Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 196 of 240
Found at i:59565512 original size:34 final size:34
Alignment explanation
Indices: 59565469--59565536 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
59565459 AAGAGCGTAA
59565469 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
1 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
59565503 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
1 AGCTAATTCAGTGCAGATAATGATATCACTTGGT
59565537 TCAGATCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (34 bp):
AGCTAATTCAGTGCAGATAATGATATCACTTGGT
Found at i:59569908 original size:2 final size:2
Alignment explanation
Indices: 59569901--59569945 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
59569891 AGAAAGAAAA
59569901 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
59569943 AG A
1 AG A
59569946 AAATTCGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59573915 original size:51 final size:51
Alignment explanation
Indices: 59573839--59573991 Score: 281
Period size: 51 Copynumber: 3.0 Consensus size: 51
59573829 AAATTAAAAG
59573839 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
* *
59573890 ATTATACAT-CACCGACAATGTTTTTTAGGGTAAATAACATTAAACCAAGA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
59573940 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
59573991 A
1 A
59573992 GTAATTTTAG
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 48 0.49
51 49 0.51
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.29
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:59574000 original size:33 final size:34
Alignment explanation
Indices: 59573942--59574047 Score: 105
Period size: 33 Copynumber: 3.2 Consensus size: 34
59573932 AACCAAGAAT
* *
59573942 TATACATACACCAACAATGT-TTTTTAGGGT-AAA
1 TATACATAAACCAACAA-GTAATTTTAGGGTCAAA
*
59573975 TA-ACATTAAACCAACAAGTAATTTTA-GGTCAAT
1 TATACA-TAAACCAACAAGTAATTTTAGGGTCAAA
* * *
59574008 TATACATACACCAACAATTAATTTTA-GGTCAAT
1 TATACATAAACCAACAAGTAATTTTAGGGTCAAA
59574041 TATACAT
1 TATACAT
59574048 GCTTTATAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
32 8 0.12
33 53 0.83
34 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.33
Consensus pattern (34 bp):
TATACATAAACCAACAAGTAATTTTAGGGTCAAA
Found at i:59577144 original size:26 final size:27
Alignment explanation
Indices: 59577104--59577185 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
59577094 TAAGAACATT
*
59577104 TTATGAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAATAATAATTA
* *
59577131 TT-TTAAATTGTATTTAATCATATATT-
1 TTATTAAATTATATTTAATAATA-ATTA
* *
59577157 TTAATTAAAATATATTTAATATTAATTA
1 TT-ATTAAATTATATTTAATAATAATTA
59577185 T
1 T
59577186 AGTATCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATTAAATTATATTTAATAATAATTA
Found at i:59577273 original size:16 final size:16
Alignment explanation
Indices: 59577239--59577280 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
59577229 ATTATTAAGA
59577239 ATTTTATTAAATTATAT
1 ATTTTATTAAA-TATAT
59577256 ATTTTAATTAAA-ATAT
1 ATTTT-ATTAAATATAT
59577272 A-TTTATTAA
1 ATTTTATTAA
59577281 TATTTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.21
15 3 0.12
16 5 0.21
17 5 0.21
18 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAATATAT
Found at i:59577281 original size:18 final size:18
Alignment explanation
Indices: 59577239--59577273 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
59577229 ATTATTAAGA
*
59577239 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
59577256 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
59577274 TTATTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:59577359 original size:120 final size:119
Alignment explanation
Indices: 59577186--59577410 Score: 396
Period size: 120 Copynumber: 1.9 Consensus size: 119
59577176 TATTAATTAT
59577186 AGTATCATATATTATGATTTGAATAAATTATATAAGAATATGAATTATTAAGAATTTTATTAAAT
1 AGTATCATATATTATGATTTGAATAAATTATATAAGAATATGAATTATTAAGAATTTTATTAAAT
* * *
59577251 TATATATTTTAATTAAAATATATTTATTAATATTTATGTTAATTTATATTTTAC
66 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTAATTTATATTTTAC
* *
59577305 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAATAAATT-ATATAAGAATATGAATTATTAAGAATTTTATTAAA
59577370 TTATATATTTTAATTAAAATATATTTAATAAAAATTATGTT
65 TTATATATTTTAATTAAAATATATTTAATAAAAATTATGTT
59577411 TAAATATGAT
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 28 0.28
120 72 0.72
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.48
Consensus pattern (119 bp):
AGTATCATATATTATGATTTGAATAAATTATATAAGAATATGAATTATTAAGAATTTTATTAAAT
TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTAATTTATATTTTAC
Found at i:59577387 original size:18 final size:17
Alignment explanation
Indices: 59577359--59577393 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59577349 ATTATTAAGA
*
59577359 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59577376 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59577394 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59577393 original size:16 final size:16
Alignment explanation
Indices: 59577359--59577413 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
59577349 ATTATTAAGA
59577359 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
59577376 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
59577392 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
59577406 ATGTTTAA
1 AT-TTTAA
59577414 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:59577533 original size:156 final size:157
Alignment explanation
Indices: 59577347--59577662 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 157
59577337 ATAAGAATAT
59577347 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTT
* *
59577412 AAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAATAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
59577477 TAATCATTTACAAAAACAAATGTATGC
131 TAATCATTTACAAAAACAAATGTATGC
*
59577504 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTT
59577568 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* * *
59577633 TAATCATTTACCAAAACAATTTTATGC
131 TAATCATTTACAAAAACAAATGTATGC
59577660 TAA
1 TAA
59577663 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 147 0.96
157 6 0.04
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATCATTTACAAAAACAAATGTATGC
Found at i:59577543 original size:18 final size:17
Alignment explanation
Indices: 59577515--59577549 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59577505 AATTATAAGA
*
59577515 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59577532 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59577550 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59577806 original size:16 final size:16
Alignment explanation
Indices: 59577785--59577815 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
59577775 GATTAGCTAT
59577785 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
59577801 TACACCTCTAATCCA
1 TACACCTCTAATCCA
59577816 TTTTTGCGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:59579387 original size:24 final size:24
Alignment explanation
Indices: 59579325--59579376 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
59579315 TTTGTAGAAG
* * *
59579325 ATTTAGTATTTATAAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
59579349 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
59579373 ATTT
1 ATTT
59579377 GACTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:59583765 original size:24 final size:24
Alignment explanation
Indices: 59583702--59583753 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
59583692 TTTCTAGAAG
* * *
59583702 ATTTAGTATTTATAAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
59583726 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
59583750 ATTT
1 ATTT
59583754 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:59588631 original size:33 final size:33
Alignment explanation
Indices: 59588589--59588655 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
59588579 TACCTTTTTC
*
59588589 TGTTGCCTCTAAATCAGTAGTTTCTACTCAGTT
1 TGTTGCCTCTAAATCAGCAGTTTCTACTCAGTT
59588622 TGTTGCCTCTAAATCAGCAGTTTCTACTCAGTT
1 TGTTGCCTCTAAATCAGCAGTTTCTACTCAGTT
59588655 T
1 T
59588656 ATGCTATCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTTGCCTCTAAATCAGCAGTTTCTACTCAGTT
Found at i:59591160 original size:18 final size:18
Alignment explanation
Indices: 59591137--59591185 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
59591127 TTAAATTGTA
*
59591137 AATTATATTTTCAAATAT
1 AATTATATTTTCAAACAT
59591155 AATTATATTTT-AAACAT
1 AATTATATTTTCAAACAT
59591172 AATGTAT-TTTTCAA
1 AAT-TATATTTTCAA
59591186 TTAATTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (18 bp):
AATTATATTTTCAAACAT
Found at i:59618089 original size:20 final size:23
Alignment explanation
Indices: 59618066--59618115 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
59618056 TATTATTTAT
59618066 TTATATA-ATA-TA-TAAATTAA
1 TTATATAGATATTATTAAATTAA
*
59618086 TTATAAAGTATATTATTAAATTAA
1 TTATATAG-ATATTATTAAATTAA
59618110 TTATAT
1 TTATAT
59618116 TATAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
22 3 0.12
23 2 0.08
24 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTATATAGATATTATTAAATTAA
Found at i:59618123 original size:12 final size:11
Alignment explanation
Indices: 59618071--59618114 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
59618061 TTTATTTATA
59618071 TAATATATAAAT
1 TAAT-TATAAAT
*
59618083 TAATTATAAAG
1 TAATTATAAAT
59618094 TATATTATTAAAT
1 TA-ATTA-TAAAT
59618107 TAATTATA
1 TAATTATA
59618115 TTATAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 10 0.36
12 12 0.43
13 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:59618127 original size:14 final size:16
Alignment explanation
Indices: 59618094--59618131 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
59618084 AATTATAAAG
59618094 TATATTATTAAATTAAT
1 TATATTATTAAATT-AT
59618111 TATATTA-TAAATT-T
1 TATATTATTAAATTAT
59618125 TATATTA
1 TATATTA
59618132 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
16 6 0.29
17 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATTATTAAATTAT
Found at i:59618143 original size:31 final size:28
Alignment explanation
Indices: 59618077--59618144 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
59618067 TATATAATAT
**
59618077 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
59618105 ATTAATTATATTATAAATTTTATATTAAGAA
1 ATAAATTA-ATTATAAA--GTATATTAAGAA
59618136 ATAAATTAA
1 ATAAATTAA
59618145 ATAAGGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 1 0.03
31 16 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:59619079 original size:3 final size:3
Alignment explanation
Indices: 59619053--59619093 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
59619043 GTGAGGTAAG
* * *
59619053 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
59619094 GTGGGAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:59636833 original size:46 final size:46
Alignment explanation
Indices: 59636769--59636864 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
59636759 CCTGTTGAGA
59636769 AGTTAGGTGAATGTTAAACAAT-AGCAATTGTATTGTTAAGGTGGTT
1 AGTTAGGTGAATGTTAAACAATGAG-AATTGTATTGTTAAGGTGGTT
*
59636815 AGTTAGGTGAATGTTAAACAATGAGAGTTGTATTGTTAAGGTGGTT
1 AGTTAGGTGAATGTTAAACAATGAGAATTGTATTGTTAAGGTGGTT
59636861 AGTT
1 AGTT
59636865 GATTATTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 46 0.96
47 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.38
Consensus pattern (46 bp):
AGTTAGGTGAATGTTAAACAATGAGAATTGTATTGTTAAGGTGGTT
Found at i:59642541 original size:16 final size:17
Alignment explanation
Indices: 59642499--59642541 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
59642489 ATATTATTTT
59642499 TAATTTA-ATAT-TTAA
1 TAATTTATATATATTAA
59642514 TAATTT-TATATATTAA
1 TAATTTATATATATTAA
59642530 T-ATTTATATATA
1 TAATTTATATATA
59642542 ACCATCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTTATATATATTAA
Found at i:59662320 original size:46 final size:46
Alignment explanation
Indices: 59662256--59662351 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
59662246 CCTGTTGAGA
59662256 AGTTAGGTGAATGTTAAACAAT-AGCAATTGTATTGTTAAGGTGGTT
1 AGTTAGGTGAATGTTAAACAATGAG-AATTGTATTGTTAAGGTGGTT
*
59662302 AGTTAGGTGAATGTTAAACAATGAGAGTTGTATTGTTAAGGTGGTT
1 AGTTAGGTGAATGTTAAACAATGAGAATTGTATTGTTAAGGTGGTT
59662348 AGTT
1 AGTT
59662352 GATTATTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 46 0.96
47 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.38
Consensus pattern (46 bp):
AGTTAGGTGAATGTTAAACAATGAGAATTGTATTGTTAAGGTGGTT
Found at i:59668043 original size:15 final size:16
Alignment explanation
Indices: 59668023--59668065 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
59668013 ATATTATTTT
59668023 TAATTTAATAT-TTAA
1 TAATTTAATATATTAA
*
59668038 TAATTTTATATATTAA
1 TAATTTAATATATTAA
*
59668054 T-ATTTTATATAT
1 TAATTTAATATAT
59668066 AACCATCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTTAATATATTAA
Found at i:59685474 original size:43 final size:43
Alignment explanation
Indices: 59685426--59685527 Score: 125
Period size: 43 Copynumber: 2.3 Consensus size: 43
59685416 TTATGTGATT
59685426 GATATTGAAATGACAAATATGAGAAATAAATATGAGATGAGAAA
1 GATATTGAAATGA-AAATATGAGAAATAAATATGAGATGAGAAA
* * * *
59685470 -ATATTAAAATGGAAATTATGAGAAATGATTATGAGATGAGAAA
1 GATATTGAAAT-GAAAATATGAGAAATAAATATGAGATGAGAAA
59685513 TGATATATGAAATGA
1 -GATAT-TGAAATGA
59685528 TGAATTGAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
43 36 0.73
44 2 0.04
45 6 0.12
46 5 0.10
ACGTcount: A:0.52, C:0.01, G:0.21, T:0.26
Consensus pattern (43 bp):
GATATTGAAATGAAAATATGAGAAATAAATATGAGATGAGAAA
Found at i:59685510 original size:18 final size:19
Alignment explanation
Indices: 59685487--59685527 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
59685477 AATGGAAATT
*
59685487 ATGAGAAATGAT-TATGAG
1 ATGAGAAATGATATATGAA
59685505 ATGAGAAATGATATATGAA
1 ATGAGAAATGATATATGAA
59685524 ATGA
1 ATGA
59685528 TGAATTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (19 bp):
ATGAGAAATGATATATGAA
Found at i:59687711 original size:22 final size:22
Alignment explanation
Indices: 59687686--59687733 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
59687676 TTTTGCTGTT
* *
59687686 ATTTTACTGTTGTTTTACTACC
1 ATTTGACTGTTGTGTTACTACC
* *
59687708 ATTTGGCTGTTGTGTTACTACG
1 ATTTGACTGTTGTGTTACTACC
59687730 ATTT
1 ATTT
59687734 CGTTATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.52
Consensus pattern (22 bp):
ATTTGACTGTTGTGTTACTACC
Found at i:59691165 original size:124 final size:125
Alignment explanation
Indices: 59690873--59691306 Score: 600
Period size: 125 Copynumber: 3.5 Consensus size: 125
59690863 TTAGGGTTTT
* * * *
59690873 GGATGCTTTATCAGAAGAATTTCTGAACTCGCGCCCACGTGGACGCACTTATGCTATAGTTGGTC
1 GGATGCTTTATCAGAAGAATTTCTGAAATCGCACCCACGTGGACGCACTTTTGCTACAGTTGGTC
* * * ** * *
59690938 CTGAAAAAATTATTTTGAGTTGATGTTTCTGAGAAAATAGTATAAAAAACGCATCAAGCA
66 CTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAATGCTTCAAGCA
* * * * ** * *
59690998 GGATGCTTTATCAAAAGAATTTCTAAAATCGCGCCCACGTGGACTCGGTTTTGCAAGAGTTGGTC
1 GGATGCTTTATCAGAAGAATTTCTGAAATCGCACCCACGTGGACGCACTTTTGCTACAGTTGGTC
*
59691063 CTGAAAAAATAATTTCGAGTTGACATTTCTGAGCGAATAGTAT-AAAAATGCTTCAAGCA
66 CTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAATGCTTCAAGCA
* * *
59691122 GGTTGCTTTATCAGAAGAATTTCTGAAATCGCACCCACATGGACGCACTTTTGCTACAGTAGGTC
1 GGATGCTTTATCAGAAGAATTTCTGAAATCGCACCCACGTGGACGCACTTTTGCTACAGTTGGTC
* *
59691187 CTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAATATAAAAAATACTTCAAGCA
66 CTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAATGCTTCAAGCA
* * * *
59691247 GGATGCTTTATCAGAAGAATTTATGAAATCGCACCCTCGTAGACGCGCTTTTGCTACAGT
1 GGATGCTTTATCAGAAGAATTTCTGAAATCGCACCCACGTGGACGCACTTTTGCTACAGT
59691307 AGCATGTTTG
Statistics
Matches: 271, Mismatches: 37, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
124 109 0.40
125 162 0.60
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (125 bp):
GGATGCTTTATCAGAAGAATTTCTGAAATCGCACCCACGTGGACGCACTTTTGCTACAGTTGGTC
CTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAATGCTTCAAGCA
Found at i:59694398 original size:19 final size:19
Alignment explanation
Indices: 59694347--59694400 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 19
59694337 ATCTAACATT
*
59694347 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAATTTATTAA
*
59694366 ---TTA-TTAATTGTATTAA
1 TTGTTAGTAAATT-TATTAA
59694382 TTGTTAGTAAATTTATTAA
1 TTGTTAGTAAATTTATTAA
59694401 ATTATATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 10
0.68 0.08 0.25
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
19 9 0.33
20 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (19 bp):
TTGTTAGTAAATTTATTAA
Found at i:59694468 original size:21 final size:21
Alignment explanation
Indices: 59694420--59694693 Score: 104
Period size: 21 Copynumber: 12.7 Consensus size: 21
59694410 TATTAAGGTT
59694420 AGGTTTAGGGTTAGGGTTTTA
1 AGGTTTAGGGTTAGGGTTTTA
59694441 AGGTTTAGGG-TAGGGTTTTA
1 AGGTTTAGGGTTAGGGTTTTA
*
59694461 GGGTTTTAAGTTAAGAGTTAGGGTTTTTA
1 AGG-TTT-AG----G-GTTAGGGTT-TTA
* ** *
59694490 A-GTTAATTGTTAGAGTTTTTA
1 AGGTTTAGGGTTAG-GGTTTTA
59694511 A-G-TTATGGGTTAGGGTTTTTA
1 AGGTTTA-GGGTTAGGG-TTTTA
* *
59694532 A-GTTAATGGTTAGGGTTTTTA
1 AGGTTTAGGGTTAGGG-TTTTA
*
59694553 A-GTTAAGGGTTAGGGTTTTTA
1 AGGTTTAGGGTTAGGG-TTTTA
* * *
59694574 A-GTTAAAGGTTAGGATTTTTA
1 AGGTTTAGGGTTAGG-GTTTTA
59694595 A--TTTAAGGGTTTAGGGTTTTTA
1 AGGTTT-AGGG-TTAGGG-TTTTA
* * * *
59694617 A-GTTAAGGATTATGGTTTTT
1 AGGTTTAGGGTTAGGGTTTTA
* * *
59694637 AGGTTAAATGTTTAGGGTTTTA
1 AGGTT-TAGGGTTAGGGTTTTA
*
59694659 A-GTTAAGGGTTTAGGGTTTTTA
1 AGGTTTAGGG-TTAGGG-TTTTA
*
59694681 A-GTTAAGGGTTAG
1 AGGTTTAGGGTTAG
59694694 AGTTAGGGTT
Statistics
Matches: 203, Mismatches: 28, Indels: 44
0.74 0.10 0.16
Matches are distributed among these distances:
20 25 0.12
21 112 0.55
22 48 0.24
23 2 0.01
26 2 0.01
27 3 0.01
28 8 0.04
29 3 0.01
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
AGGTTTAGGGTTAGGGTTTTA
Found at i:59694470 original size:28 final size:28
Alignment explanation
Indices: 59694430--59694487 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
59694420 AGGTTTAGGG
*
59694430 TTAGGGTTTTAAGGTTTAG-GGTAGGGTT
1 TTAGGGTTTTAA-GTTAAGAGGTAGGGTT
*
59694458 TTAGGGTTTTAAGTTAAGAGTTAGGGTT
1 TTAGGGTTTTAAGTTAAGAGGTAGGGTT
59694486 TT
1 TT
59694488 TAAGTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (28 bp):
TTAGGGTTTTAAGTTAAGAGGTAGGGTT
Found at i:59694510 original size:42 final size:42
Alignment explanation
Indices: 59694458--59694976 Score: 439
Period size: 42 Copynumber: 12.2 Consensus size: 42
59694448 GGGTAGGGTT
* **
59694458 TTAGGG-TTTTAAGTTAAGAGTTAGGGTTTTTAAGTTAATTG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
* * *
59694499 TTAGAGTTTTTAAGTTATGGGTTAGGGTTTTTAAGTTAATGG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
*
59694541 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
* * *
59694583 TTAGGATTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGA
1 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG
* * * *
59694626 TTATGGTTTTTAGGTTAAATGTTTAGGG-TTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAGGG
* * ***
59694668 TTTAGGGTTTTTAAGTTAAGGGTTAGAG---TTAGGGTT-TTTG
1 -TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTA-AGTTAAGGG
* * * * * ***
59694708 TTAGGGTTTGTCAA-TTAA--ATTACAAGTTTAATTATAAATTATAAAT
1 TTAGGGTTT-TTAAGTTAAGGGTT--AGGGTT--TT-TAAGTTA-AGGG
*** * *
59694754 TTATAAATTTTTAA-TATATTA-GTTTAAGGTTTTTAAGTTAAGGG
1 TTA-GGGTTTTTAAGT-TA--AGGGTTAGGGTTTTTAAGTTAAGGG
* * *
59694798 TTAGGATTTTTAAGTTACGAGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
*
59694840 TTAGGGTTTTTAAGTTAATGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
* * *
59694882 TTTATGGTTTTTATGTTAAGGGTTTAGGGTTTTTACGTTAAGGG
1 -TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG
59694926 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG
*
59694969 TTAAGGTT
1 TTAGGGTT
59694977 AGGGTTTTTG
Statistics
Matches: 387, Mismatches: 66, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
37 2 0.01
39 14 0.04
40 7 0.02
41 8 0.02
42 169 0.44
43 126 0.33
44 31 0.08
45 8 0.02
46 9 0.02
47 5 0.01
48 5 0.01
49 1 0.00
50 2 0.01
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (42 bp):
TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
Found at i:59694809 original size:21 final size:21
Alignment explanation
Indices: 59694781--59694976 Score: 293
Period size: 21 Copynumber: 9.2 Consensus size: 21
59694771 ATTAGTTTAA
59694781 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * *
59694802 GATTTTTAAGTTACGAGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
59694823 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
59694844 GGTTTTTAAGTTAATGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
59694865 GGTTTTTAAGTTAAGGGTTTAT
1 GGTTTTTAAGTTAAGGG-TTAG
*
59694887 GGTTTTTATGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
*
59694909 GGTTTTTACGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
59694930 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
*
59694952 GGTTTTTAAGTTAAGGGTTAA
1 GGTTTTTAAGTTAAGGGTTAG
59694973 GGTT
1 GGTT
59694977 AGGGTTTTTG
Statistics
Matches: 159, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
21 99 0.62
22 60 0.38
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.45
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGGTTAG
Found at i:59694989 original size:12 final size:12
Alignment explanation
Indices: 59694974--59695007 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
59694964 AAGGGTTAAG
59694974 GTTAGGGTTTTT
1 GTTAGGGTTTTT
59694986 GTTAGGGTTTTT
1 GTTAGGGTTTTT
59694998 GTTAGGGTTT
1 GTTAGGGTTT
59695008 GTCAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.00, G:0.35, T:0.56
Consensus pattern (12 bp):
GTTAGGGTTTTT
Found at i:59695026 original size:7 final size:7
Alignment explanation
Indices: 59695014--59695053 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
59695004 GTTTGTCAAT
59695014 TAAATTA
1 TAAATTA
59695021 TAAATT-
1 TAAATTA
59695027 T-AATTA
1 TAAATTA
59695033 TAAATTA
1 TAAATTA
59695040 TAAATTTA
1 TAAA-TTA
59695048 TAAATT
1 TAAATT
59695054 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:59695026 original size:12 final size:12
Alignment explanation
Indices: 59695011--59695053 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
59695001 AGGGTTTGTC
59695011 AATTAAATTATA
1 AATTAAATTATA
*
59695023 AATTTAATTATA
1 AATTAAATTATA
59695035 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
59695050 AATT
1 AATT
59695054 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:59695085 original size:291 final size:291
Alignment explanation
Indices: 59694478--59695159 Score: 980
Period size: 291 Copynumber: 2.3 Consensus size: 291
59694468 AAGTTAAGAG
** * *
59694478 TTAGGGTTTTTAAGTTAATTGTTA-GAGTTTTTAAGTTATGGGTTAGGGTTTTTAAGTTAATGGT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGA-TTTTTAAGTTA-AGGTTAGGGTTTTTAAGTTAAGGGT
59694542 TAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTAGGATTTTTAATTTAAGGGTTT
64 TAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTAGGATTTTTAATTTAAGGGTTT
* * *
59694607 AGGGTTTTTAAGTTAAGGATTATGGTTTTTAGGTTAAATGTTTAGGGTTTTAAGTTAAGGGTTTA
129 AGGGTTTTTAAGTTAAGGATTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTAAGTTAAGGGTTTA
*
59694672 GGGTTTTTAAGTTAAGGGTTAGAGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTACAAGTTT
194 -------TAAGTTAAGGGTTAGAGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTACAAATTT
*
59694737 AATTATAAATTATAAATTTATAAATTTTTAATATATTAGT
252 AATTATAAATTATAAATTTATAAATTTTTAATAAATTAGT
* *
59694777 TTAAGGTTTTTAAGTTAAGGGTTAGGATTTTTAAGTTACGAGTTAGGGTTTTTAAGTTAAGGGTT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGATTTTTAAGTTAAG-GTTAGGGTTTTTAAGTTAAGGGTT
* *
59694842 AGGGTTTTTAAGTTAATGGTTAGGGTTTTTAAGTTAAGGGTTTATGG-TTTTT-ATGTTAAGGGT
65 AGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGG-TTA-GGATTTTTAAT-TTAAGGGT
* * *
59694905 TTAGGGTTTTTACGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-
127 TTAGGGTTTTTAAGTTAAGGATTAGGGTTTTTAAGTTAAAGGTTTAGGG-TTTTAAGTTAAGGGT
* *** *
59694969 TTA-AGGTT-AGGGTTTTTGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTAATT
191 TTATAAGTTAAGGGTTAGAGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTACAAATTTAATT
59695032 ATAAATTATAAATTTATAAATTTTTAATAAATTAGT
256 ATAAATTATAAATTTATAAATTTTTAATAAATTAGT
*
59695068 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTT
1 TTAGGGTTTTTAAGTTAAGGGTTAGGATTTTTAAGTTAAGGTTAGGGTTTTTAAGTTAAGGG-TT
*
59695133 AGTGTTTTTAAGTTAAGGGTTAGGGTT
65 AGGGTTTTTAAGTTAAGGGTTAGGGTT
59695160 AGGGTTAAGA
Statistics
Matches: 351, Mismatches: 25, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
290 22 0.06
291 149 0.42
292 4 0.01
298 1 0.00
299 95 0.27
300 64 0.18
301 16 0.05
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.47
Consensus pattern (291 bp):
TTAGGGTTTTTAAGTTAAGGGTTAGGATTTTTAAGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTA
GGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTAGGATTTTTAATTTAAGGGTTTAG
GGTTTTTAAGTTAAGGATTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTAAGTTAAGGGTTTATA
AGTTAAGGGTTAGAGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTACAAATTTAATTATAAA
TTATAAATTTATAAATTTTTAATAAATTAGT
Found at i:59695092 original size:21 final size:21
Alignment explanation
Indices: 59695068--59695159 Score: 159
Period size: 21 Copynumber: 4.4 Consensus size: 21
59695058 ATAAATTAGT
59695068 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
59695089 TTAGGGTTTTTAAGTTAA-GG
1 TTAGGGTTTTTAAGTTAAGGG
59695109 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
*
59695130 TTTAGTGTTTTTAAGTTAAGGG
1 -TTAGGGTTTTTAAGTTAAGGG
59695152 TTAGGGTT
1 TTAGGGTT
59695160 AGGGTTAAGA
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 20 0.30
21 27 0.40
22 20 0.30
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGG
Found at i:59695115 original size:41 final size:43
Alignment explanation
Indices: 59695068--59695159 Score: 161
Period size: 41 Copynumber: 2.2 Consensus size: 43
59695058 ATAAATTAGT
59695068 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAA-GG
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG
*
59695109 TTAGGGTTTTTAAGTTAAGGGTTTAGTGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG
59695152 TTAGGGTT
1 TTAGGGTT
59695160 AGGGTTAAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 21 0.44
42 17 0.35
43 10 0.21
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.46
Consensus pattern (43 bp):
TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG
Found at i:59697567 original size:27 final size:28
Alignment explanation
Indices: 59697514--59697567 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
59697504 ATTTTTACGA
**
59697514 TTTAAAAAAATTTAAAAATATTAATTTT
1 TTTAAAAAAATTTAAAAATAAGAATTTT
* *
59697542 TTTAAAATAA-TTAAAAATAAGGATTT
1 TTTAAAAAAATTTAAAAATAAGAATTT
59697568 AAGAGATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (28 bp):
TTTAAAAAAATTTAAAAATAAGAATTTT
Found at i:59697631 original size:11 final size:10
Alignment explanation
Indices: 59697617--59697681 Score: 69
Period size: 11 Copynumber: 6.1 Consensus size: 10
59697607 AAATATGGAT
59697617 TTGAGAGAAA
1 TTGAGAGAAA
*
59697627 TTTGAAAGGAAA
1 -TTGAGA-GAAA
59697639 TTGAGAGCAAA
1 TTGAGAG-AAA
59697650 TTGAGAGCAAA
1 TTGAGAG-AAA
59697661 TTGAGAGGAAA
1 TTGAGA-GAAA
59697672 TTGAGA-AAA
1 TTGAGAGAAA
59697681 T
1 T
59697682 AATTGAGAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
9 4 0.08
10 1 0.02
11 39 0.80
12 5 0.10
ACGTcount: A:0.48, C:0.03, G:0.28, T:0.22
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:59697654 original size:33 final size:33
Alignment explanation
Indices: 59697617--59697691 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
59697607 AAATATGGAT
**
59697617 TTGAGAGAAATTTGAAAGGAAATTGAGAGCA-AA
1 TTGAGAGAAA-TTGAAAGGAAATTGAGAAAATAA
*
59697650 TTGAGAGCAAATTGAGAGGAAATTGAGAAAATAA
1 TTGAGAG-AAATTGAAAGGAAATTGAGAAAATAA
59697684 TTGAGAGA
1 TTGAGAGA
59697692 GTATTAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 25 0.68
34 12 0.32
ACGTcount: A:0.48, C:0.03, G:0.28, T:0.21
Consensus pattern (33 bp):
TTGAGAGAAATTGAAAGGAAATTGAGAAAATAA
Found at i:59697674 original size:22 final size:22
Alignment explanation
Indices: 59697617--59697677 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
59697607 AAATATGGAT
* *
59697617 TTGAGA-GAAATTTGAAAGGAAA
1 TTGAGAGGAAA-TTGAGAGCAAA
*
59697639 TTGAGAGCAAATTGAGAGCAAA
1 TTGAGAGGAAATTGAGAGCAAA
59697661 TTGAGAGGAAATTGAGA
1 TTGAGAGGAAATTGAGA
59697678 AAATAATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 31 0.91
23 3 0.09
ACGTcount: A:0.46, C:0.03, G:0.30, T:0.21
Consensus pattern (22 bp):
TTGAGAGGAAATTGAGAGCAAA
Found at i:59698941 original size:23 final size:22
Alignment explanation
Indices: 59698911--59698955 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
59698901 AAATTAAATC
59698911 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
59698934 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
59698956 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:59699783 original size:132 final size:132
Alignment explanation
Indices: 59699389--59699802 Score: 616
Period size: 131 Copynumber: 3.1 Consensus size: 132
59699379 AATTGGTAAT
* ** *
59699389 TTCAACCTATTCCACTGCAACTTCAGGGAGATAAGG-CTGGTTGCTTAAATCTGCTTCCCTACTA
1 TTCAACCTACTCCACTGCTGC-TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTA
* * * * * *
59699453 CCTCGGAAAGATAAGACTCACCGTCTTTGATCTGCTCCACTGCTGCTTAGGGAGACAAGATATAT
64 CCTCGGAAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAC
59699518 AATC
129 AATC
* * *
59699522 TTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTAAAATCTGCTT-CCTACTATC
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
* * * *
59699586 TCGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAA
66 TCGGAAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
59699651 TC
131 TC
59699653 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
* * *
59699718 TTGGAAAGATAAGATTCGCTGTCTTTGATCTGCTCCACTACTTCTTAGGGAGACAGGATCTACAA
66 TCGGAAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
59699783 TC
131 TC
59699785 TTCAACCTACTCCACTGC
1 TTCAACCTACTCCACTGC
59699803 AAACTCAGAG
Statistics
Matches: 252, Mismatches: 27, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
131 121 0.48
132 114 0.45
133 17 0.07
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (132 bp):
TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
TCGGAAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
TC
Found at i:59699930 original size:89 final size:89
Alignment explanation
Indices: 59699799--59700087 Score: 418
Period size: 89 Copynumber: 3.2 Consensus size: 89
59699789 ACCTACTCCA
* * * *
59699799 CTGCAAACTCAGAGAGGCAAGACTAGTGT-TTTCGATCTGCTTCACTGCCAGTACAGGAAGACAA
1 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTT-GATCTGCTTCGCTGCCAATACAGGAAGACAA
* * *
59699863 GATCTGCTGTTTTCAGTTTGCTCTG
65 GATCTGCTATCTTCAGTCTGCTCTG
*
59699888 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCAGCTTCGCTGCCAATACAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGCCAATACAGGAAGACAAG
59699953 ATCTGCTATCTTCAGTCTGCTCTG
66 ATCTGCTATCTTCAGTCTGCTCTG
* * * *
59699977 CTGCAAACTCAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCAATATAGGAAGCCAAG
1 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGCCAATACAGGAAGACAAG
* * *
59700042 ATCTGTTATCTTCAGTCTGTTCCG
66 ATCTGCTATCTTCAGTCTGCTCTG
*
59700066 CTGTAAACTCAGGGAGGCAAGG
1 CTGCAAACTCAGGGAGGCAAGG
59700088 ATTTGTAGCT
Statistics
Matches: 181, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
89 178 0.98
90 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (89 bp):
CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGCCAATACAGGAAGACAAG
ATCTGCTATCTTCAGTCTGCTCTG
Found at i:59699997 original size:45 final size:45
Alignment explanation
Indices: 59699852--59700153 Score: 135
Period size: 45 Copynumber: 6.8 Consensus size: 45
59699842 ACTGCCAGTA
* * * *
59699852 CAGGAAGACAAGATCTGCTGTTTTCAGTTTGCTCTGCTGCAAACT
1 CAGGGAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACT
* * * * * *
59699897 CAGGGAGGCAAG-GCTAG-TGTCTT-TGATCAGCT-TCGCTGCCAA-T
1 CAGGGAGACAAGATCT-GCTATCTTCAG-TCTGCTCT-GCTGCAAACT
*
59699940 ACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACT
1 -CAGGGAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACT
* * * *
59699986 CAGGGAGACAAG-GCTGGTGTCTT-TGATCTGCT-TCGCTGCCAATA-T
1 CAGGGAGACAAGATCTGCTATCTTCAG-TCTGCTCT-GCTG-CAA-ACT
* * * * * *
59700031 -AGGAAGCCAAGATCTGTTATCTTCAGTCTGTTCCGCTGTAAACT
1 CAGGGAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACT
* * * * * * **
59700075 CAGGGAGGCAAGGATTTG-TAGCTTCAATTTGTTCCACTGC-AACTT
1 CAGGGAGACAA-GATCTGCTATCTTCAGTCTGCTCTGCTGCAAAC-T
* *
59700120 CATGGAGATAAGAT-TCGCTATCTTCAGTCTGCTC
1 CAGGGAGACAAGATCT-GCTATCTTCAGTCTGCTC
59700154 CACTACAACT
Statistics
Matches: 191, Mismatches: 44, Indels: 44
0.68 0.16 0.16
Matches are distributed among these distances:
43 7 0.04
44 66 0.35
45 108 0.57
46 10 0.05
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGGGAGACAAGATCTGCTATCTTCAGTCTGCTCTGCTGCAAACT
Found at i:59700401 original size:45 final size:45
Alignment explanation
Indices: 59700096--59700526 Score: 242
Period size: 44 Copynumber: 9.6 Consensus size: 45
59700086 GGATTTGTAG
* * * **
59700096 CTTCAATTTGTTCCACTGCAACTTCATGGAGATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTAT
* * ** * *
59700141 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAG-GCTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTAT
* * * *
59700185 CTTCAATCTACTCCACTACAACTTTAGGGAGATAAGATTATTGGT-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TT-CTAT
* *
59700231 -TT-AATCTGCTCCACTGCAACTTCAGGGAGATTAGA--TTC-GT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTAT
* * * * **
59700271 CAT-GATCTGCTCTACTGTAACTTCAAAGAGATAAGATCAGTAATT-TAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT---T--TTCTAT
* * * *
59700319 AGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTTCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTAT
* * * *
59700366 CTTCAGTCTGCTCCACGGCAACTTCAGAGAGATAAGA-CTTC-A-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTAT
* * * * * *
59700408 CTTCAATCCGCTCCACTGCAACTTCAGAGAGATAGGACTAT-TAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTAT
* * * * *
59700452 CTTTAATCTACTTCAATACAACTTCAGGGAGATAAGATTTGCCATCT-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT----TCTAT
** *
59700500 CTTCAATCTATTCCATTGCAACTTCAG
1 CTTCAATCTGCTCCACTGCAACTTCAG
59700527 TGGTATAGGA
Statistics
Matches: 292, Mismatches: 69, Indels: 47
0.72 0.17 0.12
Matches are distributed among these distances:
40 1 0.00
41 30 0.10
42 33 0.11
43 3 0.01
44 97 0.33
45 63 0.22
46 4 0.01
47 5 0.02
48 27 0.09
49 1 0.00
50 2 0.01
51 26 0.09
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCTAT
Found at i:59706722 original size:12 final size:12
Alignment explanation
Indices: 59706699--59706729 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
59706689 AGACAATTTA
59706699 TAAAACATGAATT
1 TAAAA-ATGAATT
59706712 TAAAAATGAATT
1 TAAAAATGAATT
59706724 TAAAAA
1 TAAAAA
59706730 AAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (12 bp):
TAAAAATGAATT
Found at i:59715229 original size:45 final size:46
Alignment explanation
Indices: 59715162--59715285 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
59715152 CATATGACCT
*
59715162 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
59715205 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
59715251 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
59715286 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:59715268 original size:46 final size:45
Alignment explanation
Indices: 59715162--59715396 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
59715152 CATATGACCT
*
59715162 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59715205 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
59715251 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59715288 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
59715325 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
59715362 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
59715397 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:59715289 original size:37 final size:37
Alignment explanation
Indices: 59715247--59715423 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
59715237 AGCTGAAGCT
* **
59715247 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
59715284 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
59715321 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
59715358 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
59715395 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
59715424 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:59722926 original size:45 final size:46
Alignment explanation
Indices: 59722859--59722982 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
59722849 CATATGACCT
*
59722859 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
59722902 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
59722948 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
59722983 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:59722965 original size:46 final size:45
Alignment explanation
Indices: 59722859--59723093 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
59722849 CATATGACCT
*
59722859 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59722902 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
59722948 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
59722985 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
59723022 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
59723059 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
59723094 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:59722986 original size:37 final size:37
Alignment explanation
Indices: 59722944--59723120 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
59722934 AGCTGAAGCT
* **
59722944 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
59722981 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
59723018 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
59723055 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
59723092 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
59723121 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:59727132 original size:48 final size:48
Alignment explanation
Indices: 59727033--59727162 Score: 119
Period size: 48 Copynumber: 2.7 Consensus size: 48
59727023 AGGCCTTCGG
* * *
59727033 GATGGTAGAATACT-AGAATAGAG-AGCCATCATTGCTGCACCATCCGA
1 GATGGTAGAATATTGA-AATAGAGTAACCATCATTGCTGCACCACCCGA
*
59727080 GATGGTAGAATATTGAAATAGAGTAACCATCATT-CTTG-AGCCACCCTA
1 GATGGTAGAATATTGAAATAGAGTAACCATCATTGC-TGCA-CCACCCGA
* *
59727128 GATGGTA-ATATATTG-AATAGTGTGAACCATTATTG
1 GATGGTAGA-ATATTGAAATAGAGT-AACCATCATTG
59727163 TTGGGTCACT
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
47 30 0.43
48 40 0.57
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (48 bp):
GATGGTAGAATATTGAAATAGAGTAACCATCATTGCTGCACCACCCGA
Found at i:59728735 original size:18 final size:19
Alignment explanation
Indices: 59728696--59728736 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
59728686 TAATATTAGA
*
59728696 ATATTTTAATTTTAGTACAT
1 ATATTTTAATTTTAG-AAAT
59728716 ATATTTTAATTTTA-AAAT
1 ATATTTTAATTTTAGAAAT
59728734 ATA
1 ATA
59728737 ATTATATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
ATATTTTAATTTTAGAAAT
Found at i:59728910 original size:22 final size:22
Alignment explanation
Indices: 59728885--59728955 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 22
59728875 ATTACATGGA
59728885 ACTATTTATTATTAATTATTAT
1 ACTATTTATTATTAATTATTAT
*
59728907 ACTAATTT-TAATTAAATTA-TAT
1 ACT-ATTTATTATT-AATTATTAT
*
59728929 AGTATTTATTATTTAATTATATAT
1 ACTATTTATTA-TTAATTAT-TAT
59728953 ACT
1 ACT
59728956 TAGTTAATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
21 4 0.10
22 19 0.49
23 11 0.28
24 5 0.13
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (22 bp):
ACTATTTATTATTAATTATTAT
Found at i:59729501 original size:55 final size:55
Alignment explanation
Indices: 59729442--59729561 Score: 213
Period size: 55 Copynumber: 2.2 Consensus size: 55
59729432 ACTATTTGAT
* *
59729442 AAATAAAATTTTAAAAAATTAAAAATAAAGTATTTGGATAATGTTTAAAGAAATA
1 AAATAAAAATTTAAAAAATTAAAAACAAAGTATTTGGATAATGTTTAAAGAAATA
*
59729497 AAATAAAAATTTAAAAAATTCAAAACAAAGTATTTGGATAATGTTTAAAGAAATA
1 AAATAAAAATTTAAAAAATTAAAAACAAAGTATTTGGATAATGTTTAAAGAAATA
59729552 AAATAAAAAT
1 AAATAAAAAT
59729562 AATTGAAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (55 bp):
AAATAAAAATTTAAAAAATTAAAAACAAAGTATTTGGATAATGTTTAAAGAAATA
Found at i:59730264 original size:13 final size:13
Alignment explanation
Indices: 59730246--59730270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59730236 AAAGTATAAA
59730246 AAATTAAAATATC
1 AAATTAAAATATC
59730259 AAATTAAAATAT
1 AAATTAAAATAT
59730271 AAAAAATAAA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTAAAATATC
Found at i:59730281 original size:19 final size:19
Alignment explanation
Indices: 59730245--59730282 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
59730235 AAAAGTATAA
*
59730245 AAAATTAAAATATCAAATT
1 AAAATTAAAAAATCAAATT
59730264 AAAATATAAAAAAT-AAATT
1 AAAAT-TAAAAAATCAAATT
59730283 TACAACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATTAAAAAATCAAATT
Found at i:59730538 original size:21 final size:21
Alignment explanation
Indices: 59730514--59730554 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
59730504 AAGTCGATAA
*
59730514 AATTTATGATCAAATTGATTG
1 AATTGATGATCAAATTGATTG
* *
59730535 AATTGGTGGTCAAATTGATT
1 AATTGATGATCAAATTGATT
59730555 AAACTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (21 bp):
AATTGATGATCAAATTGATTG
Found at i:59730574 original size:10 final size:9
Alignment explanation
Indices: 59730559--59730596 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
59730549 TTGATTAAAC
59730559 TAAAATTATT
1 TAAAATT-TT
59730569 TAAAATTTT
1 TAAAATTTT
59730578 T-AAATTTT
1 TAAAATTTT
59730586 TAACAATTTT
1 TAA-AATTTT
59730596 T
1 T
59730597 TAATTGAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 8 0.31
9 4 0.15
10 14 0.54
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (9 bp):
TAAAATTTT
Found at i:59730593 original size:18 final size:18
Alignment explanation
Indices: 59730561--59730601 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
59730551 GATTAAACTA
59730561 AAATTATTTAAAATTTTT
1 AAATTATTTAAAATTTTT
59730579 AAATT-TTTAACAATTTTT
1 AAATTATTTAA-AATTTTT
*
59730597 TAATT
1 AAATT
59730602 GAACTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATTATTTAAAATTTTT
Found at i:59737913 original size:26 final size:27
Alignment explanation
Indices: 59737873--59737925 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
59737863 GAAAATCAAT
59737873 CTTTTCAAGTCAGAAGGTTGAAAATGA
1 CTTTTCAAGTCAGAAGGTTGAAAATGA
* *
59737900 CTTTT-AAGTTAGAATGTTGAAAATGA
1 CTTTTCAAGTCAGAAGGTTGAAAATGA
59737926 GAGACAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.34
Consensus pattern (27 bp):
CTTTTCAAGTCAGAAGGTTGAAAATGA
Found at i:59738099 original size:79 final size:80
Alignment explanation
Indices: 59737957--59738117 Score: 306
Period size: 79 Copynumber: 2.0 Consensus size: 80
59737947 ATTGGTTCAA
59737957 AATTATACAATTTTTTAAAATTGTTTCTGTTCTTTCATTTTTTTTTTGTAACTTTATCAAGTAAT
1 AATTATACAATTTTTTAAAATTGTTTCTGTTCTTTCATTTTTTTTTTGTAACTTTATCAAGTAAT
59738022 GAATGGATTTTTTTT
66 GAATGGATTTTTTTT
*
59738037 AATTATACAATTTTTTAAAATTGTTTTTGTTCTTTCA-TTTTTTTTTGTAACTTTATCAAGTAAT
1 AATTATACAATTTTTTAAAATTGTTTCTGTTCTTTCATTTTTTTTTTGTAACTTTATCAAGTAAT
59738101 GAATGGATTTTTTTT
66 GAATGGATTTTTTTT
59738116 AA
1 AA
59738118 AAAAAATTTT
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
79 44 0.55
80 36 0.45
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (80 bp):
AATTATACAATTTTTTAAAATTGTTTCTGTTCTTTCATTTTTTTTTTGTAACTTTATCAAGTAAT
GAATGGATTTTTTTT
Found at i:59741307 original size:47 final size:46
Alignment explanation
Indices: 59741235--59741324 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 46
59741225 TACGATATCC
*
59741235 TAACAATTTTATTAAATACATCATTTTAAAAAAATAAAAAATAATTT
1 TAACAATTTTATTAAATACACCATTTT-AAAAAATAAAAAATAATTT
59741282 TAACAATTTTATTAAATACACCATTTTAAAAAATAAAAAATAA
1 TAACAATTTTATTAAATACACCATTTTAAAAAATAAAAAATAA
59741325 AAAATAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
46 16 0.38
47 26 0.62
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (46 bp):
TAACAATTTTATTAAATACACCATTTTAAAAAATAAAAAATAATTT
Found at i:59741326 original size:6 final size:7
Alignment explanation
Indices: 59741308--59741332 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
59741298 TACACCATTT
59741308 TAAAAAA
1 TAAAAAA
59741315 TAAAAAA
1 TAAAAAA
59741322 TAAAAAA
1 TAAAAAA
59741329 TAAA
1 TAAA
59741333 TTTTATGAAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:59741784 original size:12 final size:12
Alignment explanation
Indices: 59741767--59741791 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59741757 TTTCTTTTAA
59741767 TCACTTGGTGAT
1 TCACTTGGTGAT
59741779 TCACTTGGTGAT
1 TCACTTGGTGAT
59741791 T
1 T
59741792 GACCTTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TCACTTGGTGAT
Found at i:59743365 original size:28 final size:27
Alignment explanation
Indices: 59743279--59743373 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 27
59743269 AAAAATTAAC
* *
59743279 GTGCTTATCATATTATTTCGCACTTCG
1 GTGCTTATCGTATTATTTTGCACTTCG
* * * *
59743306 GTGCTTATTGT-TGTAAAATTTGAACTTTG
1 GTGCTTATCGTAT-T--ATTTTGCACTTCG
59743335 GTGCTTATCGTAATTATTTTGCACTTCG
1 GTGCTTATCGT-ATTATTTTGCACTTCG
59743363 GTGCTTATCGT
1 GTGCTTATCGT
59743374 TATTTGCAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
26 1 0.02
27 10 0.19
28 21 0.40
29 19 0.36
30 1 0.02
31 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (27 bp):
GTGCTTATCGTATTATTTTGCACTTCG
Found at i:59745999 original size:27 final size:27
Alignment explanation
Indices: 59745929--59746001 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 27
59745919 AATTAAGAAT
* * * *
59745929 TAAAAATTTAA-TATTAAAT-TTATAT
1 TAAAAAATTAAGTATTGAATATAATAG
59745954 TAAAAAATT-AG--TTG-ATATAATAG
1 TAAAAAATTAAGTATTGAATATAATAG
59745977 TAAAAAATTAAGTATTGAATATAAT
1 TAAAAAATTAAGTATTGAATATAAT
59746002 TGTGTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
22 2 0.05
23 15 0.39
24 3 0.08
25 8 0.21
26 3 0.08
27 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (27 bp):
TAAAAAATTAAGTATTGAATATAATAG
Found at i:59753612 original size:21 final size:19
Alignment explanation
Indices: 59753587--59753626 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
59753577 CCGGCCCGAT
59753587 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
59753608 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
59753627 AAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:59760732 original size:18 final size:18
Alignment explanation
Indices: 59760704--59760779 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
59760694 GTCTTGATTC
59760704 AAAATATTATAAAATTATT
1 AAAA-ATTATAAAATTATT
59760723 AAAAATTATAAAATTA-T
1 AAAAATTATAAAATTATT
*
59760740 GAAAA-TAT-AAATT-TT
1 AAAAATTATAAAATTATT
* * *
59760755 TAAAATTTTAAAAATATT
1 AAAAATTATAAAATTATT
59760773 GAAAAAT
1 -AAAAAT
59760780 ATACATACTA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
15 10 0.21
16 5 0.11
17 9 0.19
18 14 0.30
19 9 0.19
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAAATTATAAAATTATT
Found at i:59760735 original size:8 final size:8
Alignment explanation
Indices: 59760709--59760767 Score: 57
Period size: 8 Copynumber: 7.1 Consensus size: 8
59760699 GATTCAAAAT
59760709 ATTATAAA
1 ATTATAAA
59760717 ATTATTAAAA
1 ATTA-T-AAA
59760727 ATTATAAA
1 ATTATAAA
59760735 ATTATGAAA
1 ATTAT-AAA
59760744 A-TATAAA
1 ATTATAAA
* *
59760751 TTTTTAAA
1 ATTATAAA
*
59760759 ATTTTAAA
1 ATTATAAA
59760767 A
1 A
59760768 ATATTGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
7 3 0.07
8 28 0.64
9 6 0.14
10 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (8 bp):
ATTATAAA
Found at i:59760758 original size:33 final size:34
Alignment explanation
Indices: 59760715--59760782 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 34
59760705 AAATATTATA
*
59760715 AAATTATTAAAAATTATAAAATTA-TG-AAAATAT
1 AAATTATT-AAAATTATAAAAATATTGAAAAATAT
* *
59760748 AAATTTTTAAAATTTTAAAAATATTGAAAAATAT
1 AAATTATTAAAATTATAAAAATATTGAAAAATAT
59760782 A
1 A
59760783 CATACTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 13 0.43
33 9 0.30
34 8 0.27
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (34 bp):
AAATTATTAAAATTATAAAAATATTGAAAAATAT
Found at i:59764358 original size:11 final size:11
Alignment explanation
Indices: 59764342--59764390 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
59764332 TTTTCCCACC
*
59764342 TTTTGCCACTA
1 TTTTGCTACTA
*
59764353 TTTTGCTACCA
1 TTTTGCTACTA
59764364 -TTTGACTACTA
1 TTTTG-CTACTA
*
59764375 TGTTGCTACTA
1 TTTTGCTACTA
59764386 TTTTG
1 TTTTG
59764391 TTGTTAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 4 0.13
11 24 0.77
12 3 0.10
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.49
Consensus pattern (11 bp):
TTTTGCTACTA
Found at i:59773677 original size:3 final size:3
Alignment explanation
Indices: 59773669--59773694 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59773659 CTTTGTGGGA
59773669 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
59773695 AAGATCCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:59774333 original size:22 final size:19
Alignment explanation
Indices: 59774294--59774335 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
59774284 TACAAAGTTG
59774294 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
59774313 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
59774335 A
1 A
59774336 ATGATTGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:59793000 original size:38 final size:38
Alignment explanation
Indices: 59792958--59793033 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
59792948 TAAAACCAAG
* * *
59792958 CTTTTTAAAAGGGTTTTTTTGAAGAAATCAACTGAAAT
1 CTTTTTAAAAAGATTTTTTTGAAGAAACCAACTGAAAT
* *
59792996 CTTTTTAAAAAGATTTTTTTTATGAAACCAACTGAAAT
1 CTTTTTAAAAAGATTTTTTTGAAGAAACCAACTGAAAT
59793034 TTATCTCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (38 bp):
CTTTTTAAAAAGATTTTTTTGAAGAAACCAACTGAAAT
Found at i:59799242 original size:3 final size:3
Alignment explanation
Indices: 59799234--59799274 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
59799224 CACTTTTAGA
59799234 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
59799275 AAAAATTAGA
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:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:59809335 original size:13 final size:13
Alignment explanation
Indices: 59809317--59809342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59809307 TCCTCTTTTG
59809317 CAAATTCCTTACC
1 CAAATTCCTTACC
59809330 CAAATTCCTTACC
1 CAAATTCCTTACC
59809343 ACTCATATGC
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:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAATTCCTTACC
Found at i:59811229 original size:26 final size:27
Alignment explanation
Indices: 59811185--59811271 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
59811175 AGAGGTCAAT
*
59811185 AAATGATCGAAATACCCCTATAAGGTA
1 AAATGATCGAAATACCCCTATAGGGTA
*
59811212 AAATGATCGAAATACCCTTATAGGGTA
1 AAATGATCGAAATACCCCTATAGGGTA
* *
59811239 AAATGACCGAAATACCCCTATCGGGTA
1 AAATGATCGAAATACCCCTATAGGGTA
59811266 AAATGA
1 AAATGA
59811272 CTGTTATACC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (27 bp):
AAATGATCGAAATACCCCTATAGGGTA
Found at i:59811280 original size:27 final size:27
Alignment explanation
Indices: 59811185--59811285 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
59811175 AGAGGTCAAT
*
59811185 AAATGA-TCGAAATACCCCTATAAGGTA
1 AAATGACT-GAAATACCCCTATAGGGTA
*
59811212 AAATGA-TCGAAATACCCTTATAGGGTA
1 AAATGACT-GAAATACCCCTATAGGGTA
* *
59811239 AAATGACCGAAATACCCCTATCGGGTA
1 AAATGACTGAAATACCCCTATAGGGTA
**
59811266 AAATGACTGTTATACCCCTA
1 AAATGACTGAAATACCCCTA
59811286 GGAGATGAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (27 bp):
AAATGACTGAAATACCCCTATAGGGTA
Found at i:59811475 original size:26 final size:26
Alignment explanation
Indices: 59811436--59811519 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 26
59811426 TGGAGGAAGT
* * *
59811436 ATATTGTTATTGGCAGCTTTGCTGTA
1 ATATTATTACTGGCAGCTTTGCTGCA
* * *
59811462 ATATTATTACTGGCATCTTTGCTACG
1 ATATTATTACTGGCAGCTTTGCTGCA
*
59811488 ATACTATTACTGGCAGCTTTGCTGCA
1 ATATTATTACTGGCAGCTTTGCTGCA
59811514 ATATTA
1 ATATTA
59811520 GTCTATTGGT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.42
Consensus pattern (26 bp):
ATATTATTACTGGCAGCTTTGCTGCA
Found at i:59818955 original size:27 final size:27
Alignment explanation
Indices: 59818925--59818976 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
59818915 AATGACCGAA
59818925 ATACCCCCATCGAG-TAAAATGACTGTT
1 ATACCCCCA-CGAGATAAAATGACTGTT
* *
59818952 ATACCCCTAGGAGATAAAATGACTG
1 ATACCCCCACGAGATAAAATGACTG
59818977 ATATGGCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (27 bp):
ATACCCCCACGAGATAAAATGACTGTT
Found at i:59819266 original size:28 final size:28
Alignment explanation
Indices: 59819221--59819282 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
59819211 CACTGTACTA
* *
59819221 TTACTGTATTAGGCTAAGGCCCACACTG
1 TTACTATATTAGGATAAGGCCCACACTG
* *
59819249 TTACTATATTGGGATAAGGTCCACACTG
1 TTACTATATTAGGATAAGGCCCACACTG
59819277 -TACTAT
1 TTACTAT
59819283 TACTGAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (28 bp):
TTACTATATTAGGATAAGGCCCACACTG
Found at i:59831666 original size:49 final size:49
Alignment explanation
Indices: 59831613--59831712 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
59831603 AGTAGAAGAG
* * *
59831613 AATTAAACATGAAGTAATTCATATATAAAATAAAACGAAACCAAATGAC
1 AATTAAACATGAAATAATTCATATAAAAAATAAAACAAAACCAAATGAC
* * *
59831662 AATTAAACATGAAATAATTCATATAAAAAATAAGACAAAACGAATTGAC
1 AATTAAACATGAAATAATTCATATAAAAAATAAAACAAAACCAAATGAC
59831711 AA
1 AA
59831713 GTAGTAAAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (49 bp):
AATTAAACATGAAATAATTCATATAAAAAATAAAACAAAACCAAATGAC
Found at i:59832515 original size:28 final size:27
Alignment explanation
Indices: 59832476--59832540 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
59832466 TAGTGATTTA
59832476 ATTTAA-ATATAAA-TATATATAATTATT
1 ATTTAACATATAAATTA-ATATAA-TATT
59832503 ATTTAACATATAAATTAATATAATATT
1 ATTTAACATATAAATTAATATAATATT
*
59832530 TTTATAACATA
1 ATT-TAACATA
59832541 ATATATTCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
27 12 0.35
28 20 0.59
29 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTTAACATATAAATTAATATAATATT
Found at i:59834405 original size:43 final size:42
Alignment explanation
Indices: 59834331--59834483 Score: 139
Period size: 43 Copynumber: 3.6 Consensus size: 42
59834321 GATGTGATAT
* * *
59834331 CGTGTAAGACAATGTCTGGGACATTGGCATCGAT-TAGAGATTA
1 CGTGTAAGACCATGTCTGGGATA-TGACATCGATATA-AGATTA
* *
59834374 CGTGTAAGACCATGTCTGGGATATCGACATCG-TATATGATTT
1 CGTGTAAGACCATGTCTGGGATAT-GACATCGATATAAGATTA
* * ** *
59834416 CGTGTAAGACCCTCTCTGGGATAGTGACATCGATATTTGATAA
1 CGTGTAAGACCATGTCTGGGATA-TGACATCGATATAAGATTA
** *
59834459 CACGTAAGACCATATCTGGGATATG
1 CGTGTAAGACCATGTCTGGGATATG
59834484 GCATTGTACG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 36 0.39
43 56 0.61
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGATATGACATCGATATAAGATTA
Found at i:59836556 original size:21 final size:22
Alignment explanation
Indices: 59836530--59836571 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
59836520 AAGGGACTTT
*
59836530 ATGATGATGTTTGAC-TATGAG
1 ATGATGATGTATGACTTATGAG
59836551 ATGATGATGTATGACTTATGA
1 ATGATGATGTATGACTTATGA
59836572 TTGTGAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (22 bp):
ATGATGATGTATGACTTATGAG
Found at i:59838148 original size:42 final size:42
Alignment explanation
Indices: 59838029--59838194 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 42
59838019 TAACTCAAAA
* * * *
59838029 AAATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATC
1 AAATACAATGCCAATGTCCCAGACATGGTCTTACACGTAACC
* * * *
59838071 AAATAACGATGTCATTGTCCCAGACAGGGTCTTACACGTAACC
1 AAAT-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAACC
* * *
59838114 ATATACAATGCCAATGTCTCAAACATGGTCTTACACGTAAATCAC
1 AAATACAATGCCAATGTCCCAGACATGGTCTTACACGT-AA-C-C
* * **
59838159 AAAT-CGATGCCAACGTCCCAGATGTGGTCTTACACG
1 AAATACAATGCCAATGTCCCAGACATGGTCTTACACG
59838195 ATATCACATA
Statistics
Matches: 98, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 32 0.33
43 35 0.36
44 27 0.28
45 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
AAATACAATGCCAATGTCCCAGACATGGTCTTACACGTAACC
Found at i:59839302 original size:13 final size:13
Alignment explanation
Indices: 59839284--59839308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59839274 ACAAACGATA
59839284 AAATTTTCACACG
1 AAATTTTCACACG
59839297 AAATTTTCACAC
1 AAATTTTCACAC
59839309 TTATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:59841895 original size:28 final size:28
Alignment explanation
Indices: 59841835--59841897 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
59841825 CTTATTGTTC
* ** *
59841835 AATTTCTTATTCTCAATTGTCAATTCTT
1 AATTTCTTATTCTAAATTCCCAATTCCT
* *
59841863 GATTTTTTATTCTAAATTCCCAATTCCT
1 AATTTCTTATTCTAAATTCCCAATTCCT
59841891 AATTTCT
1 AATTTCT
59841898 AAATCCTTTG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.52
Consensus pattern (28 bp):
AATTTCTTATTCTAAATTCCCAATTCCT
Found at i:59842087 original size:52 final size:52
Alignment explanation
Indices: 59841991--59842090 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
59841981 TTAGAAATGG
* * * **
59841991 TAAGAAAATATTATTTAATTATTTAATTTTATTCTTTTAATTATTATGATTT
1 TAAGAAAATATTAATAAATTATTTAATTTTAATCAGTTAATTATTATGATTT
*
59842043 TAAGAAAATATTAATAAATTATTTAATTTTAAAT-AGTTAGTTATTATG
1 TAAGAAAATATTAATAAATTATTTAATTTT-AATCAGTTAATTATTATG
59842091 TTGTTCAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 39 0.95
53 2 0.05
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (52 bp):
TAAGAAAATATTAATAAATTATTTAATTTTAATCAGTTAATTATTATGATTT
Found at i:59844907 original size:86 final size:86
Alignment explanation
Indices: 59844817--59844997 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
59844807 AATATAATTG
59844817 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
59844882 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
59844903 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
59844968 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
59844989 TAATT-TTAT
1 TAATTATTAT
59844998 GTGGAGAGAA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (86 bp):
TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
TGTTAAGTATTAATGTTGATA
Found at i:59845139 original size:51 final size:51
Alignment explanation
Indices: 59845064--59845283 Score: 325
Period size: 51 Copynumber: 4.1 Consensus size: 51
59845054 TATACGTAAA
59845064 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
59845114 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGG----TAA-A-T-----AAC-ATTAAACCAAC
59845177 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
59845228 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
59845279 AATTA
1 AATTA
59845284 AACCAACAAT
Statistics
Matches: 157, Mismatches: 0, Indels: 25
0.86 0.00 0.14
Matches are distributed among these distances:
50 6 0.04
51 92 0.59
52 3 0.02
55 3 0.02
56 1 0.01
57 2 0.01
58 1 0.01
59 3 0.02
62 3 0.02
63 43 0.27
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (51 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
Found at i:59845171 original size:12 final size:12
Alignment explanation
Indices: 59845154--59845181 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
59845144 GGTAAATAAC
59845154 ATTAAACCAACA
1 ATTAAACCAACA
59845166 ATTAAACCAACA
1 ATTAAACCAACA
59845178 ATTA
1 ATTA
59845182 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:59845181 original size:63 final size:63
Alignment explanation
Indices: 59845103--59845232 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
59845093 GGTAAATAAC
59845103 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
59845166 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
59845229 ATTA
1 ATTA
59845233 TACATACACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:59845205 original size:114 final size:114
Alignment explanation
Indices: 59845064--59845343 Score: 537
Period size: 114 Copynumber: 2.5 Consensus size: 114
59845054 TATACGTAAA
59845064 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
59845128 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
66 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
59845177 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
59845242 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
66 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
59845291 AATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAACAA
1 AATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACAA
59845344 GTAATTTTAG
Statistics
Matches: 165, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
113 7 0.04
114 158 0.96
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (114 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
Found at i:59845284 original size:63 final size:63
Alignment explanation
Indices: 59845217--59845343 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
59845207 GGTAAATAAC
59845217 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAACA
59845280 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
59845343 A
1 A
59845344 GTAATTTTAG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 1 0.02
63 62 0.98
ACGTcount: A:0.48, C:0.20, G:0.06, T:0.26
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
Found at i:59845285 original size:12 final size:12
Alignment explanation
Indices: 59845268--59845295 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
59845258 GGTAAATAAC
59845268 ATTAAACCAACA
1 ATTAAACCAACA
59845280 ATTAAACCAACA
1 ATTAAACCAACA
59845292 ATTA
1 ATTA
59845296 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:59845341 original size:33 final size:33
Alignment explanation
Indices: 59845240--59845343 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
59845230 TTATACATAC
59845240 ACCAACAATGTTTTTTAGGGTA-AATAACATTAA
1 ACCAACAATGTTTTTTAGGG-ACAATAACATTAA
** *** *
59845273 ACCAACAA----TTAAACCAACAATTATACA-TAC
1 ACCAACAATGTTTTTTAGGGACAA-TA-ACATTAA
59845303 ACCAACAATGTTTTTTAGGGACAATAACATTAA
1 ACCAACAATGTTTTTTAGGGACAATAACATTAA
59845336 ACCAACAA
1 ACCAACAA
59845344 GTAATTTTAG
Statistics
Matches: 51, Mismatches: 12, Indels: 16
0.65 0.15 0.20
Matches are distributed among these distances:
28 1 0.02
29 5 0.10
30 12 0.24
31 3 0.06
32 3 0.06
33 20 0.39
34 7 0.14
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (33 bp):
ACCAACAATGTTTTTTAGGGACAATAACATTAA
Found at i:59845352 original size:33 final size:34
Alignment explanation
Indices: 59845289--59845399 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
59845279 AATTAAACCA
* *
59845289 ACAATTATACATACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
59845323 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
59845355 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
59845388 TCAATTATACAT
1 ACAATTATACAT
59845400 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.75
34 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:59848618 original size:120 final size:120
Alignment explanation
Indices: 59848421--59849164 Score: 1364
Period size: 120 Copynumber: 6.2 Consensus size: 120
59848411 TTTTCAAGTT
59848421 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59848486 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
59848541 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59848606 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
59848661 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59848726 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
59848781 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59848846 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
59848901 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
59848966 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
* *
59849022 ATATATTTAGTAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59849087 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
59849142 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
59849165 TAAATATGAT
Statistics
Matches: 612, Mismatches: 9, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
119 2 0.00
120 494 0.81
121 114 0.19
122 2 0.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:59848900 original size:18 final size:17
Alignment explanation
Indices: 59848872--59848906 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59848862 ATTATTAAGA
*
59848872 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59848889 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59848907 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59849141 original size:18 final size:17
Alignment explanation
Indices: 59849113--59849147 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59849103 ATTATTAAGA
*
59849113 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59849130 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59849148 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59849361 original size:44 final size:45
Alignment explanation
Indices: 59849312--59849402 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
59849302 ACCTCTATTC
* * *
59849312 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
59849356 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
59849401 CA
1 CA
59849403 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:59849404 original size:16 final size:16
Alignment explanation
Indices: 59849383--59849451 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
59849373 GATTAGCTAT
59849383 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
59849399 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
59849416 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
59849432 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
59849448 TACA
1 TACA
59849452 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:59849425 original size:33 final size:32
Alignment explanation
Indices: 59849383--59849451 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
59849373 GATTAGCTAT
59849383 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
59849416 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
59849448 TACA
1 TACA
59849452 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:59851274 original size:11 final size:11
Alignment explanation
Indices: 59851252--59851320 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
59851242 ATTTTAAAAA
59851252 TTAAAAAGTATT
1 TTAAAAA-TATT
59851264 TTAAAAATATT
1 TTAAAAATATT
59851275 TT--AAA-A-T
1 TTAAAAATATT
* *
59851282 TAAAAAATA-A
1 TTAAAAATATT
*
59851292 TAAAAAATTATT
1 TTAAAAA-TATT
59851304 TTAAAAATATT
1 TTAAAAATATT
59851315 TTAAAA
1 TTAAAA
59851321 TTAAAAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.12
10 8 0.17
11 18 0.38
12 13 0.27
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:59851275 original size:30 final size:30
Alignment explanation
Indices: 59851234--59851311 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 30
59851224 AATAAGTATC
* * *
59851234 AAAAATTTATTTTAAAAATTAAAAAGTATTT
1 AAAAAATTATTTTAAAAATTAAAAAATA-AT
*
59851265 TAAAAA-TATTTT-AAAATTAAAAAATAAT
1 AAAAAATTATTTTAAAAATTAAAAAATAAT
59851293 AAAAAATTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
59851312 ATTTTAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.15
29 19 0.47
30 11 0.28
31 4 0.10
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAAAATTATTTTAAAAATTAAAAAATAAT
Found at i:59851336 original size:40 final size:39
Alignment explanation
Indices: 59851247--59851339 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 39
59851237 AATTTATTTT
*
59851247 AAAAA-TT-AAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTTAAAAAATTATTTTAAAAATATTTTAAAATTA
*
59851284 AAAAATAATAAAAAATTATTTTAAAAATATTTTAAAATTAA
1 AAAAAT-TTAAAAAATTATTTTAAAAATATTTTAAAATT-A
59851325 AAAAATTTAAAAAAT
1 AAAAATTTAAAAAAT
59851340 AAATATATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
37 5 0.10
39 1 0.02
40 36 0.73
41 7 0.14
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (39 bp):
AAAAATTTAAAAAATTATTTTAAAAATATTTTAAAATTA
Found at i:59851350 original size:17 final size:17
Alignment explanation
Indices: 59851305--59851350 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
59851295 AAAATTATTT
* *
59851305 TAAAAATATTTTAAAAT
1 TAAAAATATTTAAAAAA
*
59851322 TAAAAAAATTTAAAAAA
1 TAAAAATATTTAAAAAA
*
59851339 TAAATATATTTA
1 TAAAAATATTTA
59851351 TTATATCGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATATTTAAAAAA
Found at i:59852995 original size:9 final size:9
Alignment explanation
Indices: 59852981--59853016 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
59852971 TCTAATGATT
59852981 TTTGAAATG
1 TTTGAAATG
59852990 TTTGAAATG
1 TTTGAAATG
59852999 TTTGAAATG
1 TTTGAAATG
59853008 TTTGAAATG
1 TTTGAAATG
59853017 AATGATTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (9 bp):
TTTGAAATG
Found at i:59857798 original size:12 final size:12
Alignment explanation
Indices: 59857781--59857805 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59857771 GGTGTTCATT
59857781 CGGTTAACCGAC
1 CGGTTAACCGAC
59857793 CGGTTAACCGAC
1 CGGTTAACCGAC
59857805 C
1 C
59857806 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:59857982 original size:9 final size:9
Alignment explanation
Indices: 59857965--59858021 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
59857955 TTTGGTTAAA
59857965 AATTACCCG
1 AATTACCCG
*
59857974 AATTGCCCG
1 AATTACCCG
*
59857983 AATTAACCG
1 AATTACCCG
***
59857992 AATTACAAAA
1 AATTAC-CCG
*
59858002 AAATACCCG
1 AATTACCCG
59858011 AATTACCCG
1 AATTACCCG
59858020 AA
1 AA
59858022 ATTTTTTATT
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
9 30 0.86
10 5 0.14
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.19
Consensus pattern (9 bp):
AATTACCCG
Found at i:59859580 original size:16 final size:16
Alignment explanation
Indices: 59859546--59859588 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
59859536 AATTGAAATG
*
59859546 AATAT-ATATATGTGTA
1 AATATGATA-ATGTGCA
*
59859562 AATGTGATAATGTGCA
1 AATATGATAATGTGCA
59859578 AATATGATAAT
1 AATATGATAAT
59859589 TGGATATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (16 bp):
AATATGATAATGTGCA
Found at i:59864173 original size:18 final size:19
Alignment explanation
Indices: 59864147--59864184 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
59864137 TTTATAATAT
59864147 ATATGATATAAA-ATAAAA
1 ATATGATATAAATATAAAA
*
59864165 ATATTATATAAATATAAAA
1 ATATGATATAAATATAAAA
59864184 A
1 A
59864185 ATTCAAGAAA
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:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
ATATGATATAAATATAAAA
Done.