Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 155 of 168
Found at i:46094849 original size:30 final size:31
Alignment explanation
Indices: 46094806--46094876 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
46094796 CCAAAAATTT
46094806 ATTTTACAAATTT-AAAAAATATTTAAAAAA-A
1 ATTTTA-AAATTTAAAAAAAT-TTTAAAAAAGA
*
46094837 ATTTTAAAATTTAAAAAAATTTTAAAAAAGT
1 ATTTTAAAATTTAAAAAAATTTTAAAAAAGA
46094868 ATTTTAAAA
1 ATTTTAAAA
46094877 ATATTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (31 bp):
ATTTTAAAATTTAAAAAAATTTTAAAAAAGA
Found at i:46094854 original size:18 final size:19
Alignment explanation
Indices: 46094826--46094863 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
46094816 TTTAAAAAAT
46094826 ATTTAAAAAAAATTTTAAA
1 ATTTAAAAAAAATTTTAAA
46094845 ATTT-AAAAAAATTTTAAA
1 ATTTAAAAAAAATTTTAAA
46094863 A
1 A
46094864 AAGTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTTAAAAAAAATTTTAAA
Found at i:46094864 original size:19 final size:20
Alignment explanation
Indices: 46094821--46094864 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 20
46094811 ACAAATTTAA
46094821 AAAATATTTAAAAAAAATTTT
1 AAAA-ATTTAAAAAAAATTTT
46094842 -AAAATTT-AAAAAAATTTT
1 AAAAATTTAAAAAAAATTTT
46094860 AAAAA
1 AAAAA
46094865 AGTATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 11 0.50
19 8 0.36
20 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTTAAAAAAAATTTT
Found at i:46094871 original size:42 final size:40
Alignment explanation
Indices: 46094816--46094895 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 40
46094806 ATTTTACAAA
46094816 TTTAAAAAATATTTAAAAAAAATTTTAAAATTTAAAAAAAT
1 TTTAAAAAATATTTAAAAAAAATTTTAAAA-TTAAAAAAAT
* *
46094857 TTTAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
1 TTTAAAAAA-TATTTAAAAAAAATTTTAAAATTAAAAAA
46094896 TAAATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 17 0.47
42 19 0.53
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (40 bp):
TTTAAAAAATATTTAAAAAAAATTTTAAAATTAAAAAAAT
Found at i:46094872 original size:31 final size:30
Alignment explanation
Indices: 46094805--46094876 Score: 101
Period size: 30 Copynumber: 2.3 Consensus size: 30
46094795 ACCAAAAATT
46094805 TATTTTACAAATTTAAAAAATATTTAAAAAA
1 TATTTTA-AAATTTAAAAAATATTTAAAAAA
*
46094836 AATTTTAAAATTTAAAAAA-ATTTTAAAAAA
1 TATTTTAAAATTTAAAAAATA-TTTAAAAAA
46094866 GTATTTTAAAA
1 -TATTTTAAAA
46094877 ATATTTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 1 0.03
30 21 0.57
31 15 0.41
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (30 bp):
TATTTTAAAATTTAAAAAATATTTAAAAAA
Found at i:46101293 original size:46 final size:46
Alignment explanation
Indices: 46101110--46101294 Score: 264
Period size: 46 Copynumber: 4.0 Consensus size: 46
46101100 TGGCAAATTG
* * *
46101110 TGAAAAGTAGGTATGATGTTTCAGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTA
* * *
46101156 TGAAAAGTAGGTATGGTGTTTCAGTGAGGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTA
* *
46101202 TGAAAAGTAGGTATGGTATTT-TGATAAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTATTTCAG-TGAAGAAAACCATACTGAGTTA
* *
46101248 TGAAAAGTAGGTATGGTATTTCAGTGGAGGAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTA
46101294 T
1 T
46101295 AGCATTGTAT
Statistics
Matches: 126, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 124 0.98
47 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.29
Consensus pattern (46 bp):
TGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTA
Found at i:46104018 original size:46 final size:46
Alignment explanation
Indices: 46103945--46104134 Score: 229
Period size: 46 Copynumber: 4.0 Consensus size: 46
46103935 ACAATGCTAT
* * * *
46103945 AACTCAGTATGGTTTCCTCCACTGAAATACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
46103991 AACTCAGTATGGTTTTCTTTA-TCGAAATACCATACTTACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACT-GAAACACC--A--TACCTACTTTTCAC
* *
46104041 AACTCAGTATGGTTTTCCTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * *
46104087 AACTTAGTATGGTTTTCTTCACTGAAACATCATATCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
46104133 AA
1 AA
46104135 TTTGCCATGG
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
45 1 0.01
46 83 0.66
48 2 0.02
50 39 0.31
51 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:46125645 original size:30 final size:30
Alignment explanation
Indices: 46125578--46125650 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
46125568 GAGAGGGATA
* **
46125578 TTTTATTTAATATTAATATAATTATTTTTAT
1 TTTTA-TTAATATTAATATAATAATTTAAAT
46125609 TTTTATTAATATTAATATAA-AATTTAAAT
1 TTTTATTAATATTAATATAATAATTTAAAT
46125638 TTATTATT-ATATT
1 TT-TTATTAATATT
46125651 TTTTGAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 13 0.34
30 20 0.53
31 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTATTAATATTAATATAATAATTTAAAT
Found at i:46125949 original size:36 final size:35
Alignment explanation
Indices: 46125905--46125981 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
46125895 ATTTTCAAAA
** *
46125905 AATATAATAATAAATTTAAAT-TTTATATTAATATT
1 AATATAATAA-AAATAAAAATAATTATATTAATATT
46125940 AATATTAATAAAAATAAAAATAATTATATTAATATT
1 AATA-TAATAAAAATAAAAATAATTATATTAATATT
46125976 AA-ATAA
1 AATATAA
46125982 AATATCCCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 3 0.08
35 13 0.35
36 21 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (35 bp):
AATATAATAAAAATAAAAATAATTATATTAATATT
Found at i:46126543 original size:21 final size:21
Alignment explanation
Indices: 46126517--46126556 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46126507 CATTATTTTT
46126517 ATTT-AATATTATTAATATAAA
1 ATTTAAAT-TTATTAATATAAA
*
46126538 ATTTAAATTTATTATTATA
1 ATTTAAATTTATTAATATA
46126557 TCTTTCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAAATTTATTAATATAAA
Found at i:46126899 original size:19 final size:21
Alignment explanation
Indices: 46126865--46126907 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
46126855 AACTATTTTA
46126865 ATTTCATAATGCTTTATT-TG
1 ATTTCATAATGCTTTATTCTG
*
46126885 ATTTC-TAATGTTTTATTCTG
1 ATTTCATAATGCTTTATTCTG
46126905 ATT
1 ATT
46126908 CCGTGGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (21 bp):
ATTTCATAATGCTTTATTCTG
Found at i:46128434 original size:28 final size:29
Alignment explanation
Indices: 46128379--46128434 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
46128369 AAAAATATAT
*
46128379 TTTTTATAATTTTTAAAATAATTTTAATGA
1 TTTTTAT-ATTTTTAAAATAATTATAATGA
46128409 TTTTTAT-TTTTTAAAAT-ATATATAAT
1 TTTTTATATTTTTAAAATAAT-TATAAT
46128435 TTTGTCATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 2 0.08
28 15 0.62
30 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTTATATTTTTAAAATAATTATAATGA
Found at i:46138593 original size:18 final size:18
Alignment explanation
Indices: 46138530--46138593 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
46138520 ATTTATCTTC
* *
46138530 TTTATTTATTTACTTAAT
1 TTTATTTATTTATTTTAT
46138548 CTTTGATTTA-TTATTTTAT
1 -TTT-ATTTATTTATTTTAT
*
46138567 TTTAGTTATTTATTTTAAT
1 TTTATTTATTTATTTT-AT
46138586 TTT-TTTAT
1 TTTATTTAT
46138594 CTGACTTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.11
18 14 0.37
19 15 0.39
20 5 0.13
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTATTTATTTATTTTAT
Found at i:46138979 original size:16 final size:15
Alignment explanation
Indices: 46138950--46138978 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46138940 TCAAAAAAGC
46138950 ACAAAAAAATAAAAT
1 ACAAAAAAATAAAAT
46138965 ACAAAAAAATAAAA
1 ACAAAAAAATAAAA
46138979 AATATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (15 bp):
ACAAAAAAATAAAAT
Found at i:46142097 original size:2 final size:2
Alignment explanation
Indices: 46142090--46142132 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
46142080 CTTGTATGTT
46142090 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46142132 T
1 T
46142133 TATGCTGCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46142912 original size:25 final size:25
Alignment explanation
Indices: 46142878--46143031 Score: 167
Period size: 25 Copynumber: 6.2 Consensus size: 25
46142868 TACATCAATA
46142878 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
46142903 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
46142926 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
46142951 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
46142974 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
46142999 ATTAAAAATCAAGAAATTTAATATTTT
1 ATT-AAAAT-AAGGACTTTAATATTTT
*
46143026 AATAAA
1 ATTAAA
46143032 GAAATTTAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
23 38 0.35
24 4 0.04
25 41 0.38
26 8 0.07
27 17 0.16
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:46142927 original size:48 final size:48
Alignment explanation
Indices: 46142871--46143005 Score: 270
Period size: 48 Copynumber: 2.8 Consensus size: 48
46142861 TAAAAATTAC
46142871 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
46142919 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
46142967 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
46143006 ATCAAGAAAT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:46142929 original size:23 final size:23
Alignment explanation
Indices: 46142871--46142988 Score: 132
Period size: 23 Copynumber: 5.0 Consensus size: 23
46142861 TAAAAATTAC
46142871 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
46142896 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
46142919 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
46142944 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
46142967 ATCAATAATTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
46142989 TTAATATTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
23 39 0.49
24 4 0.05
25 36 0.46
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (23 bp):
ATCAATAATTAAAATAAGGACTA
Found at i:46143473 original size:37 final size:37
Alignment explanation
Indices: 46143431--46143518 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 37
46143421 TCATAAATAA
46143431 ATAAACTAATCAATGTTCA-AACTTTGAACATGCTTT-
1 ATAAACTAATCAATG-TCAGAACTTTGAACATGCTTTG
* *
46143467 ATTAAACTAATCAATGTGAGGACTTTGAACATGCTTTG
1 A-TAAACTAATCAATGTCAGAACTTTGAACATGCTTTG
*
46143505 ATGAACTAATCAAT
1 ATAAACTAATCAAT
46143519 ATATTTATAC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
36 3 0.07
37 42 0.91
38 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (37 bp):
ATAAACTAATCAATGTCAGAACTTTGAACATGCTTTG
Found at i:46148462 original size:15 final size:15
Alignment explanation
Indices: 46148427--46148478 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46148417 TTAAGAATTT
*
46148427 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46148441 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46148455 TATTTAATAATAAT-
1 TATTTAATTATAATA
46148469 TATGTTAATT
1 TAT-TTAATT
46148479 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46148522 original size:120 final size:120
Alignment explanation
Indices: 46148310--46148599 Score: 480
Period size: 120 Copynumber: 2.4 Consensus size: 120
46148300 NNNNNNNNNT
* * * *
46148310 TTAAATCATATA-TTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCATTTATAGTA
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTCATTTACAGTA
46148373 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
65 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
46148429 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTAT-ATTTTACAGT
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TCA-TTTACAGT
46148492 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
64 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
46148549 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
46148600 ATGATTAAAT
Statistics
Matches: 161, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
119 17 0.11
120 137 0.85
121 4 0.02
122 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTCATTTACAGTAT
CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
Found at i:46148577 original size:16 final size:16
Alignment explanation
Indices: 46148556--46148597 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46148546 TTATTAAATT
*
46148556 ATATATTTTAATTATA
1 ATATATTTTAATAATA
46148572 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
46148587 AT-TATGTTTAA
1 ATATAT-TTTAA
46148598 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:46148582 original size:15 final size:15
Alignment explanation
Indices: 46148547--46148588 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46148537 TTAAGAATTT
*
46148547 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46148561 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46148575 TATTTAATAATAAT
1 TATTTAATTATAAT
46148589 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46148711 original size:156 final size:156
Alignment explanation
Indices: 46148542--46148846 Score: 549
Period size: 156 Copynumber: 2.0 Consensus size: 156
46148532 AATTATTAAG
*
46148542 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
* * *
46148607 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATAA-CAATTTA
66 AAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATC-ATTTA
*
46148671 CCAAAACAAATTTCTGCTAATTATAGT
130 CCAAAACAAATTTATGCTAATTATAGT
46148698 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
46148763 AAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTAC
66 AAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTAC
46148828 CAAAACAAATTTATGCTAA
131 CAAAACAAATTTATGCTAA
46148847 GGGTATTCTA
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
156 142 0.99
157 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (156 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
AAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTAC
CAAAACAAATTTATGCTAATTATAGT
Found at i:46148727 original size:18 final size:18
Alignment explanation
Indices: 46148689--46148733 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
46148679 AATTTCTGCT
46148689 AATTATAGTAATTTTATTA
1 AATTATA-TAATTTTATTA
46148708 AATTATAT-ATTTTAATTA
1 AATTATATAATTTT-ATTA
*
46148726 AAATATAT
1 AATTATAT
46148734 TTAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 12 0.50
19 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
AATTATATAATTTTATTA
Found at i:46151468 original size:16 final size:16
Alignment explanation
Indices: 46151447--46151483 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
46151437 TCAACAACTT
* *
46151447 TTGTTTATAATAATTG
1 TTGTTTAGAACAATTG
46151463 TTGTTTAGAACAATTG
1 TTGTTTAGAACAATTG
46151479 TTGTT
1 TTGTT
46151484 CGAGAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.54
Consensus pattern (16 bp):
TTGTTTAGAACAATTG
Found at i:46154870 original size:30 final size:30
Alignment explanation
Indices: 46154815--46154871 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
46154805 CTTTATTGTA
* * *
46154815 TGTACAATTTGTCTTTTACTAATTATATTT
1 TGTACAATTTGCCATGTACTAATTATATTT
*
46154845 TGTACAATTTGCCATGTACTTATTATA
1 TGTACAATTTGCCATGTACTAATTATA
46154872 CCTTTGTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (30 bp):
TGTACAATTTGCCATGTACTAATTATATTT
Found at i:46161679 original size:18 final size:19
Alignment explanation
Indices: 46161651--46161687 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
46161641 TTTAACAATC
46161651 GAAATTTATTTTATAATAA
1 GAAATTTATTTTATAATAA
*
46161670 GAAA-TTATTTTGTAATAA
1 GAAATTTATTTTATAATAA
46161688 TCAATGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
GAAATTTATTTTATAATAA
Found at i:46162280 original size:15 final size:15
Alignment explanation
Indices: 46162229--46162281 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
46162219 TTTACATTAC
46162229 AAAATATTTATTATT
1 AAAATATTTATTATT
* * * *
46162244 AATATATATAATTGTA
1 AAAATAT-TTATTATT
46162260 ATAAATATTTATTATT
1 A-AAATATTTATTATT
46162276 AAAATA
1 AAAATA
46162282 AGATTGAAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
15 11 0.39
16 12 0.43
17 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:46163474 original size:18 final size:18
Alignment explanation
Indices: 46163434--46163474 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
46163424 TTAATCTTTG
46163434 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
46163451 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
46163470 -TTTAT
1 ATTTAT
46163475 CTGACTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:46163842 original size:27 final size:25
Alignment explanation
Indices: 46163812--46163868 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
46163802 TTTCTCACAA
46163812 AAAAT-GATAAAAGAAAGTACAAAAAAT
1 AAAATAGAT-AAA-AAAGTA-AAAAAAT
*
46163839 AAAATACGATAAAAAATTAAAAAAAT
1 AAAATA-GATAAAAAAGTAAAAAAAT
46163865 AAAA
1 AAAA
46163869 AATATTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 11 0.41
27 10 0.37
28 3 0.11
29 3 0.11
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.16
Consensus pattern (25 bp):
AAAATAGATAAAAAAGTAAAAAAAT
Found at i:46177042 original size:22 final size:22
Alignment explanation
Indices: 46176973--46177042 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
46176963 ATAAAACTTG
* * *
46176973 AAATGTATATTTTAAATTTTTT
1 AAATATATATTTTTAATATTTT
46176995 ATAATAT-TATTTTATTAA-ATTTT
1 A-AATATATA-TTT-TTAATATTTT
*
46177018 AAATATATATTTTTAATATTAT
1 AAATATATATTTTTAATATTTT
46177040 AAA
1 AAA
46177043 ACATTTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
21 4 0.10
22 18 0.46
23 14 0.36
24 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (22 bp):
AAATATATATTTTTAATATTTT
Found at i:46177126 original size:19 final size:19
Alignment explanation
Indices: 46177104--46177140 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46177094 GTTTTATAAT
*
46177104 ATTTTAAATATTATTTTTA
1 ATTTTAAATATAATTTTTA
46177123 ATTTTAAATATAATTTTT
1 ATTTTAAATATAATTTTT
46177141 TCAAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTAAATATAATTTTTA
Found at i:46177162 original size:16 final size:14
Alignment explanation
Indices: 46177124--46177162 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 14
46177114 TTATTTTTAA
46177124 TTTTAAATATAATT
1 TTTTAAATATAATT
46177138 TTTTCAAATGATTAATT
1 TTTT-AAAT-A-TAATT
46177155 TTTTAAAT
1 TTTTAAAT
46177163 TATTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 5 0.23
17 9 0.41
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTTAAATATAATT
Found at i:46178646 original size:24 final size:26
Alignment explanation
Indices: 46178599--46178703 Score: 80
Period size: 26 Copynumber: 4.1 Consensus size: 26
46178589 AATAAAAAAG
46178599 ATATAAATAAGTAAATAATAATATTA
1 ATATAAATAAGTAAATAATAATATTA
46178625 ATATATAATAAG-AAA-AAT-ATATTTAAA
1 ATATA-AATAAGTAAATAATAATA-TT--A
* **
46178652 ATTTAAATAAGTAAAT-ATAAATAGAA
1 ATATAAATAAGTAAATAAT-AATATTA
*
46178678 ATAT-AATAA-T-AATAATAATAATA
1 ATATAAATAAGTAAATAATAATATTA
46178701 ATA
1 ATA
46178704 ATGATAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
23 11 0.17
24 6 0.09
25 10 0.16
26 18 0.28
27 16 0.25
29 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (26 bp):
ATATAAATAAGTAAATAATAATATTA
Found at i:46178688 original size:3 final size:3
Alignment explanation
Indices: 46178680--46178720 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
46178670 AAATAGAAAT
*
46178680 ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
46178721 CATCGTCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:46189597 original size:24 final size:22
Alignment explanation
Indices: 46189556--46189599 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
46189546 TTTAATGATA
*
46189556 TTTTTAAAATATATATGAATTT
1 TTTTTAAAATATAAATGAATTT
46189578 TTTTTATAAATATCAAATGAAT
1 TTTTTA-AAATAT-AAATGAAT
46189600 ATGATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 6 0.32
24 7 0.37
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
TTTTTAAAATATAAATGAATTT
Found at i:46192717 original size:13 final size:13
Alignment explanation
Indices: 46192699--46192725 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46192689 ATTTAATATT
46192699 TATATAATAAATA
1 TATATAATAAATA
46192712 TATATAATAAATA
1 TATATAATAAATA
46192725 T
1 T
46192726 TTATTTTTAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:46197922 original size:23 final size:22
Alignment explanation
Indices: 46197896--46197938 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
46197886 TATTAAATCT
*
46197896 ATAATATATAACCTTTATAAAAA
1 ATAATATATAA-ATTTATAAAAA
*
46197919 ATAATTTATAAATTTATAAA
1 ATAATATATAAATTTATAAA
46197939 TTATACAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAATATATAAATTTATAAAAA
Found at i:46199457 original size:44 final size:45
Alignment explanation
Indices: 46199394--46199482 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
46199384 TTCCATTCAC
46199394 TTGTATTTAATCCGTTTTC-ATGCAGATTCAAATTCAAATAATAT
1 TTGTATTTAATCCGTTTTCAATGCAGATTCAAATTCAAATAATAT
*
46199438 TTGTATTTAA-CCTGTTTTCAATGTAGATTCAAATTCAAATAATAT
1 TTGTATTTAATCC-GTTTTCAATGCAGATTCAAATTCAAATAATAT
46199483 AAACAATCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 2 0.05
44 16 0.38
45 24 0.57
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (45 bp):
TTGTATTTAATCCGTTTTCAATGCAGATTCAAATTCAAATAATAT
Found at i:46203227 original size:14 final size:15
Alignment explanation
Indices: 46203195--46203231 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
46203185 TAGAATATAT
*
46203195 ATTTTTAGTACTTAC
1 ATTTTTAATACTTAC
46203210 ATTTTTAATACTTA-
1 ATTTTTAATACTTAC
46203224 ATTTTTAA
1 ATTTTTAA
46203232 ACACTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (15 bp):
ATTTTTAATACTTAC
Found at i:46203461 original size:21 final size:22
Alignment explanation
Indices: 46203419--46203461 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
46203409 TTAGTATATA
46203419 TAAAAGAATTAAATAAAAATTT
1 TAAAAGAATTAAATAAAAATTT
46203441 TAAAA-AA-TAAATAACAAATTT
1 TAAAAGAATTAAATAA-AAATTT
46203462 AAATATCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 8 0.40
22 5 0.25
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
TAAAAGAATTAAATAAAAATTT
Found at i:46206826 original size:16 final size:16
Alignment explanation
Indices: 46206807--46206837 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46206797 AGAATGTTCG
46206807 TTTGAGTGAATAAATC
1 TTTGAGTGAATAAATC
*
46206823 TTTGGGTGAATAAAT
1 TTTGAGTGAATAAAT
46206838 TTGATTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (16 bp):
TTTGAGTGAATAAATC
Found at i:46216919 original size:27 final size:28
Alignment explanation
Indices: 46216855--46216919 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 28
46216845 AACCCGGCTT
* *
46216855 AAAAACTTATTTTACTATTTTAAAATAT
1 AAAAAATTATTTTACTATTTTAAAATAA
*
46216883 AAAAAA-TATTTT-GTA-TTTAAAAGTAA
1 AAAAAATTATTTTACTATTTTAAAA-TAA
46216909 AAAAAATTATT
1 AAAAAATTATT
46216920 ATTAGGTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 7 0.22
26 10 0.31
27 10 0.31
28 5 0.16
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (28 bp):
AAAAAATTATTTTACTATTTTAAAATAA
Found at i:46239520 original size:17 final size:17
Alignment explanation
Indices: 46239479--46239520 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
46239469 AACGTGCTCC
*
46239479 ATAAATTATTTAATTTA
1 ATAAATTTTTTAATTTA
*
46239496 ATATATTTTTTATATTTA
1 ATAAATTTTTTA-ATTTA
46239514 A-AAATTT
1 ATAAATTT
46239521 AAGTATATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATAAATTTTTTAATTTA
Found at i:46239700 original size:29 final size:30
Alignment explanation
Indices: 46239646--46239714 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
46239636 TTTAATGTGT
*
46239646 AATTGTATACATGAACTTTGATTTTG-TAC
1 AATTTTATACATGAACTTTGATTTTGATAC
* *
46239675 AATTTTATACATGAAATTTTGA-TTTGATTC
1 AATTTTATACATG-AACTTTGATTTTGATAC
46239705 AATTCTTATA
1 AATT-TTATA
46239715 AATCGTTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 16 0.47
30 13 0.38
31 5 0.15
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (30 bp):
AATTTTATACATGAACTTTGATTTTGATAC
Found at i:46246279 original size:15 final size:14
Alignment explanation
Indices: 46246232--46246279 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 14
46246222 GATTTTAAAA
46246232 TAATAATAATATTTT
1 TAATAA-AATATTTT
46246247 TAATATTTAAATAATTTT
1 TAATA---AAAT-ATTTT
46246265 TAATAAAATATTTT
1 TAATAAAATATTTT
46246279 T
1 T
46246280 CGTTATTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 6 0.21
15 9 0.31
17 3 0.10
18 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TAATAAAATATTTT
Found at i:46246287 original size:33 final size:31
Alignment explanation
Indices: 46246232--46246310 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
46246222 GATTTTAAAA
46246232 TAATAATAATATTTTTAATATTTAAATAATTTT
1 TAATAA-AATATTTTTAATATTT-AATAATTTT
** **
46246265 TAATAAAATATTTTTCGTTATTTGTTAATTTT
1 TAATAAAATATTTTT-AATATTTAATAATTTT
*
46246297 TTA-AAAATATTTTT
1 TAATAAAATATTTTT
46246311 TTAATAGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 11 0.28
32 18 0.45
33 11 0.28
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (31 bp):
TAATAAAATATTTTTAATATTTAATAATTTT
Found at i:46271715 original size:18 final size:16
Alignment explanation
Indices: 46271669--46271730 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 16
46271659 GGTGTAAGGT
46271669 TAAATGTTAAAAAAAA
1 TAAATGTTAAAAAAAA
46271685 -AAACTGTACTAAAAAAGTAA
1 TAAA-TGT--TAAAAAA--AA
46271705 TAAATGTTAAAAAAAA
1 TAAATGTTAAAAAAAA
46271721 TCAAA-GTTAA
1 T-AAATGTTAA
46271731 GGCGCAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
15 3 0.08
16 11 0.28
17 3 0.08
18 14 0.36
20 5 0.13
21 3 0.08
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (16 bp):
TAAATGTTAAAAAAAA
Found at i:46282396 original size:27 final size:26
Alignment explanation
Indices: 46282347--46282398 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
46282337 TTAATTAATT
*
46282347 TTTAAAATTAAAAAAATATAAAAATA
1 TTTAAAATTAAAAAAACATAAAAATA
*
46282373 TTTAAAATGTATAAAAACATAAAAAT
1 TTTAAAAT-TAAAAAAACATAAAAAT
46282399 TAAAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
TTTAAAATTAAAAAAACATAAAAATA
Found at i:46288141 original size:147 final size:147
Alignment explanation
Indices: 46287874--46288148 Score: 390
Period size: 147 Copynumber: 1.9 Consensus size: 147
46287864 CCACCATCTG
* * ** * *
46287874 TCTTTCCTTTTGCTTTAGCACTCGATGCTTTCCCACCTTCATCCAAATTGTCGCCTTCATTTGTA
1 TCTTTCCTTTTGCCTCAGCACTCGATGCTTTCCCACCTTCATCCAAATTCCCACCTTCATTTGAA
* * * **
46287939 CCTGATTGCTGGTTCAAATCACTCTTACTTGTACCACTGTCAACATTTTCTTCTGATCCATCAAC
66 CCTGATTGCTGGTTCAAACCACTCTTACTTGCACCACTATCAACACCTTCTTCTGATCCATCAAC
46288004 TTCCCCAACATCATTCA
131 TTCCCCAACATCATTCA
** * *
46288021 TCTTTCCTTTTGCCTCCTCACTCGATGCTTTCCCACTTTTATCCAAATTCCCACCTTCATTTGAA
1 TCTTTCCTTTTGCCTCAGCACTCGATGCTTTCCCACCTTCATCCAAATTCCCACCTTCATTTGAA
*
46288086 CCTGATTGTTGGTTCAAACCACTCTTACTTGCACCACTATCAACACCCTT-TTCTGATCCATCA
66 CCTGATTGCTGGTTCAAACCACTCTTACTTGCACCACTATCAACA-CCTTCTTCTGATCCATCA
46288149 TTTTGATTAC
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
147 109 0.98
148 2 0.02
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.38
Consensus pattern (147 bp):
TCTTTCCTTTTGCCTCAGCACTCGATGCTTTCCCACCTTCATCCAAATTCCCACCTTCATTTGAA
CCTGATTGCTGGTTCAAACCACTCTTACTTGCACCACTATCAACACCTTCTTCTGATCCATCAAC
TTCCCCAACATCATTCA
Found at i:46296536 original size:30 final size:30
Alignment explanation
Indices: 46296502--46296559 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
46296492 TAATTTTTAA
* *
46296502 AAAATTAAATTAAATTAT-TATTATTATTTG
1 AAAATTAAAATAAA-TATGTATCATTATTTG
46296532 AAAATTAAAATAAATATGTATCATTATT
1 AAAATTAAAATAAATATGTATCATTATT
46296560 AATTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (30 bp):
AAAATTAAAATAAATATGTATCATTATTTG
Found at i:46297724 original size:29 final size:29
Alignment explanation
Indices: 46297654--46297720 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 29
46297644 TAAAAATTAT
*
46297654 CAAAATGT-TATAATTTTTTTTTATTTAC
1 CAAAATATATATAATTTTTTTTTATTTAC
46297682 CAAAATATATATAA-TTTTTTTTATTTAC
1 CAAAATATATATAATTTTTTTTTATTTAC
46297710 CAAAATATATA
1 CAAAATATATA
46297721 ATAAAAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 32 0.86
29 5 0.14
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (29 bp):
CAAAATATATATAATTTTTTTTTATTTAC
Found at i:46297746 original size:9 final size:8
Alignment explanation
Indices: 46297720--46297745 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
46297710 CAAAATATAT
46297720 AATAAAAA
1 AATAAAAA
46297728 AATAAAAA
1 AATAAAAA
46297736 AATAAAAA
1 AATAAAAA
46297744 AA
1 AA
46297746 AAACCTGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:46297820 original size:27 final size:27
Alignment explanation
Indices: 46297776--46297882 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
46297766 ACTCCCTGGG
* *
46297776 ACAAGGGAACACTGTTGGCGGCACCAC
1 ACAAGGGAACCCTGTTGGCGGCACCAA
*
46297803 ACAAGGGAACCCTATTGGCGGCACCAA
1 ACAAGGGAACCCTGTTGGCGGCACCAA
**
46297830 ACAAGGGTTCCCTGTTGGCGGCACCAA
1 ACAAGGGAACCCTGTTGGCGGCACCAA
**
46297857 ACAAGGGTTCCCTGTTGGCGGCACCA
1 ACAAGGGAACCCTGTTGGCGGCACCA
46297883 CTCGTGTTAT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.26, C:0.30, G:0.29, T:0.15
Consensus pattern (27 bp):
ACAAGGGAACCCTGTTGGCGGCACCAA
Found at i:46301358 original size:3 final size:3
Alignment explanation
Indices: 46301350--46301393 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
46301340 AGTAACATCT
46301350 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
46301394 CTATAAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:46301784 original size:27 final size:27
Alignment explanation
Indices: 46301746--46301852 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
46301736 ATAACACGAG
* **
46301746 TGGTGCCGCCAACAAGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
46301773 TGGTGCCACCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
46301800 TGGTGCTGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
* *
46301827 TGGTGCCGCCAATAGTGTTCCCTTGT
1 TGGTGCCGCCAACAGGGTTCCCTTGT
46301853 CCCAGGGAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.30
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:46301893 original size:10 final size:9
Alignment explanation
Indices: 46301878--46301913 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
46301868 AATCAGTCCA
46301878 GTTTTTTTCT
1 GTTTTTTT-T
46301888 GTTTTTTTT
1 GTTTTTTTT
*
46301897 GGTTTTTTT
1 GTTTTTTTT
46301906 GTTTTTTT
1 GTTTTTTT
46301914 ATATATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:46301943 original size:27 final size:29
Alignment explanation
Indices: 46301913--46301982 Score: 101
Period size: 27 Copynumber: 2.5 Consensus size: 29
46301903 TTTGTTTTTT
46301913 TATATATTTTGGTAAAT-AA-AAAAATTA
1 TATATATTTTGGTAAATAAATAAAAATTA
*
46301940 TATATATTTTGATAAATAAATAAAAATTA
1 TATATATTTTGGTAAATAAATAAAAATTA
*
46301969 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
46301983 TTTTTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.42
28 12 0.32
29 10 0.26
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAATAAAAATTA
Found at i:46307773 original size:549 final size:548
Alignment explanation
Indices: 46306731--46308384 Score: 2407
Period size: 549 Copynumber: 3.0 Consensus size: 548
46306721 AAACTCACTA
**
46306731 TTTCCTCCCTCAATTGACCATTCTCTTTGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTC
1 TTTCCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTC
*
46306796 TGGTTCTTTAGAGAAATGACCTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTC
66 TGGTTCTTTAGAGAAATGAACTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTC
* *
46306861 CTGTAGAACTCTCTGTTGATCCTCAGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCAA
131 CTGCAGAACTCTCTGTTGATCCTCGGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCAA
* * *
46306926 TCATATGATCT-GAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCAACTTCAGCTTTCTGGCT
196 TCACATGAT-TGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCT
* * * * * * *
46306990 ATGCATGGATTCCAGTTTCTGCTGCAATGTATTTATTTCATCCATCAAGCTCTTGACTTG-GTTC
260 ATGCAAGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTT-
** * *
46307054 GATGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTCAGTCCGCAGCGACTC
324 GATGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTC
* * *
46307119 CATGTCTCCTAGCAGATTGTTAATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTGTCT
389 CATGTCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCT
* * * * *
46307184 CATTATCCTCAAACTTCTTTGTGAGAGTAAAAAATTCTTCTTGTCTCGTCTTTAATACCCTCTCG
454 CATTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTCGT-TTTGATATCATCTCG
** *
46307249 AGTTCTGAAATTTGATATTGCAGTCCCATAT
518 AGTTCTGAAATTTGGGATTGCAGTCCTATAT
* * * *
46307280 TTTCCTCCCGCAGCTGACCATTCTCTTCGATTTTAGTTATCAGGTCCTCTTCCAGTTCACCTTTC
1 TTTCCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTC
46307345 TGGTTCTTTAGAGAAATGAACTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTC
66 TGGTTCTTTAGAGAAATGAACTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTC
* * *
46307410 CTGCAGAACTCTCTGTTGATCTTCGGTCCTGCTTACTATCTCTTCTTTTGCCTTCTCTATCTCAA
131 CTGCAGAACTCTCTGTTGATCCTCGGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCAA
*
46307475 TCACATGATTGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCCAGTTCTGCTTTCTGGCTA
196 TCACATGATTGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTA
* * * *
46307540 TGCAGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCCCCTGACCTGAGTTGA
261 TGCAAGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTGA
* *
46307605 TGCTTCATCGCCTTTCACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGGGACTCCA
326 TGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCCA
* ** *
46307670 TGTCTGCTAGCAAATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAGCGATTCTTTCTCG
391 TGTCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCA
* * *
46307735 TTGTCCTCAAACTTCTTTGTGAGCGCCAAAAGTTCTTCTTGTCTCTGTTTTGATATCATCTCGAG
456 TTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTC-GTTTTGATATCATCTCGAG
* * *
46307800 TTCTGAAATTTGGGATCGCAGTCCTAAAC
520 TTCTGAAATTTGGGATTGCAGTCCTATAT
* * **
46307829 TTTCCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCGCAAATCCTCTTCCAACTCACCTTTC
1 TTTCCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTC
* * * * *
46307894 TGATTCTTTAAAGAATTG-ACATCAAATTCTAGTTCCTTCATTTGTGCCAGCAAACCCTCTTTCT
66 TGGTTCTTTAGAGAAATGAAC-TCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCT
* * * *
46307958 CCTGCAGAACTCTTTGTTGATCCTCGGTCTTGCTTGCTATCTCTTCTTTTGCATTTTCTATCTTA
130 CCTGCAGAACTCTCTGTTGATCCTCGGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCA
* * * * *
46308023 ATCACATGATCGGAAATAGCTCGAGTTTTACTCTCAAGTTGAACTTCAAGTTCTGCTTTCTGACT
195 ATCACATGATTGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCT
* * *
46308088 CTGCAAGGACTCCAGCTCCTGCTGCAAATTATTTATCTGATCCATCAAGCTCTTGACTTGAGTCG
260 ATGCAAGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTG
** * * * *
46308153 ATGCTTCATCATCTTTTACTGCAATATGCTCTTCCAACTGAGCTTTCTGGGTGCGTAGTGACTCC
325 ATGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCC
* *
46308218 ATGTCTGCTAGCAGATTGTTGATCTGCACTAT-AAGATTCTCCACTCTAGACAATGATTCTTTCT
390 ATGTCTGCTAGCAGATTGTTGATCTGCACTGTCAA-ATTCTCCACTCTAGATAATGATTCTTTCT
* * * * * *
46308282 CATTATCCTCAAATTTCTTTGCGAGAGTCAAAAGTTCTTCTTCTCTCTTTTTTGACATCATCTCA
454 CATTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTC-GTTTTGATATCATCTCG
46308347 AGTTCTGAAATTTGGGATTGCAGTCCTATAT
518 AGTTCTGAAATTTGGGATTGCAGTCCTATAT
*
46308378 TTACCTC
1 TTTCCTC
46308385 TCCCAGCCGT
Statistics
Matches: 989, Mismatches: 111, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
548 5 0.01
549 979 0.99
550 5 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (548 bp):
TTTCCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTC
TGGTTCTTTAGAGAAATGAACTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTC
CTGCAGAACTCTCTGTTGATCCTCGGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCAA
TCACATGATTGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTA
TGCAAGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTGA
TGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCCA
TGTCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCA
TTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTCGTTTTGATATCATCTCGAGT
TCTGAAATTTGGGATTGCAGTCCTATAT
Found at i:46313741 original size:117 final size:117
Alignment explanation
Indices: 46313618--46313903 Score: 394
Period size: 117 Copynumber: 2.4 Consensus size: 117
46313608 TGCTTGCATT
* * *
46313618 CATTGAATCCCTCA-ACTCCCTCAGCTCAGCTTCACAACTGGCAAGCTTCTCTTTAAGCTCACCA
1 CATTGAATCCCT-AGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCTTTAAGCTCACCA
* *
46313682 TTTTCGTGTTCTAGCCTTGAAATGGATTCAGTCAATGAATTCTTGCCTGCCTC
65 TTTTCGTGCTCTAGCCTTGAAATGGATTCAGTCAATGAATTCTTGCATGCCTC
* * * * **
46313735 CATTGAATCCCTAGATTTCCTCAGCTCAACTTCACAGGTAGCAAGCTTCTCTTTAAGGTGTCCAT
1 CATTGAATCCCTAGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCTTTAAGCTCACCAT
** * *
46313800 TTTCGTGCTCTAGCCTTGAAATGGATTCAGTCCGTGCATTTTTGCATGCCTC
66 TTTCGTGCTCTAGCCTTGAAATGGATTCAGTCAATGAATTCTTGCATGCCTC
* * *
46313852 CATAGTATCCCTAGACTTCCTCACCTCAGCTTCACAAGTAGCAAGCTTCTCT
1 CATTGAATCCCTAGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCT
46313904 CCTAGATTTC
Statistics
Matches: 147, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
116 1 0.01
117 146 0.99
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (117 bp):
CATTGAATCCCTAGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCTTTAAGCTCACCAT
TTTCGTGCTCTAGCCTTGAAATGGATTCAGTCAATGAATTCTTGCATGCCTC
Found at i:46313955 original size:117 final size:117
Alignment explanation
Indices: 46313589--46313957 Score: 373
Period size: 117 Copynumber: 3.2 Consensus size: 117
46313579 CTTTCAGTTT
* * * * * * * * *
46313589 GATTCATTCATTGCATTTTTGCTTGCATTCATTGAATCCCTCA-ACTCCCTCAGCTCAGCTTCAC
1 GATTCAGTCAATGCATTTTTGCATGCCTCCATAGAATCCCT-AGACTTCCTCACCTCAACTTCAC
* * * * ** * *
46313653 AACTGGCAAGCTTCTCTTTAAGCTCACCATTTTCGTGTTCTAGCCTTGAAATG
65 AAGTAGCAAGCTTCTCTCTAAGATGTCCATTATCGTGCTCTAGCCTTGAAATG
* * * * * *
46313706 GATTCAGTCAATGAATTCTTGCCTGCCTCCATTGAATCCCTAGATTTCCTCAGCTCAACTTCACA
1 GATTCAGTCAATGCATTTTTGCATGCCTCCATAGAATCCCTAGACTTCCTCACCTCAACTTCACA
* * * *
46313771 GGTAGCAAGCTTCTCTTTAAGGTGTCCATTTTCGTGCTCTAGCCTTGAAATG
66 AGTAGCAAGCTTCTCTCTAAGATGTCCATTATCGTGCTCTAGCCTTGAAATG
** * *
46313823 GATTCAGTCCGTGCATTTTTGCATGCCTCCATAGTATCCCTAGACTTCCTCACCTCAGCTTCACA
1 GATTCAGTCAATGCATTTTTGCATGCCTCCATAGAATCCCTAGACTTCCTCACCTCAACTTCACA
* * * * *
46313888 AGTAGCAAGCTTCTCTCCT-AGATTTCTATTATCTTGCTCTAGCCTTGAATTC
66 AGTAGCAAGCTTCTCT-CTAAGATGTCCATTATCGTGCTCTAGCCTTGAAATG
*
46313940 GATTCAGACAATGCATTT
1 GATTCAGTCAATGCATTT
46313958 CTGGCCGTCT
Statistics
Matches: 211, Mismatches: 39, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
116 1 0.00
117 209 0.99
118 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.36
Consensus pattern (117 bp):
GATTCAGTCAATGCATTTTTGCATGCCTCCATAGAATCCCTAGACTTCCTCACCTCAACTTCACA
AGTAGCAAGCTTCTCTCTAAGATGTCCATTATCGTGCTCTAGCCTTGAAATG
Found at i:46316736 original size:35 final size:35
Alignment explanation
Indices: 46316697--46316765 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
46316687 TCTAAGATCA
* *
46316697 CATATCTCTGAAGATCACCTTCCATATTTGCCAAT
1 CATATCTCTAAAGATCACCTTCCATATTTACCAAT
* *
46316732 CATATCTTTAAAGATCACTTTCCATATTTACCAA
1 CATATCTCTAAAGATCACCTTCCATATTTACCAA
46316766 GCTCTGCAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (35 bp):
CATATCTCTAAAGATCACCTTCCATATTTACCAAT
Found at i:46326746 original size:23 final size:23
Alignment explanation
Indices: 46326718--46326767 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
46326708 TTAAAATTAT
46326718 AAAATTATATT-TT-TACTATCATA
1 AAAATT-TATTATTCTACT-TCATA
*
46326741 AAAATTTATTATTCTACTTCTTA
1 AAAATTTATTATTCTACTTCATA
46326764 AAAA
1 AAAA
46326768 ATATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.17
23 16 0.67
24 4 0.17
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (23 bp):
AAAATTTATTATTCTACTTCATA
Found at i:46327255 original size:31 final size:31
Alignment explanation
Indices: 46327196--46327256 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
46327186 TTGAAATGTT
* *
46327196 ACATTTTAGTCACTTACATTATTATATTGTA
1 ACATTTTAGTCACTGACATTAATATATTGTA
*
46327227 ACATTTTAGTCACTGAGCGTTAAT-TATTGT
1 ACATTTTAGTCACTGA-CATTAATATATTGT
46327257 TAACGATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (31 bp):
ACATTTTAGTCACTGACATTAATATATTGTA
Found at i:46332331 original size:308 final size:306
Alignment explanation
Indices: 46331777--46332741 Score: 1430
Period size: 308 Copynumber: 3.1 Consensus size: 306
46331767 TCGTATTTTA
46331777 GCCCTTTGTTCGTATTTTTTCTCCGGATTTTATTAC-TTAAAAAAA-ATACTATTTTCTAATTTT
1 GCCCTTTGTTCGTATTTTTTC-CCGGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTT
*
46331840 ATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA
65 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA
* * * * *
46331905 -ATTAAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCAAATTTTATTACTTTCAA
130 TTTTTAAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAA
*
46331969 TAAAAATATATTATTTCCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
195 TAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
*
46332034 TTAATTTACTGTGTTTTTTAAATAAA-TTAAAAAAACCCTTATTTCG
260 TTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACACTTATTTCG
* *
46332080 GCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTGTAAAAAAATATAATA-TTTCTAATTT
1 GCCCTTTGTTCGTA-TTTTTTCCCGGATTTTATTACTT-TAAAAAAATATACTATTTTCTAATTT
* *
46332144 TATTGTTTTACATTATTTTAGAACATTATGTTTGAAATGTATTCATTTAGTGT-TTTTTTAAATA
64 TATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATA
* * *
46332208 ATTTTTTTTAAAAAAACCCTTATTTCGGCCATTTATTCGTATTTTTTTCGCGGATTTTATTACTT
129 A---TTTTTAAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTT
*
46332273 TCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTATATTATGTTTGAAA
191 TCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
*
46332338 TGTATTAATTTACTGTGTTTTTTAAATAAATTTTAAAAAAACTCTTATTTCG
256 TGTATTAATTTACTGTGTTTTTTAAATAAA-TTTAAAAAAACACTTATTTCG
* * * * *
46332390 GCCTTTTGTTCGTATTTTTTTCCAGAGTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTA
1 GCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTA
* *
46332455 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA
66 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAAT-AA
* *
46332520 TTTTT-AAAAAACCATTATTTCGGCCATTTGTTCGTA-TTTTTTCCCAGATTTTATTACTTT-TA
130 TTTTTAAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAA
* * *
46332582 -AAAAATATAATATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGC
195 TAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
* * *
46332645 ATTCATTTAGTGTGTTTTTTAAAATAAATTTAAAAAAAAAACTTATTTCG
259 ATTAATTTACTGTGTTTTTT-AAATAAATTT-AAAAAAACACTTATTTCG
* *
46332695 GCACTTTGTTCGTATTTTTTACCGGATTTTATTACTTTCAATAAAAA
1 GCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTT-AA-AAAAA
46332742 ACACACTAAA
Statistics
Matches: 598, Mismatches: 46, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
303 28 0.05
304 98 0.16
305 125 0.21
306 28 0.05
307 34 0.06
308 163 0.27
309 78 0.13
310 42 0.07
311 2 0.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (306 bp):
GCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTA
TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAT
TTTTAAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAAT
AAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTAT
TAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACACTTATTTCG
Found at i:46332481 original size:152 final size:152
Alignment explanation
Indices: 46331781--46332741 Score: 1330
Period size: 152 Copynumber: 6.3 Consensus size: 152
46331771 ATTTTAGCCC
* *
46331781 TTTGTTCGTATTTTTTCTCCGGATTTTATTAC-TTAAAAAAA-ATACTATTTTCTAATTTTATTA
1 TTTGTTCGTATTTTTT-TCCAGATTTTATTACTTTAAAAAAATATAATATTTTCTAATTTTATTA
* * *
46331844 TTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAA-TT
65 TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTT
* * *
46331908 AAAAAAAACTCTTATTTCGGCCC
130 TAAAAAAACCCTTATTTCGGCCA
* * *
46331931 TTTGTTCGTATTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTCCGT-ATTTTA
1 TTTGTTCGTATTTTTTT-CCAGATTTTATTACTTT-AA-AAAAATATAATATTTTC-TAATTTTA
46331995 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA
62 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA
*
46332060 --TTAAAAAAACCCTTATTTCGGCCC
127 TTTTAAAAAAACCCTTATTTCGGCCA
*
46332084 TTTGTTCGTATTTTTTTCCCGAATTTTATTACTTGTAAAAAAATATAATA-TTTCTAATTTTATT
1 TTTGTTCGTATTTTTTTCCAG-ATTTTATTACTT-TAAAAAAATATAATATTTTCTAATTTTATT
* * * *
46332148 GTTTTACATTATTTTAGAACATTATGTTTGAAATGTATTCATTTAGTGT-TTTTTTAAATAATTT
64 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAA---
*
46332212 TTTTTAAAAAAACCCTTATTTCGGCCA
126 ATTTTAAAAAAACCCTTATTTCGGCCA
* * *
46332239 TTTATTCGTATTTTTTTCGCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGT-ATTTTA
1 TTTGTTCGTATTTTTTTC-CAGATTTTATTACTTT-AA-AAAAATATAATATTTTC-TAATTTTA
*
46332303 TTATTTTACATTATTTTAGTATATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA
62 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA
* *
46332368 TTTTAAAAAAACTCTTATTTCGGCCT
127 TTTTAAAAAAACCCTTATTTCGGCCA
* * *
46332394 TTTGTTCGTATTTTTTTCCAGAGTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTAT
1 TTTGTTCGTATTTTTTTCCAGATTTTATTACTTTAAAAAAATATAATATTTTCTAATTTTATTAT
46332459 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTT
66 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTT
* *
46332524 TAAAAAACCATTATTTCGGCCA
131 AAAAAAACCCTTATTTCGGCCA
* *
46332546 TTTGTTCGTATTTTTTCCCAGATTTTATTACTTTTAAAAAATATAATATTTTCTAATTTTATTAT
1 TTTGTTCGTATTTTTTTCCAGATTTTATTACTTTAAAAAAATATAATATTTTCTAATTTTATTAT
* * * *
46332611 TTTACATTATTTTAGTACATTATGTTTTAAATGCATTCATTTAGTGTGTTTTTTAAAATAAATTT
66 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTT-AAATAAATTT
* **
46332676 AAAAAAAAAACTTATTTCGG-CA
130 TAAAAAAACCCTTATTTCGGCCA
* *
46332698 CTTTGTTCGTATTTTTTACCGGATTTTATTACTTTCAATAAAAA
1 -TTTGTTCGTATTTTTTTCCAGATTTTATTACTTT-AA-AAAAA
46332742 ACACACTAAA
Statistics
Matches: 731, Mismatches: 55, Indels: 45
0.88 0.07 0.05
Matches are distributed among these distances:
149 1 0.00
150 41 0.06
151 59 0.08
152 237 0.32
153 116 0.16
154 94 0.13
155 101 0.14
156 13 0.02
157 56 0.08
158 13 0.02
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (152 bp):
TTTGTTCGTATTTTTTTCCAGATTTTATTACTTTAAAAAAATATAATATTTTCTAATTTTATTAT
TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTT
AAAAAAACCCTTATTTCGGCCA
Found at i:46332685 original size:462 final size:458
Alignment explanation
Indices: 46331780--46332742 Score: 1457
Period size: 460 Copynumber: 2.1 Consensus size: 458
46331770 TATTTTAGCC
*
46331780 CTTTGTTCGTATTTTTTCTCCGGATTTTATTAC-TT-AA-AAAAAATACTATTTTCTAATTTTAT
1 CTTTATTCGTATTTTTT-TCCGGATTTTATTACTTTCAATAAAAAATACTATTTTCTAATTTTAT
* * *
46331842 TATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAT
65 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAAT
*
46331907 TAAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCAAATTTTATTACTTTCAATAA
130 TAAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCAAAGTTTATTACTTTCAATAA
*
46331972 AAATATATTATTTCCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTA
195 AAATATACTATTTCCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTA
* *
46332037 ATTTACTGTGTTTTTTAAATAAATTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTC
260 ATTTACTGTGTTTTTTAAATAAATTAAAAAAACCATTATTTCGGCCATTTGTTCGTATTTTTTTC
*
46332102 CCGAATTTTATTACTTGTAAAAAAATATAATATTTCTAATTTTATTGTTTTACATTATTTTAGAA
325 CCGAATTTTATTACTTGTAAAAAAATATAATATTTCTAATTTTATTATTTTACATTATTTTAGAA
* * * **
46332167 CATTATGTTTGAAATGTATTCATTTAGTGTTTTTTTAAATAATTTTTTTTAAAAAAACCCTTATT
390 CATTATGTTTGAAATGCATTCATTTAGTGTTTTTTTAAATAA--TATTTAAAAAAAAAACTTATT
46332232 TCGGC-
453 TCGGCA
*
46332237 CATTTATTCGTATTTTTTTCGCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGT-ATTT
1 C-TTTATTCGTATTTTTTTC-CGGATTTTATTACTTTCAATAAAAA-ATACTATTTTC-TAATTT
*
46332301 TATTATTTTACATTATTTTAGTATATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATA
62 TATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATA
* * * *
46332366 AATTTTAAAAAAACTCTTATTTCGGCCTTTTGTTCGTATTTTTTT-CCAGAGTTTATTACTTT-T
127 AA-TTAAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCAAAGTTTATTACTTTCA
*
46332429 A-AAAAATATACTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
191 ATAAAAATATACTATTTCCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
*
46332492 TATTAATTTACTGTGTTTTTTAAATAAATTTTTAAAAAACCATTATTTCGGCCATTTGTTCGTA-
255 TATTAATTTACTGTGTTTTTTAAATAAA--TTAAAAAAACCATTATTTCGGCCATTTGTTCGTAT
*
46332556 TTTTTTCCC-AGATTTTATTACTT-TTAAAAAATATAATATTTTCTAATTTTATTATTTTACATT
318 TTTTTTCCCGA-ATTTTATTACTTGTAAAAAAATATAATA-TTTCTAATTTTATTATTTTACATT
* *
46332619 ATTTTAGTACATTATGTTTTAAATGCATTCATTTAGTGTGTTTTTTAAAATAA-ATTTAAAAAAA
381 ATTTTAGAACATTATGTTTGAAATGCATTCATTTAGTGT-TTTTTT-AAATAATATTTAAAAAAA
46332683 AAACTTATTTCGGCA
444 AAACTTATTTCGGCA
* *
46332698 CTTTGTTCGTATTTTTTACCGGATTTTATTACTTTCAATAAAAAA
1 CTTTATTCGTATTTTTTTCCGGATTTTATTACTTTCAATAAAAAA
46332743 CACACTAAAT
Statistics
Matches: 463, Mismatches: 27, Indels: 31
0.89 0.05 0.06
Matches are distributed among these distances:
457 3 0.01
458 29 0.06
459 28 0.06
460 140 0.30
461 87 0.19
462 129 0.28
463 47 0.10
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (458 bp):
CTTTATTCGTATTTTTTTCCGGATTTTATTACTTTCAATAAAAAATACTATTTTCTAATTTTATT
ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATT
AAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCAAAGTTTATTACTTTCAATAAA
AATATACTATTTCCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAA
TTTACTGTGTTTTTTAAATAAATTAAAAAAACCATTATTTCGGCCATTTGTTCGTATTTTTTTCC
CGAATTTTATTACTTGTAAAAAAATATAATATTTCTAATTTTATTATTTTACATTATTTTAGAAC
ATTATGTTTGAAATGCATTCATTTAGTGTTTTTTTAAATAATATTTAAAAAAAAAACTTATTTCG
GCA
Found at i:46334787 original size:27 final size:27
Alignment explanation
Indices: 46334757--46334815 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
46334747 AATAATATAT
46334757 AAAAAT-TGAAAATTTTATAAAACTAAA
1 AAAAATATGAAAATTTTA-AAAACTAAA
** * *
46334784 AAAAATATTCAAATTTTAGAAACTTAA
1 AAAAATATGAAAATTTTAAAAACTAAA
46334811 AAAAA
1 AAAAA
46334816 CTTAAAACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (27 bp):
AAAAATATGAAAATTTTAAAAACTAAA
Found at i:46334788 original size:28 final size:27
Alignment explanation
Indices: 46334775--46334832 Score: 55
Period size: 27 Copynumber: 2.1 Consensus size: 27
46334765 AAAATTTTAT
*
46334775 AAAACTAAAAAAAATATTCAAATTTTA
1 AAAACTAAAAAAAATATTAAAATTTTA
* * * *
46334802 GAAACTTAAAAAAA-CTTAAAACTTTCA
1 AAAACTAAAAAAAATATTAAAA-TTTTA
46334829 AAAA
1 AAAA
46334833 ATATATTTAG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.26
Consensus pattern (27 bp):
AAAACTAAAAAAAATATTAAAATTTTA
Found at i:46336464 original size:17 final size:17
Alignment explanation
Indices: 46336442--46336495 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 17
46336432 TTAATTACTT
46336442 TTTAAAAATATAAAAAA
1 TTTAAAAATATAAAAAA
46336459 TTTAAAAATATATAAAATTA
1 TTTAAAAATATA-AAAA--A
46336479 TTT-AAAATATTAAAAAA
1 TTTAAAAATA-TAAAAAA
46336496 ATGTTTGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 13 0.39
18 4 0.12
19 10 0.30
20 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTAAAAATATAAAAAA
Found at i:46336473 original size:19 final size:18
Alignment explanation
Indices: 46336442--46336495 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
46336432 TTAATTACTT
46336442 TTTAAAA-ATATAAAAAA
1 TTTAAAATATATAAAAAA
*
46336459 TTTAAAAATATATAAAATTA
1 TTT-AAAATATATAAAA-AA
46336479 TTTAAAATAT-TAAAAAA
1 TTTAAAATATATAAAAAA
46336496 ATGTTTGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 4 0.12
18 9 0.28
19 15 0.47
20 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTTAAAATATATAAAAAA
Found at i:46336494 original size:9 final size:9
Alignment explanation
Indices: 46336443--46336494 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
46336433 TAATTACTTT
46336443 TTAAAAATA
1 TTAAAAATA
*
46336452 TAAAAAAT-
1 TTAAAAATA
46336460 TTAAAAATA
1 TTAAAAATA
*
46336469 TATAAAATTA
1 T-TAAAAATA
*
46336479 TTTAAAATA
1 TTAAAAATA
46336488 TTAAAAA
1 TTAAAAA
46336495 AATGTTTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 7 0.20
9 20 0.57
10 8 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TTAAAAATA
Found at i:46337082 original size:21 final size:21
Alignment explanation
Indices: 46337057--46337108 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
46337047 TACTAATTAC
46337057 AAATATTTAATGGTTATATTT
1 AAATATTTAATGGTTATATTT
46337078 AAATATTTAATGGTTATATTT
1 AAATATTTAATGGTTATATTT
46337099 AAATATTTAA
1 AAATATTTAA
46337109 AATATAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (21 bp):
AAATATTTAATGGTTATATTT
Found at i:46337163 original size:24 final size:24
Alignment explanation
Indices: 46337136--46337181 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
46337126 CTAATTAAAT
* *
46337136 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
46337160 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
46337182 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:46337393 original size:13 final size:13
Alignment explanation
Indices: 46337377--46337409 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
46337367 TTTAAACCAA
46337377 ACTTTTCCACAGC
1 ACTTTTCCACAGC
46337390 ACTTTTCCACAGC
1 ACTTTTCCACAGC
46337403 ACTTTTC
1 ACTTTTC
46337410 AAAAGTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (13 bp):
ACTTTTCCACAGC
Found at i:46337866 original size:12 final size:12
Alignment explanation
Indices: 46337851--46337875 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46337841 TTATTAATTT
46337851 ACTGATTAACTA
1 ACTGATTAACTA
46337863 ACTGATTAACTA
1 ACTGATTAACTA
46337875 A
1 A
46337876 ATTAAATCAA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ACTGATTAACTA
Found at i:46341765 original size:60 final size:58
Alignment explanation
Indices: 46341695--46341807 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 58
46341685 AAGACAATCA
* * *
46341695 AATAGTTGAGTGACTATTTTTTAACTTTTCATAGTTGAGTGATCAAAAAAGAAATTTATT
1 AATAATTGAGTAACTATTTTATAACTTTTCATAGTTGAGTGA-CAAAAAA-AAATTTATT
* * *
46341755 AATAATTGAGTAACTATTTTATAATTTTTTATAGTTGGGTGACAAAAAAAAAT
1 AATAATTGAGTAACTATTTTATAACTTTTCATAGTTGAGTGACAAAAAAAAAT
46341808 CATAATTGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 4 0.09
59 7 0.15
60 36 0.77
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.41
Consensus pattern (58 bp):
AATAATTGAGTAACTATTTTATAACTTTTCATAGTTGAGTGACAAAAAAAAATTTATT
Found at i:46342132 original size:30 final size:29
Alignment explanation
Indices: 46342072--46342142 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
46342062 AAATCTAATT
* *
46342072 AAATAAA-ATTTTTATATTAATATTACATAA
1 AAATAAATA-TTTTATATTAATATAAAAT-A
*
46342102 AAATAACTATTTTATTATTAA-ATAAAATA
1 AAATAAATATTTTA-TATTAATATAAAATA
46342131 AAATAAATATTT
1 AAATAAATATTT
46342143 CTTCCCCACC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 12 0.34
30 16 0.46
31 7 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
AAATAAATATTTTATATTAATATAAAATA
Found at i:46344753 original size:16 final size:16
Alignment explanation
Indices: 46344732--46344766 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
46344722 ATTGTTTTAG
46344732 AAAAAAAT-ATTTCTA
1 AAAAAAATAATTTCTA
*
46344747 AAAAAAATAATTTTTA
1 AAAAAAATAATTTCTA
46344763 AAAA
1 AAAA
46344767 TTTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAAAATAATTTCTA
Found at i:46348065 original size:30 final size:30
Alignment explanation
Indices: 46348029--46348123 Score: 133
Period size: 30 Copynumber: 3.2 Consensus size: 30
46348019 AAAAATTAAA
46348029 AAAAAAGTATTTTAAAAATATTTTAAAATT
1 AAAAAAGTATTTTAAAAATATTTTAAAATT
*
46348059 AAAAAAGTATTTTAAAAA-AATTTAAAATTT
1 AAAAAAGTATTTTAAAAATATTTTAAAA-TT
*
46348089 AAAAAA-T-TTTAAAAAAATATTTTAAAATT
1 AAAAAAGTATTT-TAAAAATATTTTAAAATT
46348118 AAAAAA
1 AAAAAA
46348124 TAAAAATATT
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
28 3 0.05
29 22 0.37
30 34 0.58
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAAAAGTATTTTAAAAATATTTTAAAATT
Found at i:46348091 original size:17 final size:17
Alignment explanation
Indices: 46348069--46348102 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46348059 AAAAAAGTAT
46348069 TTTAAAAAAATTTAAAA
1 TTTAAAAAAATTTAAAA
*
46348086 TTTAAAAAATTTTAAAA
1 TTTAAAAAAATTTAAAA
46348103 AAATATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTAAAAAAATTTAAAA
Found at i:46353817 original size:12 final size:12
Alignment explanation
Indices: 46353797--46353831 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
46353787 GGCCAGTACA
46353797 AATAACAAAAAT
1 AATAACAAAAAT
*
46353809 AATAGCAAAAAT
1 AATAACAAAAAT
*
46353821 AACAACAAAAA
1 AATAACAAAAA
46353832 CAGCAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.74, C:0.11, G:0.03, T:0.11
Consensus pattern (12 bp):
AATAACAAAAAT
Found at i:46353836 original size:21 final size:22
Alignment explanation
Indices: 46353796--46353847 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
46353786 TGGCCAGTAC
*
46353796 AAATAACAA-AAATAATAGCAA
1 AAATAACAACAAATAACAGCAA
*
46353817 AAATAACAACAAA-AACAGCAG
1 AAATAACAACAAATAACAGCAA
46353838 AAA-AACAACA
1 AAATAACAACA
46353848 GCACCAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.25
21 18 0.64
22 3 0.11
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.08
Consensus pattern (22 bp):
AAATAACAACAAATAACAGCAA
Found at i:46354381 original size:24 final size:24
Alignment explanation
Indices: 46354332--46354382 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
46354322 TTTTTGACCC
*
46354332 TTTAAAATTTTGACTCTAATTTTTT
1 TTTAAAATTTT-ACTCAAATTTTTT
46354357 TTTAAAATTTCT-CTCAAATTTTTT
1 TTTAAAATTT-TACTCAAATTTTTT
46354381 TT
1 TT
46354383 AACTTTATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 13 0.54
25 10 0.42
26 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTAAAATTTTACTCAAATTTTTT
Found at i:46354508 original size:14 final size:11
Alignment explanation
Indices: 46354472--46354504 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
46354462 CTCAACACCA
46354472 AAATTGAGAGG
1 AAATTGAGAGG
46354483 AAATTGAGAGG
1 AAATTGAGAGG
46354494 AAATTTGAGAG
1 AAA-TTGAGAG
46354505 AGGATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.21
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:46366490 original size:60 final size:56
Alignment explanation
Indices: 46366422--46366539 Score: 155
Period size: 56 Copynumber: 2.0 Consensus size: 56
46366412 TTAATATTTA
*
46366422 TTTTAATATAAAAATTATGTAAATAACTTTTAATGATTATTATTTAAAATAAATATGATT
1 TTTTAATATAAAAATTAT-TAAATAACTTTTAATGA-T-TT-TTTAAAATAAATATAATT
* * * *
46366482 TTTTAATATAAATATTATTTAATAAGTTTTAATGATTTTTTAATATAAATATAATT
1 TTTTAATATAAAAATTATTAAATAACTTTTAATGATTTTTTAAAATAAATATAATT
46366538 TT
1 TT
46366540 GATATGTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
56 18 0.34
57 2 0.04
58 1 0.02
59 15 0.28
60 17 0.32
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (56 bp):
TTTTAATATAAAAATTATTAAATAACTTTTAATGATTTTTTAAAATAAATATAATT
Found at i:46366492 original size:19 final size:19
Alignment explanation
Indices: 46366464--46366539 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 19
46366454 ATGATTATTA
*
46366464 TTTAAAATAAATATGATTT
1 TTTAATATAAATATGATTT
*
46366483 TTTAATATAAATATTATTT
1 TTTAATATAAATATGATTT
** **
46366502 AATAAGT-TTTA-ATGATTT
1 TTTAA-TATAAATATGATTT
*
46366520 TTTAATATAAATATAATTT
1 TTTAATATAAATATGATTT
46366539 T
1 T
46366540 GATATGTATA
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
17 1 0.02
18 11 0.26
19 29 0.69
20 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TTTAATATAAATATGATTT
Found at i:46366504 original size:16 final size:18
Alignment explanation
Indices: 46366459--46366505 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
46366449 TTTTAATGAT
*
46366459 TATTATTTAAAATAAATA
1 TATTATTTAATATAAATA
*
46366477 TGATTTTTTAATAT-AA-A
1 T-ATTATTTAATATAAATA
46366494 TATTATTTAATA
1 TATTATTTAATA
46366506 AGTTTTAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 10 0.40
17 2 0.08
18 3 0.12
19 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TATTATTTAATATAAATA
Found at i:46366562 original size:11 final size:11
Alignment explanation
Indices: 46366547--46366579 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
46366537 TTTGATATGT
46366547 ATATATATTTA
1 ATATATATTTA
*
46366558 TTATATATTTA
1 ATATATATTTA
46366569 ATATAT-TTTA
1 ATATATATTTA
46366579 A
1 A
46366580 AATTATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATATATATTTA
Found at i:46368691 original size:3 final size:3
Alignment explanation
Indices: 46368685--46368713 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
46368675 CTTCTTGCCA
46368685 CCG CCG CCG CCG CCG CCG CCG CCG CCG CC
1 CCG CCG CCG CCG CCG CCG CCG CCG CCG CC
46368714 ACCACCGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.69, G:0.31, T:0.00
Consensus pattern (3 bp):
CCG
Found at i:46377903 original size:2 final size:2
Alignment explanation
Indices: 46377896--46377922 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46377886 AAAATTATTT
46377896 TA 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 TA T
46377923 TTGACATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46388319 original size:28 final size:29
Alignment explanation
Indices: 46388264--46388328 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
46388254 CTATATTTAA
46388264 ATAAAATTATTAATATTATTCTCAAAAT-
1 ATAAAATTATTAATATTATTCTCAAAATC
46388292 ATAAAATTATTAATATTTATT-T-ATAAATC
1 ATAAAATTATTAATA-TTATTCTCA-AAATC
46388321 ATAAAATT
1 ATAAAATT
46388329 TCTTATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 1 0.03
28 20 0.59
29 13 0.38
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (29 bp):
ATAAAATTATTAATATTATTCTCAAAATC
Found at i:46395933 original size:23 final size:23
Alignment explanation
Indices: 46395899--46395943 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46395889 ACTTCATTAT
* *
46395899 TTATATGTATATGTAGATATATG
1 TTATATGCATATATAGATATATG
*
46395922 TTATATGCATATATATATATAT
1 TTATATGCATATATAGATATAT
46395944 ATATATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (23 bp):
TTATATGCATATATAGATATATG
Found at i:46395969 original size:37 final size:35
Alignment explanation
Indices: 46395900--46395978 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
46395890 CTTCATTATT
* * * *
46395900 TATATGTATATGTAGATATATGTTATATGCATATA
1 TATATATATATATAGATATATATTATATGCATACA
*
46395935 TATATATATATATATATATATATTATATAAGCATACA
1 TATATATATATATAGATATATATTATAT--GCATACA
*
46395972 AATATAT
1 TATATAT
46395979 TTTCATAAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
35 24 0.67
37 12 0.33
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (35 bp):
TATATATATATATAGATATATATTATATGCATACA
Found at i:46395978 original size:2 final size:2
Alignment explanation
Indices: 46395930--46395963 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
46395920 TGTTATATGC
46395930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46395964 AGCATACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46397873 original size:23 final size:23
Alignment explanation
Indices: 46397847--46397943 Score: 176
Period size: 23 Copynumber: 4.2 Consensus size: 23
46397837 TAAGTGTAAT
*
46397847 ACTGATATGTAGCCGAAGCTACC
1 ACTGAAATGTAGCCGAAGCTACC
46397870 ACTGAAATGTAGCCGAAGCTACC
1 ACTGAAATGTAGCCGAAGCTACC
46397893 ACTGAAATGTAGCCGAAGCTACC
1 ACTGAAATGTAGCCGAAGCTACC
*
46397916 ACTGAAACGTAGCCGAAGCTACC
1 ACTGAAATGTAGCCGAAGCTACC
46397939 ACTGA
1 ACTGA
46397944 TCAATAACAC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
ACTGAAATGTAGCCGAAGCTACC
Found at i:46400262 original size:30 final size:29
Alignment explanation
Indices: 46400175--46400262 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 29
46400165 AATTTTAAAA
*
46400175 TTATATTTAAATTTTGATTTAATAT-ATT
1 TTATATATAAATTTTGATTTAATATAATT
* *
46400203 TTTTATGCATAAATTTTGATTT-ATGTAATT
1 TTATAT--ATAAATTTTGATTTAATATAATT
*
46400233 TTATATATAAAATTTTAATTTAATATAATT
1 TTATATAT-AAATTTTGATTTAATATAATT
46400263 CTCATAAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
28 7 0.14
29 14 0.29
30 28 0.57
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (29 bp):
TTATATATAAATTTTGATTTAATATAATT
Found at i:46400667 original size:20 final size:21
Alignment explanation
Indices: 46400644--46400687 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
46400634 TTTTTTACGA
46400644 TTTTTATAAAATTTAAT-ATT
1 TTTTTATAAAATTTAATAATT
**
46400664 TTTTTATAATTTTTAATAATT
1 TTTTTATAAAATTTAATAATT
46400685 TTT
1 TTT
46400688 ATTTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTATAAAATTTAATAATT
Found at i:46400682 original size:10 final size:10
Alignment explanation
Indices: 46400655--46400688 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
46400645 TTTTATAAAA
*
46400655 TTTAATATTT
1 TTTAATAATT
*
46400665 TTTTATAATT
1 TTTAATAATT
46400675 TTTAATAATT
1 TTTAATAATT
46400685 TTTA
1 TTTA
46400689 TTTTTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTAATAATT
Found at i:46405102 original size:61 final size:60
Alignment explanation
Indices: 46405018--46405172 Score: 204
Period size: 61 Copynumber: 2.6 Consensus size: 60
46405008 AAATTGACAC
* * **
46405018 TTTTTTTCTAATTTGGTATCTAAACATTTTTTT-GACCCAATTCGGTATTTGAACTTAACA
1 TTTTTTTCTAATTTGGTACCTAAAC-TTTTTTTAGACCCAATTCAGTACCTGAACTTAACA
* * *
46405078 TTTTTTTCTTTATTTGGTACCTAAACTTTTTTTAGACCCAATTTAGTACCTGAACTTGACA
1 TTTTTTTC-TAATTTGGTACCTAAACTTTTTTTAGACCCAATTCAGTACCTGAACTTAACA
* *
46405139 TTTTTTTCTAATTTGATACCTAACCTTTTTTTAG
1 TTTTTTTCTAATTTGGTACCTAAACTTTTTTTAG
46405173 GTTTAATTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
60 38 0.46
61 45 0.54
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (60 bp):
TTTTTTTCTAATTTGGTACCTAAACTTTTTTTAGACCCAATTCAGTACCTGAACTTAACA
Found at i:46405842 original size:19 final size:18
Alignment explanation
Indices: 46405818--46405853 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46405808 TTTTAAAAAA
46405818 TATATTGTAAAAATATTCT
1 TATATT-TAAAAATATTCT
*
46405837 TATATTTTAAAATATTC
1 TATATTTAAAAATATTC
46405854 AAAGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.50
Consensus pattern (18 bp):
TATATTTAAAAATATTCT
Found at i:46414050 original size:44 final size:44
Alignment explanation
Indices: 46414001--46414089 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
46413991 AACACACAAG
46414001 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
1 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
46414045 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
1 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
46414089 T
1 T
46414090 TTTGTATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.37
Consensus pattern (44 bp):
TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
Found at i:46419954 original size:2 final size:2
Alignment explanation
Indices: 46419947--46419972 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46419937 GGAAGTGAGA
46419947 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
46419973 TGTTTTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46428974 original size:3 final size:3
Alignment explanation
Indices: 46428966--46428995 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
46428956 CTTTGTTTTC
*
46428966 GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
46428996 CTAGATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:46431339 original size:19 final size:19
Alignment explanation
Indices: 46431315--46431380 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
46431305 ATTAAAATAG
46431315 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
46431334 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
46431352 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
46431371 TTTAATTTAA
1 TTTAATTTAA
46431381 AAAAATTAGA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:46431654 original size:18 final size:19
Alignment explanation
Indices: 46431612--46431705 Score: 102
Period size: 19 Copynumber: 5.1 Consensus size: 19
46431602 ATTTTATATT
46431612 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* * *
46431631 TGAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
46431649 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
46431668 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
* *
46431686 TTAAATTAAAATGGAGTTA
1 TTAAATGAAAATAGAGTTA
46431705 T
1 T
46431706 CACTTAATTA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
18 28 0.47
19 31 0.53
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:46431660 original size:37 final size:37
Alignment explanation
Indices: 46431612--46431705 Score: 161
Period size: 37 Copynumber: 2.5 Consensus size: 37
46431602 ATTTTATATT
*
46431612 TTAAATGAAAATAGAGTTATGAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATGAAATGAGAATAGTTTA
*
46431649 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATGAAATGAGAATAGTTTA
*
46431686 TTAAATTAAAATGGAGTTAT
1 TTAAATTAAAATAGAGTTAT
46431706 CACTTAATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATGAAATGAGAATAGTTTA
Found at i:46434795 original size:21 final size:20
Alignment explanation
Indices: 46434765--46434807 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
46434755 AATGAAAAAT
* *
46434765 AAAAAAAAATTAAATTTTTA
1 AAAAAAAAATAAAAATTTTA
46434785 AAAATAAAAATAAAAATTTTA
1 AAAA-AAAAATAAAAATTTTA
46434806 AA
1 AA
46434808 TTTTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAAAAATAAAAATTTTA
Found at i:46435022 original size:3 final size:3
Alignment explanation
Indices: 46435014--46435052 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
46435004 TTTACCTGTG
46435014 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46435053 AACTGAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46452716 original size:19 final size:18
Alignment explanation
Indices: 46452672--46452721 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
46452662 TTTAATTCTA
*
46452672 ATATTTTTAAAATTTTAT
1 ATATTTTAAAAATTTTAT
*
46452690 -TATATTAAAAATATTTAT
1 ATATTTTAAAAAT-TTTAT
46452708 ATATTTTAACAAAT
1 ATATTTTAA-AAAT
46452722 CTAATCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 10 0.38
18 5 0.19
19 7 0.27
20 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTTTAAAAATTTTAT
Found at i:46454307 original size:20 final size:18
Alignment explanation
Indices: 46454250--46454309 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 18
46454240 AAATGTTGTT
*
46454250 TTTAATAATTTCTTATAAA
1 TTTAATAATTTTTTAT-AA
*
46454269 TTTAATAATTTTTAAATAA
1 TTTAATAATTTTT-TATAA
46454288 TTTATATAATGTTTTTATAA
1 TTTA-ATAAT-TTTTTATAA
46454308 TT
1 TT
46454310 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 18 0.51
20 13 0.37
21 4 0.11
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTAATAATTTTTTATAA
Found at i:46460131 original size:21 final size:20
Alignment explanation
Indices: 46460107--46460146 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
46460097 TTGAACACGA
46460107 AAATACTATGAATTATTTATT
1 AAATACTATGAATT-TTTATT
* *
46460128 AAATATTATGTATTTTTAT
1 AAATACTATGAATTTTTAT
46460147 CAAAAAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
AAATACTATGAATTTTTATT
Found at i:46466571 original size:3 final size:3
Alignment explanation
Indices: 46466563--46466601 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
46466553 TTCTTATAAC
46466563 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46466602 TTCAAATAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:46467821 original size:6 final size:6
Alignment explanation
Indices: 46467812--46467837 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
46467802 TATTTTATTT
46467812 AATATA AATATA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA AA
46467838 ATTTAAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:46474320 original size:17 final size:17
Alignment explanation
Indices: 46474300--46474350 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
46474290 TTAAACCGAG
46474300 ATACCTATTAAAACTTA
1 ATACCTATTAAAACTTA
* *
46474317 ATA-CTCTTAAAAGCTCA
1 ATACCTATTAAAA-CTTA
*
46474334 A-ACCTATTAAAATTTA
1 ATACCTATTAAAACTTA
46474350 A
1 A
46474351 AACCCAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (17 bp):
ATACCTATTAAAACTTA
Found at i:46489306 original size:33 final size:33
Alignment explanation
Indices: 46489251--46489360 Score: 82
Period size: 33 Copynumber: 3.3 Consensus size: 33
46489241 TAGTCCAACT
* ** *
46489251 ATGGTCTTACACATGCATTGCCATGGCCCTGTC
1 ATGGTCTTACACATGCAGTGCCATAACCCAGTC
** * *
46489284 ATGGTCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACACATGCAGTGCCATAACCCAGTC
* *
46489317 ATGGTCTTATCATCA-G-AATGCCATAGCCCAG-C
1 ATGGTCTTA-CA-CATGCAGTGCCATAACCCAGTC
46489349 TATGGTCTTACA
1 -ATGGTCTTACA
46489361 TATATATATA
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
32 2 0.03
33 56 0.92
34 3 0.05
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACATGCAGTGCCATAACCCAGTC
Found at i:46491061 original size:9 final size:9
Alignment explanation
Indices: 46491029--46491062 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
46491019 AATATTAATT
*
46491029 TTAAAATTA
1 TTAAAAATA
*
46491038 TTAAATATA
1 TTAAAAATA
46491047 TTAAAAATA
1 TTAAAAATA
46491056 TTAAAAA
1 TTAAAAA
46491063 CTCAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TTAAAAATA
Found at i:46491167 original size:20 final size:21
Alignment explanation
Indices: 46491124--46491167 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
46491114 AGTTAACATA
*
46491124 AAAATATCAAATAATTAATTT
1 AAAATATCAAATAATTAATAT
* *
46491145 AAAATATTAAA-AATTTATAT
1 AAAATATCAAATAATTAATAT
46491165 AAA
1 AAA
46491168 TCGATATGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATATCAAATAATTAATAT
Found at i:46501558 original size:21 final size:21
Alignment explanation
Indices: 46501488--46501545 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
46501478 TTTTGCTCTG
*
46501488 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
46501509 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
46501530 CGCTGCTTCCCTCGCT
1 CTCTGCTTCCCTCGCT
46501546 TCTGCATCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.03, C:0.47, G:0.19, T:0.31
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Done.