATACAATG
1 CATGTATCGATACAATG
30403 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:30405 original size:13 final size:13
Alignment explanation
Indices: 30387--30413 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30377 TACAATGAAC
30387 ATGTATCGATACA
1 ATGTATCGATACA
30400 ATGTATCGATACA
1 ATGTATCGATACA
30413 A
1 A
30414 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:34331 original size:30 final size:30
Alignment explanation
Indices: 34301--34369 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
34291 TATCTCAATA
*
34301 AAGTTTTTATATTTTTA-TTGTAATTAAAT
1 AAGTTTTTATATTTTAATTTGTAATTAAAT
** * *
34330 AAGTAATTATCTTTTAATTTGTATTTAAAT
1 AAGTTTTTATATTTTAATTTGTAATTAAAT
34360 AAGTTTTTAT
1 AAGTTTTTAT
34370 TTTAAATGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (30 bp):
AAGTTTTTATATTTTAATTTGTAATTAAAT
Found at i:43567 original size:23 final size:24
Alignment explanation
Indices: 43516--43586 Score: 63
Period size: 26 Copynumber: 2.9 Consensus size: 24
43506 AACATTTATC
* * **
43516 ATATATTTTATTTTTATTTTTAATT
1 ATATATTTT-TTATTATTATTAAAA
43541 A-ATATTTTTTATTATTATTAAAAA
1 ATATATTTTTTATTATTATT-AAAA
*
43565 ATATATTATTTTATTAATATTA
1 ATATATT-TTTTATTATTATTA
43587 TTTATGAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 9 0.24
24 10 0.26
25 7 0.18
26 12 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATATTTTTTATTATTATTAAAA
Found at i:44737 original size:2 final size:2
Alignment explanation
Indices: 44730--44754 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44720 AACCATGCTT
44730 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
44755 GTATGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45632 original size:11 final size:12
Alignment explanation
Indices: 45618--45664 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 12
45608 CGTGTCATAT
45618 TTAT-TTTTATA
1 TTATATTTTATA
*
45629 TTATGTTTTA-A
1 TTATATTTTATA
*
45640 TTATTTTTTATA
1 TTATATTTTATA
45652 TTATATTTT-TA
1 TTATATTTTATA
45663 TT
1 TT
45665 TTTCGTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 18 0.56
12 14 0.44
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (12 bp):
TTATATTTTATA
Found at i:46538 original size:18 final size:18
Alignment explanation
Indices: 46515--46550 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
46505 TTATTTTATA
46515 TAATTTA-TCAAAATATTT
1 TAATTTAGT-AAAATATTT
46533 TAATTTAGTAAAATATTT
1 TAATTTAGTAAAATATTT
46551 ATATGTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TAATTTAGTAAAATATTT
Found at i:46624 original size:17 final size:17
Alignment explanation
Indices: 46581--46626 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
46571 GTATTATTTT
46581 TTAATAAATTTTA-TTAA
1 TTAA-AAATTTTATTTAA
*
46598 TT-ATAATTTTATTTAA
1 TTAAAAATTTTATTTAA
46614 TTAAAAATTTTAT
1 TTAAAAATTTTAT
46627 AAATATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 7 0.28
16 7 0.28
17 11 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAAAATTTTATTTAA
Found at i:46947 original size:9 final size:9
Alignment explanation
Indices: 46895--46924 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
46885 GAATCTTCCT
46895 ATTTTTTAA
1 ATTTTTTAA
46904 ATTTTTTAA
1 ATTTTTTAA
46913 ATTTTTTAA
1 ATTTTTTAA
46922 ATT
1 ATT
46925 ATATTTTTTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:47777 original size:17 final size:18
Alignment explanation
Indices: 47755--47796 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
47745 AAATTTGAAA
*
47755 TTAAAATAATT-TAAATT
1 TTAAAATAATTAAAAATT
47772 TTAAAATAATTCAAAAATT
1 TTAAAATAATT-AAAAATT
47791 TTAAAA
1 TTAAAA
47797 ATCAAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
19 11 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAATAATTAAAAATT
Found at i:52718 original size:144 final size:145
Alignment explanation
Indices: 52546--52836 Score: 435
Period size: 148 Copynumber: 2.0 Consensus size: 145
52536 ATATTTTTAT
52546 TGACAACTTAAATTTTTATATTTTATTTTTAAAAACAGTCAATGTAATTTTTTGTTGACCTATGT
1 TGACAACTTAAATTTTTATATTTTATTTTTAAAAACAGTC-ATGTAATTTTTTGTTGACCTAT-T
*
52611 GC-ATCAATGAACT-GC-GCTGCTTGGACGACGCCCAATGCAATGAGGCAGCAAGAAGATTCCGT
64 GCTATCAATGAACTCGCTGCTGCTTGGACGACCCCCAATGCAATGAGGCAGCAAGAAGATTCCGT
* *
52673 GGCCAGCAAGAGGCCAG
129 GACCAGCAAAAGGCCAG
* * *
52690 TGACATCTTAAATTTTTATATTTTATTTTTAAAAACAGTCATGTAATTTTTTGTTGACCTGTTTC
1 TGACAACTTAAATTTTTATATTTTATTTTTAAAAACAGTCATGTAATTTTTTGTTGACCTATTGC
* *
52755 TATCAATGAACTGCGCTGTGCTGCTTGGACGACCCCCGATGCAATGAGGCAGCAAGCAGATTCCG
66 TATCAATGAACT-CGC--TGCTGCTTGGACGACCCCCAATGCAATGAGGCAGCAAGAAGATTCCG
*
52820 TTACCAGCAAAAGGCCA
128 TGACCAGCAAAAGGCCA
52837 ACACTCCAAG
Statistics
Matches: 132, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
142 2 0.02
143 32 0.24
144 39 0.30
145 2 0.02
148 57 0.43
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (145 bp):
TGACAACTTAAATTTTTATATTTTATTTTTAAAAACAGTCATGTAATTTTTTGTTGACCTATTGC
TATCAATGAACTCGCTGCTGCTTGGACGACCCCCAATGCAATGAGGCAGCAAGAAGATTCCGTGA
CCAGCAAAAGGCCAG
Found at i:54882 original size:24 final size:25
Alignment explanation
Indices: 54836--54891 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
54826 ACAGGTAGGT
*
54836 ATTAAAATTTATTATTATATTTT-A
1 ATTAAAATTTATTATTACATTTTAA
*
54860 ATTAATATTT-TTATTACATTTTTAA
1 ATTAAAATTTATTATTACA-TTTTAA
54885 ATTAAAA
1 ATTAAAA
54892 GTAAATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.26
24 13 0.48
25 7 0.26
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTAAAATTTATTATTACATTTTAA
Found at i:54967 original size:13 final size:13
Alignment explanation
Indices: 54949--54973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54939 CTTTTATTTG
54949 ATTAAATTTTAAC
1 ATTAAATTTTAAC
54962 ATTAAATTTTAA
1 ATTAAATTTTAA
54974 TTTTTAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATTTTAAC
Found at i:54987 original size:31 final size:31
Alignment explanation
Indices: 54949--55008 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
54939 CTTTTATTTG
54949 ATTAAATTTTAACATTAAATTTTAATTTTTA
1 ATTAAATTTTAACATTAAATTTTAATTTTTA
* **
54980 ATTAAATTTTATCATTTTATTTTAATTTT
1 ATTAAATTTTAACATTAAATTTTAATTTT
55009 AAAAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTAAATTTTAACATTAAATTTTAATTTTTA
Found at i:57494 original size:18 final size:18
Alignment explanation
Indices: 57473--57524 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
57463 TATTTATATT
57473 TTAAACTACTATCTAATC
1 TTAAACTACTATCTAATC
57491 TTAAACTA--A--T--T-
1 TTAAACTACTATCTAATC
57502 TTAAACTACTATCTAATC
1 TTAAACTACTATCTAATC
57520 TTAAA
1 TTAAA
57525 GAAGTACCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 14
0.66 0.00 0.34
Matches are distributed among these distances:
11 8 0.30
12 1 0.04
13 1 0.04
14 1 0.04
15 1 0.04
16 1 0.04
17 1 0.04
18 13 0.48
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAACTACTATCTAATC
Found at i:58616 original size:20 final size:20
Alignment explanation
Indices: 58591--58628 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58581 TATAAATATT
58591 TATTTTAAAATAATTTATGA
1 TATTTTAAAATAATTTATGA
* *
58611 TATTTTATAATATTTTAT
1 TATTTTAAAATAATTTAT
58629 TATAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TATTTTAAAATAATTTATGA
Found at i:60482 original size:88 final size:88
Alignment explanation
Indices: 60333--60511 Score: 250
Period size: 88 Copynumber: 2.0 Consensus size: 88
60323 AAAGAAAGTA
* * * * ** * *
60333 ATAAAGCTCTGGATAAAATACTAAATGGGCTATTGACGTTGAGCCAATTTGATTGTAGCTGTTTT
1 ATAAAGATCTGGATAAAATACTAAATGAGCCATTGACCTTGAGCCAAAGTGATTCTAGCTGTTCT
*
60398 GTCCAATTATCTTTAATTTGAAG
66 GCCCAATTATCTTTAATTTGAAG
* *
60421 ATAAAGATTTGGATAAAATACTAAATGAGCCCTTGACCTTGAGCCAAAGTGATTCTAGCTGTTCT
1 ATAAAGATCTGGATAAAATACTAAATGAGCCATTGACCTTGAGCCAAAGTGATTCTAGCTGTTCT
*
60486 GCCCAATTATCTTTAATTTGATG
66 GCCCAATTATCTTTAATTTGAAG
60509 ATA
1 ATA
60512 TTTTGGGTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (88 bp):
ATAAAGATCTGGATAAAATACTAAATGAGCCATTGACCTTGAGCCAAAGTGATTCTAGCTGTTCT
GCCCAATTATCTTTAATTTGAAG
Found at i:61220 original size:36 final size:39
Alignment explanation
Indices: 61159--61258 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 39
61149 TATGTTCACG
* * * * *
61159 AATAATAAATTAGTTTTATATATAAAAT-AATAAATCATA
1 AATAATATATTAATTATAT-TATAAAATAAATAAAACACA
61198 AAT-AT-TATTAATTATATTAT-AAATAAATAAAACACA
1 AATAATATATTAATTATATTATAAAATAAATAAAACACA
61234 AATAATAATATTAATTATATTATAA
1 AATAAT-ATATTAATTATATTATAA
61259 TTGAATAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
35 4 0.08
36 15 0.29
37 11 0.22
38 2 0.04
39 18 0.35
40 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (39 bp):
AATAATATATTAATTATATTATAAAATAAATAAAACACA
Found at i:61575 original size:2 final size:2
Alignment explanation
Indices: 61561--61595 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
61551 TGGGGGAAAC
*
61561 AT AT AT AC A- 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
61596 CAGTATGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:63519 original size:22 final size:20
Alignment explanation
Indices: 63468--63523 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 20
63458 ATTATGATAT
*
63468 CTTTCTTTTTTTT--TTT-G
1 CTTTGTTTTTTTTAATTTGG
63485 CTTTGTTTTTTTTAATTTGG
1 CTTTGTTTTTTTTAATTTGG
63505 CTTTGTTATTTTTTTAATT
1 CTTTG-T-TTTTTTTAATT
63524 AGGTATGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 12 0.36
19 3 0.09
20 6 0.18
21 1 0.03
22 11 0.33
ACGTcount: A:0.09, C:0.07, G:0.09, T:0.75
Consensus pattern (20 bp):
CTTTGTTTTTTTTAATTTGG
Found at i:63580 original size:44 final size:44
Alignment explanation
Indices: 63517--63600 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
63507 TTGTTATTTT
*
63517 TTTAATTAGGTATGGGTTTAAGTTTATATAGATTTTTAGTCAGG
1 TTTAATTAGGTATGAGTTTAAGTTTATATAGATTTTTAGTCAGG
* *
63561 TTTAATTTGGTTTGAGTTTAAGTTTATATAGATTTTTAGT
1 TTTAATTAGGTATGAGTTTAAGTTTATATAGATTTTTAGT
63601 TTGTGTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.26, C:0.01, G:0.20, T:0.52
Consensus pattern (44 bp):
TTTAATTAGGTATGAGTTTAAGTTTATATAGATTTTTAGTCAGG
Found at i:64150 original size:20 final size:21
Alignment explanation
Indices: 64127--64171 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
64117 TTAGTAATTT
64127 TATTTTATAAT-ATAATTATA
1 TATTTTATAATAATAATTATA
* *
64147 TATTCTATAATAATATTTATA
1 TATTTTATAATAATAATTATA
64168 -ATTT
1 TATTT
64172 ATCTTAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTTTATAATAATAATTATA
Found at i:64439 original size:16 final size:16
Alignment explanation
Indices: 64395--64478 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 16
64385 CTCATTTCAG
64395 GTTTAGGTTATTTCGA
1 GTTTAGGTTATTTCGA
* ** *
64411 ATTCGGGTCATTTCGA
1 GTTTAGGTTATTTCGA
* * *
64427 GTTTTGGTTATTTTGG
1 GTTTAGGTTATTTCGA
* *
64443 GTTCAGGTTGTTTCGA
1 GTTTAGGTTATTTCGA
* *
64459 GTTTAGATCATTTCGA
1 GTTTAGGTTATTTCGA
64475 GTTT
1 GTTT
64479 GGATCAATCG
Statistics
Matches: 49, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.15, C:0.10, G:0.26, T:0.49
Consensus pattern (16 bp):
GTTTAGGTTATTTCGA
Found at i:64483 original size:16 final size:16
Alignment explanation
Indices: 64453--64484 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64443 GTTCAGGTTG
64453 TTTCGAGTTTAGATCA
1 TTTCGAGTTTAGATCA
*
64469 TTTCGAGTTTGGATCA
1 TTTCGAGTTTAGATCA
64485 ATCGGGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (16 bp):
TTTCGAGTTTAGATCA
Found at i:65622 original size:17 final size:16
Alignment explanation
Indices: 65590--65640 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
65580 ACAAATAAGT
65590 TTTTTAAAATATATTA
1 TTTTTAAAATATATTA
65606 TTTTTAAAATATAATTA
1 TTTTTAAAATAT-ATTA
* *
65623 CTTAT-AAATAT-TTA
1 TTTTTAAAATATATTA
65637 TTTT
1 TTTT
65641 CATTAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.17
16 18 0.60
17 7 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTAAAATATATTA
Found at i:66060 original size:22 final size:21
Alignment explanation
Indices: 65999--66060 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
65989 TCCAATTTTG
* *
65999 TAATTATTTTTTTTGTTTTCAT
1 TAATTACTATTTTT-TTTTCAT
*
66021 TAATTACTATTTTGTTTTCAT
1 TAATTACTATTTTTTTTTCAT
**
66042 TAATTTGTAGTTTTTTTTT
1 TAATTACTA-TTTTTTTTT
66061 TGTTATGGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 14 0.42
22 19 0.58
ACGTcount: A:0.19, C:0.05, G:0.06, T:0.69
Consensus pattern (21 bp):
TAATTACTATTTTTTTTTCAT
Found at i:67191 original size:14 final size:15
Alignment explanation
Indices: 67157--67191 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
67147 TTTCACATAT
67157 TTTTCATTTCATGCA
1 TTTTCATTTCATGCA
67172 TTTTCATTTCATGC-
1 TTTTCATTTCATGCA
67186 TTTTCA
1 TTTTCA
67192 CGTAACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTTCATTTCATGCA
Found at i:67229 original size:5 final size:5
Alignment explanation
Indices: 67219--67308 Score: 99
Period size: 5 Copynumber: 18.0 Consensus size: 5
67209 GCATAATTTT
* * * *
67219 CATTG CATTG CATTT CATTT CATTT CATTG CATTG CATTT CATTG CATTG
1 CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG
* * * * *
67269 CATTT CATTT CATTA CATTG CATTT CATTT CATTG CATTG
1 CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG
67309 GTTTCATGCA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 76 1.00
ACGTcount: A:0.21, C:0.20, G:0.10, T:0.49
Consensus pattern (5 bp):
CATTG
Found at i:67236 original size:15 final size:15
Alignment explanation
Indices: 67216--67307 Score: 112
Period size: 15 Copynumber: 6.1 Consensus size: 15
67206 CATGCATAAT
67216 TTTCATTGCATTGCA
1 TTTCATTGCATTGCA
* *
67231 TTTCATTTCATTTCA
1 TTTCATTGCATTGCA
* *
67246 TTGCATTGCATTTCA
1 TTTCATTGCATTGCA
* *
67261 TTGCATTGCATTTCA
1 TTTCATTGCATTGCA
*
67276 TTTCATTACATTGCA
1 TTTCATTGCATTGCA
*
67291 TTTCATTTCATTGCA
1 TTTCATTGCATTGCA
67306 TT
1 TT
67308 GGTTTCATGC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 69 1.00
ACGTcount: A:0.21, C:0.20, G:0.09, T:0.51
Consensus pattern (15 bp):
TTTCATTGCATTGCA
Found at i:67241 original size:20 final size:20
Alignment explanation
Indices: 67216--67308 Score: 159
Period size: 20 Copynumber: 4.7 Consensus size: 20
67206 CATGCATAAT
67216 TTTCATTGCATTGCATTTCA
1 TTTCATTGCATTGCATTTCA
* *
67236 TTTCATTTCATTGCATTGCA
1 TTTCATTGCATTGCATTTCA
67256 TTTCATTGCATTGCATTTCA
1 TTTCATTGCATTGCATTTCA
*
67276 TTTCATTACATTGCATTTCA
1 TTTCATTGCATTGCATTTCA
67296 TTTCATTGCATTG
1 TTTCATTGCATTG
67309 GTTTCATGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.20, C:0.19, G:0.10, T:0.51
Consensus pattern (20 bp):
TTTCATTGCATTGCATTTCA
Found at i:68663 original size:16 final size:15
Alignment explanation
Indices: 68642--68672 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
68632 AATTTCCATA
68642 AAAATAATAACAAAAT
1 AAAATAATAA-AAAAT
68658 AAAATAATAAAAAAT
1 AAAATAATAAAAAAT
68673 TCTTTTTTTA
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:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAATAAAAAAT
Found at i:81953 original size:42 final size:42
Alignment explanation
Indices: 81163--81944 Score: 902
Period size: 42 Copynumber: 18.6 Consensus size: 42
81153 CTTTTTTGTT
** *
81163 TTCCCTTAGTCTGCCTGTCGGCTTCATCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* ** *
81205 TTCCCTTAGTCTACCTGTCGGCTTCATCCCTAGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* ** *
81247 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCCAGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* ** * *
81289 TACCCTTAGTCTGCCTGTCGGCTTCATTCCTGGAGACTTTCT
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* *
81331 TTCCCTTAGTCTGCCTGTTGGCTTTGTCCCTGGAGACATTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* *
81373 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* * * * *
81415 TTCCCTTAGTCTGCTTGTTGGCTTTGACCCCGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* * ** *
81457 TACCCTTAGTTTGCCTGTCGGCTTCATTCCTGGAGACTTT-C
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* * * *
81498 TTTCCTTAGTCTGCCTGTCGGCTTCGTTCCTGGAGACTTTCT
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* *
81540 TTCCCTTAGTCTGCCTGTCGGCTTCGTTCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* *
81582 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* * *
81624 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCCAGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTTG-TCCCTGGAGACTTTCC
* * * * *
81667 TACCCTTAGTCTGCCTGTCGACTTCGTTCCTGGAGACTTTCT
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* **
81709 TTCCCTTAGTCTGCCTGTTGGCTTCATCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* * ** * * *
81751 TTCCCTTAGTCTACCTGTCAGCTTCATTCTTGGAGACTTTCT
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* * * * *
81793 TTCCTTTAGTCTGCCTATCGGCTTCGTTCCTGGAGACTTTCT
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* *
81835 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTAGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
* * *
81877 TTCCCTTAGTCTACCTGTTGG-TTTCGTCCCTAGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTT-GTCCCTGGAGACTTTCC
* * * *
81919 TACCCTTAATCTACCTGTCGACTTTG
1 TTCCCTTAGTCTGCCTGTCGGCTTTG
81945 ACCTTAGAGG
Statistics
Matches: 639, Mismatches: 97, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
41 39 0.06
42 561 0.88
43 39 0.06
ACGTcount: A:0.11, C:0.32, G:0.19, T:0.38
Consensus pattern (42 bp):
TTCCCTTAGTCTGCCTGTCGGCTTTGTCCCTGGAGACTTTCC
Found at i:82103 original size:14 final size:15
Alignment explanation
Indices: 82073--82105 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
82063 AACTGTATGG
*
82073 TCCTGCTTTTGTTTT
1 TCCTGCATTTGTTTT
82088 TCCTGCATTT-TTTT
1 TCCTGCATTTGTTTT
82102 TCCT
1 TCCT
82106 CTTAGACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.03, C:0.24, G:0.09, T:0.64
Consensus pattern (15 bp):
TCCTGCATTTGTTTT
Found at i:82610 original size:5 final size:5
Alignment explanation
Indices: 82600--82734 Score: 153
Period size: 5 Copynumber: 27.0 Consensus size: 5
82590 GCATAATTTT
* * * *
82600 CATTG CATTG CATTT CATTT CATTT CATTG CATTG CATTT CATTG CATTG
1 CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG
* * * * * * *
82650 CATTT CATTA CATTG CATTT CATTT CATTT CATTT CATTG CATTG CATTT
1 CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG
* *
82700 CATTG CATTG CATTG CATTT CATTT CATTG CATTG
1 CATTG CATTG CATTG CATTG CATTG CATTG CATTG
82735 GTTTCATGCA
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 117 1.00
ACGTcount: A:0.21, C:0.20, G:0.10, T:0.49
Consensus pattern (5 bp):
CATTG
Found at i:82617 original size:15 final size:15
Alignment explanation
Indices: 82600--82734 Score: 180
Period size: 15 Copynumber: 9.0 Consensus size: 15
82590 GCATAATTTT
* *
82600 CATTGCATTGCATTT
1 CATTGCATTTCATTG
*
82615 CATTTCATTTCATTG
1 CATTGCATTTCATTG
82630 CATTGCATTTCATTG
1 CATTGCATTTCATTG
*
82645 CATTGCATTTCATTA
1 CATTGCATTTCATTG
*
82660 CATTGCATTTCATTT
1 CATTGCATTTCATTG
*
82675 CATTTCATTTCATTG
1 CATTGCATTTCATTG
82690 CATTGCATTTCATTG
1 CATTGCATTTCATTG
* *
82705 CATTGCATTGCATTT
1 CATTGCATTTCATTG
* *
82720 CATTTCATTGCATTG
1 CATTGCATTTCATTG
82735 GTTTCATGCA
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 107 1.00
ACGTcount: A:0.21, C:0.20, G:0.10, T:0.49
Consensus pattern (15 bp):
CATTGCATTTCATTG
Found at i:82622 original size:20 final size:20
Alignment explanation
Indices: 82597--82734 Score: 204
Period size: 20 Copynumber: 6.9 Consensus size: 20
82587 CATGCATAAT
*
82597 TTTCATTGCATTGCATTTCA
1 TTTCATTGCATTGCATTGCA
*
82617 TTTCATTTCATTGCATTGCA
1 TTTCATTGCATTGCATTGCA
*
82637 TTTCATTGCATTGCATTTCA
1 TTTCATTGCATTGCATTGCA
* * *
82657 TTACATTGCATTTCATTTCA
1 TTTCATTGCATTGCATTGCA
*
82677 TTTCATTTCATTGCATTGCA
1 TTTCATTGCATTGCATTGCA
82697 TTTCATTGCATTGCATTGCA
1 TTTCATTGCATTGCATTGCA
*
82717 TTTCATTTCATTGCATTG
1 TTTCATTGCATTGCATTG
82735 GTTTCATGCA
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 106 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCATTGCATTGCATTGCA
Found at i:84082 original size:16 final size:15
Alignment explanation
Indices: 84061--84091 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
84051 GATTTCCATA
84061 AAAATAATAACAAAAT
1 AAAATAATAA-AAAAT
84077 AAAATAATAAAAAAT
1 AAAATAATAAAAAAT
84092 TCTTTTTTTA
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:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAATAAAAAAT
Found at i:87803 original size:23 final size:23
Alignment explanation
Indices: 87773--87818 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
87763 GTCATTTGAT
87773 ATTCTTGGTTATTGGAGAGACAA
1 ATTCTTGGTTATTGGAGAGACAA
87796 ATTCTTGGTTATTGGAGAGACAA
1 ATTCTTGGTTATTGGAGAGACAA
87819 TTATTATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (23 bp):
ATTCTTGGTTATTGGAGAGACAA
Found at i:91126 original size:50 final size:50
Alignment explanation
Indices: 91066--91275 Score: 303
Period size: 50 Copynumber: 4.2 Consensus size: 50
91056 ATATACTTAG
* *
91066 AGTCAACAATTATGGTCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAAT
* *
91116 TGTCAACAATTATGGCCACCTCCTTCTATTGTCAAAAGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAAT
** *
91166 AGTCAACAATTATGATCATCTCCTTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAAT
* * * * *
91216 CGTCAACAATTATGGCCACCTCTTTCTATTATCAAAGGTTGATGAAGGAT
1 AGTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAAT
*
91266 AGTCAGCAAT
1 AGTCAACAAT
91276 GACAACAACT
Statistics
Matches: 141, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 141 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (50 bp):
AGTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAAT
Found at i:93271 original size:2 final size:2
Alignment explanation
Indices: 93264--93310 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
93254 GTCATGTTAA
93264 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
93306 AT AT A
1 AT AT A
93311 AGCATGAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:95201 original size:33 final size:33
Alignment explanation
Indices: 95164--95230 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
95154 TTCAACGATT
95164 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
95197 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
95230 T
1 T
95231 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:95202 original size:13 final size:13
Alignment explanation
Indices: 95184--95208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95174 CATAAAATGT
95184 TGTATCGATACAA
1 TGTATCGATACAA
95197 TGTATCGATACA
1 TGTATCGATACA
95209 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:95289 original size:13 final size:13
Alignment explanation
Indices: 95271--95295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95261 ATTACTCAAA
95271 TGTATCGATACAT
1 TGTATCGATACAT
95284 TGTATCGATACA
1 TGTATCGATACA
95296 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:95397 original size:52 final size:52
Alignment explanation
Indices: 95304--95431 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
95294 CACTGATCTT
*
95304 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
* *
95355 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATTGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
95407 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
95432 TCATATTTCG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 19 0.26
52 50 0.69
53 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:99491 original size:10 final size:10
Alignment explanation
Indices: 99461--99493 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
99451 CTTGTGCTTG
99461 TAATTATGTT
1 TAATTATGTT
*
99471 TAA-TATTTT
1 TAATTATGTT
99480 TAATTATGTT
1 TAATTATGTT
99490 TAAT
1 TAAT
99494 GTTTATAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (10 bp):
TAATTATGTT
Found at i:99841 original size:13 final size:13
Alignment explanation
Indices: 99823--99847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99813 TTCAACGATT
99823 TGTATCGATACAA
1 TGTATCGATACAA
99836 TGTATCGATACA
1 TGTATCGATACA
99848 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:99929 original size:13 final size:13
Alignment explanation
Indices: 99911--99935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99901 ATCACTTAAA
99911 TGTATCGATACAT
1 TGTATCGATACAT
99924 TGTATCGATACA
1 TGTATCGATACA
99936 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:100000 original size:52 final size:52
Alignment explanation
Indices: 99944--100072 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
99934 CACTGATCTT
99944 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAATATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAATATAAAA
* **
99996 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAATATAAAA
100048 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
100073 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAATATAAAA
Found at i:103403 original size:30 final size:29
Alignment explanation
Indices: 103369--103554 Score: 192
Period size: 30 Copynumber: 6.0 Consensus size: 29
103359 TGTTGTATCA
**
103369 TTTTCTAAGTCCATAACTCAGTGGCATCCT
1 TTTTCTAAGTCCACGACTCAGTGGCAT-CT
*
103399 TTTTCTAAGTCCACAACTCAGTGGCATCCTT
1 TTTTCTAAGTCCACGACTCAGTGGCAT-C-T
103430 TTCTTCCTAAAGTCCACGACTCAGTGGCAATCT
1 TT-TT-CT-AAGTCCACGACTCAGTGGC-ATCT
* * *
103463 CTTCTCAAAGTCCATGACTCAGTGGCATCT
1 -TTTTCTAAGTCCACGACTCAGTGGCATCT
103493 TCTTTCTAAAGTCCACGACTCAGTGGCATCT
1 T-TTTCT-AAGTCCACGACTCAGTGGCATCT
* * *
103524 CTTGTCCAAGTCCACGATTCAGTGGCATCT
1 -TTTTCTAAGTCCACGACTCAGTGGCATCT
103554 T
1 T
103555 GTCCCAAAAT
Statistics
Matches: 136, Mismatches: 11, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
29 2 0.01
30 57 0.42
31 46 0.34
32 4 0.03
33 4 0.03
34 21 0.15
35 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (29 bp):
TTTTCTAAGTCCACGACTCAGTGGCATCT
Found at i:103613 original size:34 final size:33
Alignment explanation
Indices: 103564--103912 Score: 317
Period size: 34 Copynumber: 10.8 Consensus size: 33
103554 TGTCCCAAAA
* *
103564 TCCATAACTCCGTGGCATCCTTGTTCCTTTTAAG
1 TCCACAACTCCGTGGCA-CCTTTTTCCTTTTAAG
* * * *
103598 TCTACAACTCTGTGGCACATTTTTCTTTTTAAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTT-AAG
*
103632 TCCACAACTCCGTGGCACCTTTTTCTTTTTAAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTT-AAG
* * *
103666 CCCACAACTCTGTGGTA-C-----CCTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
* *
103693 TCCACAACTCCATGGCACCTTTTTCTTTTTAAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTT-AAG
*
103727 CCCACAACTCCGTGGCA-C-----CCTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
** **
103754 TCCACAACTCTATGGCACCTTTTTTTTTTTAAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTT-AAG
* *
103788 CCCACAACTCCGTGGCATTCTTTTTCCTTTTAAG
1 TCCACAACTCCGTGGCA-CCTTTTTCCTTTTAAG
*
103822 TCCACAACTCCGTGGCACCTTTTCCCTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
* * *
103855 TCCATAACTCCGTGGCATCTTTCTCCTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
* * * *
103888 CCCACAAGTCAGTGGCACCCTTTTC
1 TCCACAACTCCGTGGCACCTTTTTC
103913 AAAAGCCCAC
Statistics
Matches: 253, Mismatches: 46, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
27 33 0.13
28 12 0.05
33 82 0.32
34 116 0.46
35 10 0.04
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (33 bp):
TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
Found at i:103695 original size:61 final size:61
Alignment explanation
Indices: 103624--103869 Score: 314
Period size: 61 Copynumber: 3.9 Consensus size: 61
103614 ACATTTTTCT
* *
103624 TTTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGTACCC
1 TTTT-AAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGTACCC
*
103686 TTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGTACCC
* * *
103747 TTTTAAGTCCACAACTCTATGGCACCTTTTTTTTTTTAAAGCCCACAACTCCGTGGCATTCTTTT
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGG--TAC----
103812 TCC
60 -CC
* * * * *
103815 TTTTAAGTCCACAACTCCGTGGCACCTTTTCCCTTTT-AAGTCCATAACTCCGTGG
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGG
103870 CATCTTTCTC
Statistics
Matches: 163, Mismatches: 14, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
61 108 0.66
62 4 0.02
63 1 0.01
67 16 0.10
68 34 0.21
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (61 bp):
TTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGTACCC
Found at i:103920 original size:30 final size:29
Alignment explanation
Indices: 103885--103980 Score: 124
Period size: 30 Copynumber: 3.3 Consensus size: 29
103875 TTCTCCTTTT
103885 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCACCC-TTTCAA
*
103915 AAGCCCACAAGTCAGTGGCAACCTTT-AA
1 AAGCCCACAAGTCAGTGGCACCCTTTCAA
* **
103943 AAGCACACAAGTTGGT-GCAACCCTTTCAA
1 AAGCCCACAAGTCAGTGGC-ACCCTTTCAA
103972 AAGCCCACA
1 AAGCCCACA
103981 CAAGTTGGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 21 0.36
29 13 0.22
30 22 0.38
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.18
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCACCCTTTCAA
Found at i:103984 original size:31 final size:30
Alignment explanation
Indices: 103904--103990 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 30
103894 AGTCAGTGGC
**
103904 ACCCTTTTCAAAAGCC-CACAAGTCAGTGGCA
1 ACCC-TTTCAAAAGCCACACAAGTTGGT-GCA
103935 A-CCTTT-AAAAG-CACACAAGTTGGTGCA
1 ACCCTTTCAAAAGCCACACAAGTTGGTGCA
103962 ACCCTTTCAAAAGCCCACACAAGTTGGTG
1 ACCCTTTCAAAAG-CCACACAAGTTGGTG
103991 GCGTCTTCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
27 5 0.10
28 19 0.39
29 8 0.16
30 2 0.04
31 15 0.31
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (30 bp):
ACCCTTTCAAAAGCCACACAAGTTGGTGCA
Found at i:104110 original size:39 final size:39
Alignment explanation
Indices: 104052--104387 Score: 251
Period size: 39 Copynumber: 7.9 Consensus size: 39
104042 CTTTGTCTTT
* * *
104052 AAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
104091 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C
* * *
104131 TTGTTTTTAAGACCAATGTCGCTGGCCTTGACTCAGCACATTGGCAC
1 --------AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
104178 AAG-CCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTGTC
1 AAGACC-AATATCGCTGGCCTTGAATCAGCATATTGGCA------C
*
104223 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCAC
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
104265 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGG--CA----C
* * * * * * *
104310 TTTAAGACCAATGTCGCTAGCTTTAAATAAGCACATTGGCAT
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
104352 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGG
104388 TGCCTTTGTC
Statistics
Matches: 237, Mismatches: 31, Indels: 58
0.73 0.10 0.18
Matches are distributed among these distances:
38 2 0.01
39 128 0.54
40 1 0.00
41 2 0.01
42 1 0.00
45 2 0.01
46 2 0.01
47 1 0.00
48 96 0.41
49 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (39 bp):
AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:104179 original size:87 final size:87
Alignment explanation
Indices: 104003--104644 Score: 748
Period size: 87 Copynumber: 7.0 Consensus size: 87
103993 GTCTTCTTCT
* *
104003 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGTTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTTTTTAAGACCAATGTCGCTG
104068 GCCTTGAATCAGCACATTGGCAC
65 GCCTTGAATCAGCACATTGGCAC
104091 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTTAAGACCAATGTCGCTGG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTTAAGACCAATGTCGCTGG
*
104156 CCTTGACTCAGCACATTGGCAC
66 CCTTGAATCAGCACATTGGCAC
* *
104178 AAG-CCTAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
1 AAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTTAAGACCAATGTCGCTG
*
104242 GCCTTGAATCAGCATATTGGCAC
65 GCCTTGAATCAGCACATTGGCAC
* * *
104265 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTTTAAGACCAATGTCGCTAG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTTAAGACCAATGTCGCTGG
* * * *
104330 CTTTAAATAAGCACATTGGCAT
66 CCTTGAATCAGCACATTGGCAC
** * *
104352 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAATGCCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT--T-TTTAAGACCAATGTCG
*
104417 CTGGCTTTGAATCAGCACATTGGCACTTTCATC
62 CTGGCCTTGAATCAGCACATTGG------CA-C
*
104450 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGACCAATG
1 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GT--T-TTTAAGACCAATG
104515 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
59 TCGCTGGCCTTGAATCAGCACATTGG------CA-C
***
104551 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGATGCCTTCGTCATCTTTCAA-ACCAAT
1 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GT--T-TTT-AAGACCAAT
*
104615 GTCGCTGGCCTTGAATTAGCACATTGGCAC
58 GTCGCTGGCCTTGAATCAGCACATTGGCAC
104645 CTTCATCCTT
Statistics
Matches: 503, Mismatches: 33, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
86 2 0.00
87 237 0.47
88 46 0.09
91 34 0.07
94 1 0.00
95 2 0.00
97 2 0.00
100 2 0.00
101 175 0.35
102 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (87 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTTAAGACCAATGTCGCTGG
CCTTGAATCAGCACATTGGCAC
Found at i:104429 original size:52 final size:52
Alignment explanation
Indices: 104351--104679 Score: 365
Period size: 52 Copynumber: 6.5 Consensus size: 52
104341 CACATTGGCA
*
104351 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTT
** *
104403 TAAGTCCAATGCCGCTGGCTTTGAATCAGCACATT-G-GCAC-TT-TCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGTGC-CTTTGTCATCTT
* * *
104452 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTT
* * **
104504 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTT
* * *
104553 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGATGCCTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTT
* * * ** *
104605 TCAA-ACCAATGTCGCTGGCCTTGAATTAGCACATTGGCACC--T-TCATCCT
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTT
* *
104654 TAAGTCCAATATTGTTGGCCTTGAAT
1 TAAGTCCAATATCGCTGGCCTTGAAT
104680 TAGCGTATTG
Statistics
Matches: 232, Mismatches: 35, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.01
49 105 0.45
50 6 0.03
51 4 0.02
52 113 0.49
53 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (52 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTT
Found at i:104528 original size:101 final size:101
Alignment explanation
Indices: 104351--104788 Score: 560
Period size: 101 Copynumber: 4.4 Consensus size: 101
104341 CACATTGGCA
* * * *
104351 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAATGCC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGACCAATGTC
* *
104416 GCTGGCTTTGAATCAGCACATTGGCACTTTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
104452 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGACCAATGTC
104517 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
104553 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGATGCCTTCGTCATCTTTCAA-ACCAATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTT-AAGACCAATGT
* *
104617 CGCTGGCCTTGAATTAGCACATTGGCACCTTCATCCT
65 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * * *** * *
104654 TAAGTCCAATATTGTTGGCCTTGAATTAGCGTATTGGCATCTTTAACAT-TCCTAAGCCCAATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCT-TTAAGACCAATGT
* ** *
104718 CGTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTT
65 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
104753 CAAGTCTAATGTCGCTGGCCATGAATCAGCACATTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
104789 TCATTCTTTG
Statistics
Matches: 296, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
99 33 0.11
100 3 0.01
101 258 0.87
102 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (101 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGACCAATGTC
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:105560 original size:19 final size:19
Alignment explanation
Indices: 105536--105598 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
105526 AAACAGTAAC
105536 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
105555 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
*
105568 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGTGT
105587 TGTATCGATACA
1 TGTATCGATACA
105599 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:105578 original size:32 final size:32
Alignment explanation
Indices: 105536--105606 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
105526 AAACAGTAAC
105536 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
105568 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
105600 TGTATCG
1 TGTATCG
105607 CTGCAAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:108962 original size:13 final size:13
Alignment explanation
Indices: 108944--108969 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108934 TACACCAAGT
108944 ATGTATCGATACA
1 ATGTATCGATACA
108957 ATGTATCGATACA
1 ATGTATCGATACA
108970 TAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:115157 original size:13 final size:13
Alignment explanation
Indices: 115139--115170 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
115129 CATTTTTCTT
115139 TGTATCGATACAA
1 TGTATCGATACAA
*
115152 TGTATCGATACAT
1 TGTATCGATACAA
115165 TGTATC
1 TGTATC
115171 AGGGTGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:115335 original size:20 final size:20
Alignment explanation
Indices: 115292--115337 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
115282 AAATCTTTTG
115292 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
115313 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
115333 CAAAA
1 CAAAA
115338 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:119714 original size:18 final size:17
Alignment explanation
Indices: 119691--119734 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
119681 TACATTATAC
119691 GTATTATTTAAAATAAAA
1 GTATTATTTAAAA-AAAA
*
119709 GTATTATTTTAAAAAAA
1 GTATTATTTAAAAAAAA
*
119726 -TATAATTTA
1 GTATTATTTA
119735 TTCTCATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 7 0.30
17 4 0.17
18 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
GTATTATTTAAAAAAAA
Found at i:121467 original size:20 final size:21
Alignment explanation
Indices: 121442--121502 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
121432 ATTAATTATA
121442 ATTTTTAATTTT-TATTAATT
1 ATTTTTAATTTTATATTAATT
*
121462 ATTTTTAATAATTTAAATTAATT
1 ATTTTTAAT--TTTATATTAATT
*
121485 TTTATTTAATTTTATATT
1 ATT-TTTAATTTTATATT
121503 TTTATTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.26
22 10 0.29
23 9 0.26
24 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTTTAATTTTATATTAATT
Found at i:121473 original size:23 final size:24
Alignment explanation
Indices: 121429--121494 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
121419 AATATAATAA
* *
121429 TAAATTAATTATAATTT-TTAATT
1 TAAATTAATTATTATTTAATAATT
**
121452 TTTATTAATTATT-TTTAATAATT
1 TAAATTAATTATTATTTAATAATT
*
121475 TAAATTAATTTTTATTTAAT
1 TAAATTAATTATTATTTAAT
121495 TTTATATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 3 0.09
23 25 0.74
24 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TAAATTAATTATTATTTAATAATT
Found at i:121968 original size:2 final size:2
Alignment explanation
Indices: 121961--121994 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
121951 TTGCATCTAG
121961 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
121995 GCTATTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122076 original size:21 final size:21
Alignment explanation
Indices: 122029--122109 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
122019 ATTAATTTCG
* *
122029 ATAAAATTGTAAATAATAATAAAA
1 ATAAAA-T-TAAAT-ATTATAATA
122053 ATAAAATTAAATATTATAATA
1 ATAAAATTAAATATTATAATA
* *
122074 ATAAAATTAAATAATATAATG
1 ATAAAATTAAATATTATAATA
122095 ATAAAATTAAA-ATTA
1 ATAAAATTAAATATTA
122110 GTGATATCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
20 3 0.06
21 37 0.71
22 5 0.10
23 1 0.02
24 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAAATTAAATATTATAATA
Found at i:122098 original size:27 final size:26
Alignment explanation
Indices: 122041--122109 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
122031 AAAATTGTAA
* *
122041 ATAATAATAAAAATAAAATTAAATATT
1 ATAATAAT-AAAATTAAATTAAATATG
122068 ATAATAATAAAATTAAA-TAATATAATG
1 ATAATAATAAAATTAAATTAA-AT-ATG
122095 ATAA-AATTAAAATTA
1 ATAATAA-TAAAATTA
122110 GTGATATCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 3 0.08
26 12 0.32
27 22 0.59
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (26 bp):
ATAATAATAAAATTAAATTAAATATG
Found at i:128035 original size:3 final size:3
Alignment explanation
Indices: 128027--128072 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
128017 TTATGGTGCT
*
128027 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
128073 GCTTCCACCC
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:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:128305 original size:3 final size:3
Alignment explanation
Indices: 128297--128334 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
128287 TGTTGAAATC
128297 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
128335 ACTTTTTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:128558 original size:20 final size:20
Alignment explanation
Indices: 128522--128559 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
128512 GGCTCTAATA
*
128522 TTATTAATTCCCTTTAATTT
1 TTATTAATTCCCATTAATTT
128542 TTATTCAATT-CCATTAAT
1 TTATT-AATTCCCATTAAT
128560 GGATGCGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATTAATTCCCATTAATTT
Found at i:134093 original size:17 final size:19
Alignment explanation
Indices: 134071--134118 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 19
134061 TTAGAATTGC
134071 AATTATATTTTTA-TT-TT
1 AATTATATTTTTATTTATT
134088 AATTATATTATTTATTTATT
1 AATTATATT-TTTATTTATT
134108 AATTAATATTT
1 AATT-ATATTT
134119 AATTCAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
18 4 0.15
19 2 0.07
20 7 0.26
21 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
AATTATATTTTTATTTATT
Found at i:138619 original size:17 final size:16
Alignment explanation
Indices: 138597--138630 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
138587 TTCCTTCCTT
*
138597 TCTTTTTTCTTTTTTTC
1 TCTTTTTT-TTTTCTTC
138614 TCTTTTTTTTTTCTTC
1 TCTTTTTTTTTTCTTC
138630 T
1 T
138631 TATTTCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TCTTTTTTTTTTCTTC
Found at i:138623 original size:21 final size:23
Alignment explanation
Indices: 138594--138637 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
138584 TCTTTCCTTC
138594 CTTTCTTTTTTCTT-TT-TTTCT
1 CTTTCTTTTTTCTTCTTATTTCT
*
138615 CTTTTTTTTTTCTTCTTATTTCT
1 CTTTCTTTTTTCTTCTTATTTCT
138638 TAAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 2 0.10
23 5 0.25
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (23 bp):
CTTTCTTTTTTCTTCTTATTTCT
Found at i:148839 original size:13 final size:13
Alignment explanation
Indices: 148819--148858 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
148809 TACTATTTAT
148819 AATGTATCGATAC
1 AATGTATCGATAC
*
148832 ACTGTATCGATAC
1 AATGTATCGATAC
148845 AATGTATCGATAC
1 AATGTATCGATAC
148858 A
1 A
148859 TGAATAGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:149004 original size:53 final size:53
Alignment explanation
Indices: 148940--149076 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
148930 CTACTTCCAA
*
148940 TGTATCGATACATATTTTGTGTATCGATAGAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
** *
148993 TGTATCGATACATATTGCGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
149046 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
149077 TATGCAATCT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 65 0.84
54 12 0.16
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:149109 original size:20 final size:20
Alignment explanation
Indices: 149046--149116 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
149036 GCCAATGTCC
**
149046 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
149066 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
149086 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
149106 TGTATCGATAC
1 TGTATCGATAC
149117 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:149182 original size:21 final size:21
Alignment explanation
Indices: 149156--149196 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
149146 GTCAACCTTG
149156 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
149177 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
149197 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:149914 original size:115 final size:115
Alignment explanation
Indices: 149778--150013 Score: 472
Period size: 115 Copynumber: 2.1 Consensus size: 115
149768 TTTATACTAA
149778 TATTCTTCAATATTTTCAGTTTCTTCCTTTATAACAAATAATCAATTCTATTTCTCTACGAATTC
1 TATTCTTCAATATTTTCAGTTTCTTCCTTTATAACAAATAATCAATTCTATTTCTCTACGAATTC
149843 TCCCCCATTGTGAAACATCTCTTTTCTCCCCCTTTTTATTAGGCCAAATC
66 TCCCCCATTGTGAAACATCTCTTTTCTCCCCCTTTTTATTAGGCCAAATC
149893 TATTCTTCAATATTTTCAGTTTCTTCCTTTATAACAAATAATCAATTCTATTTCTCTACGAATTC
1 TATTCTTCAATATTTTCAGTTTCTTCCTTTATAACAAATAATCAATTCTATTTCTCTACGAATTC
149958 TCCCCCATTGTGAAACATCTCTTTTCTCCCCCTTTTTATTAGGCCAAATC
66 TCCCCCATTGTGAAACATCTCTTTTCTCCCCCTTTTTATTAGGCCAAATC
150008 TATTCT
1 TATTCT
150014 CTCCTTTTTT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 121 1.00
ACGTcount: A:0.25, C:0.26, G:0.05, T:0.44
Consensus pattern (115 bp):
TATTCTTCAATATTTTCAGTTTCTTCCTTTATAACAAATAATCAATTCTATTTCTCTACGAATTC
TCCCCCATTGTGAAACATCTCTTTTCTCCCCCTTTTTATTAGGCCAAATC
Found at i:150919 original size:13 final size:13
Alignment explanation
Indices: 150901--150925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
150891 ACTGAAGCAA
150901 TGTATCGATACAT
1 TGTATCGATACAT
150914 TGTATCGATACA
1 TGTATCGATACA
150926 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:151555 original size:23 final size:24
Alignment explanation
Indices: 151510--151556 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
151500 CAAAGAATTG
*
151510 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
151534 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
151557 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:154821 original size:53 final size:53
Alignment explanation
Indices: 154757--154893 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
154747 CTACTTCCAA
*
154757 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCTAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
154810 TGTATCGATACATCTTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
154863 TGTATCGATACATATTTGTTTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
154894 TATGCAATCT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
53 64 0.84
54 12 0.16
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:154999 original size:21 final size:21
Alignment explanation
Indices: 154973--155013 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
154963 GTCAACCTTG
154973 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
154994 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
155014 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:155617 original size:14 final size:14
Alignment explanation
Indices: 155593--155627 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
155583 ATTTTATATG
155593 CAAATAGACAACATT
1 CAAA-AGACAACATT
155608 CAAAAGACAACATT
1 CAAAAGACAACATT
155622 CAAAAG
1 CAAAAG
155628 TAAGTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.57, C:0.20, G:0.09, T:0.14
Consensus pattern (14 bp):
CAAAAGACAACATT
Found at i:156648 original size:17 final size:17
Alignment explanation
Indices: 156599--156649 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
156589 TTTTTTGTAT
* **
156599 TATTTATTTAAGATATT
1 TATTTATTTATGATAAA
*
156616 TATTTAATT-TGAATAAA
1 TATTTATTTATG-ATAAA
156633 TATTTATTTATGATAAA
1 TATTTATTTATGATAAA
156650 ATAAGTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 1 0.04
17 24 0.89
18 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TATTTATTTATGATAAA
Found at i:160630 original size:38 final size:38
Alignment explanation
Indices: 160579--160655 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
160569 GAACTAATAG
160579 TGGGATAATAGTGTTAGCTAAAGTAGTGGGAGACTTAC
1 TGGGATAATAGTGTTAGCTAAAGTAGTGGGAGACTTAC
160617 TGGGATAATAGTGTTAGCTAAAGTAGTGGGAGACTTAC
1 TGGGATAATAGTGTTAGCTAAAGTAGTGGGAGACTTAC
160655 T
1 T
160656 TTTTATTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (38 bp):
TGGGATAATAGTGTTAGCTAAAGTAGTGGGAGACTTAC
Found at i:162236 original size:18 final size:18
Alignment explanation
Indices: 162197--162236 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
162187 GGCTTCTCAT
* **
162197 GCTTTATGGGATTTATGG
1 GCTTTATGGGATTCATAA
162215 GCTTTATGGGATTCATAA
1 GCTTTATGGGATTCATAA
162233 GCTT
1 GCTT
162237 AGTGAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (18 bp):
GCTTTATGGGATTCATAA
Done.