Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 211 of 259
Found at i:66798750 original size:43 final size:44
Alignment explanation
Indices: 66798702--66798859 Score: 207
Period size: 43 Copynumber: 3.7 Consensus size: 44
66798692 AATAATTTTT
** * *
66798702 TAAAAGGTCAT-ATTTTTAGCGGCGTTTTTAGGAAAAGCGCCGC
1 TAAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
66798745 TAAAA-GTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
66798788 T-ACAGGTCATGACGTTTAGCGGCGTTTGTGGGAAAAGCGCCG-
1 TAAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
66798830 TTACAGGCCATGACCTTTAGCGGCGTTTGT
1 TAAAAGGTCATGACCTTTAGCGGCGTTTGT
66798860 TCCTGATCTT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
42 8 0.08
43 96 0.92
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (44 bp):
TAAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:66802614 original size:28 final size:28
Alignment explanation
Indices: 66802582--66802638 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
66802572 AACTAAACGG
66802582 CAACCTCCGTAATAGACATCTCATTGAA
1 CAACCTCCGTAATAGACATCTCATTGAA
66802610 CAACCTCCGTAATAGACATCTCATTGAA
1 CAACCTCCGTAATAGACATCTCATTGAA
66802638 C
1 C
66802639 CAAACAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.25
Consensus pattern (28 bp):
CAACCTCCGTAATAGACATCTCATTGAA
Found at i:66810132 original size:23 final size:22
Alignment explanation
Indices: 66810088--66810156 Score: 97
Period size: 22 Copynumber: 3.1 Consensus size: 22
66810078 CCTGAACTGA
66810088 TGAACAGTAAGCTC-ATCGAGC
1 TGAACAGTAAGCTCTATCGAGC
66810109 TGAA-ATGGTAAGCTCTATCGAGC
1 TGAACA--GTAAGCTCTATCGAGC
*
66810132 TGAACAGTAAGCTCTTTCGAGC
1 TGAACAGTAAGCTCTATCGAGC
66810154 TGA
1 TGA
66810157 TATATATGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
20 1 0.02
21 4 0.09
22 26 0.60
23 11 0.26
24 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:66812244 original size:74 final size:74
Alignment explanation
Indices: 66812123--66812269 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
66812113 AATTTTTATA
* *
66812123 AAGTGTCGACACTTAGTATGGTCTATTTTGGTCTAGCACGTGATCTTTATCTATAAAGAACAAGA
1 AAGTGACGACACTTAGTATGGTCTATTTTGGTCTAGCACATGATCTTTATCTATAAAGAACAAGA
66812188 GTCTTACTC
66 GTCTTACTC
66812197 AAGTGACGACACTTAGTATGGTCTATTTTGGTCTAGCACATGATCTTTATCTATAAAGAACAAGA
1 AAGTGACGACACTTAGTATGGTCTATTTTGGTCTAGCACATGATCTTTATCTATAAAGAACAAGA
66812262 GTCTTACT
66 GTCTTACT
66812270 TGAGTAAGGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (74 bp):
AAGTGACGACACTTAGTATGGTCTATTTTGGTCTAGCACATGATCTTTATCTATAAAGAACAAGA
GTCTTACTC
Found at i:66812532 original size:19 final size:20
Alignment explanation
Indices: 66812499--66812540 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
66812489 TTTTCTATTC
* *
66812499 ATTAAAATATTATTTATTTA
1 ATTAAAATATAATTTAATTA
66812519 ATTAAAAT-TAATTTAATTA
1 ATTAAAATATAATTTAATTA
66812538 ATT
1 ATT
66812541 TTCTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTAAAATATAATTTAATTA
Found at i:66812558 original size:17 final size:17
Alignment explanation
Indices: 66812526--66812573 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
66812516 TTAATTAAAA
66812526 TTAATTTAATTAATTTTC
1 TTAATTTAATT-ATTTTC
*
66812544 TTAATTAAATTATTTTC
1 TTAATTTAATTATTTTC
*
66812561 TCAATTTAATTAT
1 TTAATTTAATTAT
66812574 AATTTCGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATTTAATTATTTTC
Found at i:66815737 original size:3 final size:3
Alignment explanation
Indices: 66815729--66815754 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
66815719 AAGGCCTGGG
66815729 CCT CCT CCT CCT CCT CCT CCT CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CC
66815755 ATGCTTTAAT
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:0.69, G:0.00, T:0.31
Consensus pattern (3 bp):
CCT
Found at i:66819442 original size:22 final size:22
Alignment explanation
Indices: 66819414--66819463 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
66819404 CTATGCAATA
66819414 GATTTGATATCCATTATTTCTT
1 GATTTGATATCCATTATTTCTT
66819436 GATTTGATATCCATTATTTCTT
1 GATTTGATATCCATTATTTCTT
*
66819458 TATTTG
1 GATTTG
66819464 CTTTTTGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (22 bp):
GATTTGATATCCATTATTTCTT
Found at i:66826508 original size:64 final size:64
Alignment explanation
Indices: 66826435--66826652 Score: 154
Period size: 64 Copynumber: 3.3 Consensus size: 64
66826425 CTGGGCCAGA
* *
66826435 GCCCTTTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAATTACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * ** * * ** *
66826499 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCC-TATTTGGGTAACAGTGGTA
1 GCCCATTTCAAATTACAAT-AAAC-T-AG--GCCTTA-GC--CCCTTATTCAGATAACA---GTA
* *
66826562 CTGGGCCAGA-
55 -TGGCCCATAG
* * *
66826572 GCCCTTTTCATATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAATTACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
*
66826636 GCCCATTTCAAAATACA
1 GCCCATTTCAAATTACA
66826653 TGCAACATCA
Statistics
Matches: 109, Mismatches: 30, Indels: 30
0.64 0.18 0.18
Matches are distributed among these distances:
63 9 0.08
64 33 0.30
65 1 0.01
66 4 0.04
67 10 0.09
68 5 0.05
69 5 0.05
70 10 0.09
71 3 0.03
72 1 0.01
73 19 0.17
74 9 0.08
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAAATTACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:66826577 original size:137 final size:137
Alignment explanation
Indices: 66826401--66826687 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
66826391 TATTGGGCCT
**
66826401 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
66826466 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66826531 CATATGC
131 CATATGC
* * *
66826538 AAGCCTATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCATATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
66826603 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66826668 CATATGC
131 CATATGC
66826675 AAGCCCATTTGGG
1 AAGCCCATTTGGG
66826688 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:66828507 original size:26 final size:26
Alignment explanation
Indices: 66828471--66828580 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
66828461 CATGAAATTC
66828471 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
66828497 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
66828523 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
66828549 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
66828575 TTATCA
1 TTATCA
66828581 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:66830403 original size:10 final size:11
Alignment explanation
Indices: 66830383--66830439 Score: 59
Period size: 10 Copynumber: 5.5 Consensus size: 11
66830373 TTAGGATTTG
66830383 TTTTCATTTATC
1 TTTT-ATTTATC
66830395 TTTTA-TTATC
1 TTTTATTTATC
*
66830405 -TTTAATTATC
1 TTTTATTTATC
66830415 -TTTATTTAT-
1 TTTTATTTATC
*
66830424 TTGTATTTATC
1 TTTTATTTATC
66830435 TTTTA
1 TTTTA
66830440 GAATTTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.10
10 26 0.67
11 5 0.13
12 4 0.10
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTATTTATC
Found at i:66841402 original size:23 final size:25
Alignment explanation
Indices: 66841376--66841422 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
66841366 TATCATTCAT
*
66841376 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
66841399 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
66841423 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:66841743 original size:46 final size:46
Alignment explanation
Indices: 66841683--66841948 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
66841673 TTTGACGTGA
* * * * * *
66841683 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
66841729 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
66841775 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
66841821 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
66841859 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
66841905 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
66841949 AGAGCACACT
Statistics
Matches: 197, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 31 0.16
39 2 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 6 0.03
46 150 0.76
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:66841868 original size:38 final size:39
Alignment explanation
Indices: 66841814--66841938 Score: 171
Period size: 38 Copynumber: 3.1 Consensus size: 39
66841804 CACATCTCAT
66841814 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
*
66841853 AT-AGGTTGCTATGGTATCTTTCAACCATGGTCTTACACATTTC
1 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C
66841896 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 --ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
66841937 AT
1 AT
66841939 TTCATATCAG
Statistics
Matches: 76, Mismatches: 2, Indels: 16
0.81 0.02 0.17
Matches are distributed among these distances:
38 31 0.41
39 4 0.05
40 3 0.04
41 1 0.01
43 1 0.01
44 3 0.04
45 2 0.03
46 31 0.41
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (39 bp):
ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:66841914 original size:84 final size:84
Alignment explanation
Indices: 66841773--66841938 Score: 314
Period size: 84 Copynumber: 2.0 Consensus size: 84
66841763 TTCATGTCAC
66841773 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
66841838 ACCATGGTCTTACACATAG
66 ACCATGGTCTTACACATAG
* *
66841857 GTTGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
66841922 ACCATGGTCTTACACAT
66 ACCATGGTCTTACACAT
66841939 TTCATATCAG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATAG
Found at i:66844089 original size:11 final size:11
Alignment explanation
Indices: 66844073--66844120 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
66844063 CTTTATATAC
66844073 TAATAAAATAA
1 TAATAAAATAA
*
66844084 TAATAAAATATCT
1 TAATAAAATA--A
* *
66844097 TATTAAAATAT
1 TAATAAAATAA
66844108 TAATAAAATAA
1 TAATAAAATAA
66844119 TA
1 TA
66844121 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:66847686 original size:18 final size:19
Alignment explanation
Indices: 66847646--66847700 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
66847636 AAATTAAATC
*
66847646 TCTAAGATTGCATATCCTA
1 TCTAAGATTGCATATCATA
66847665 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
66847683 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
66847701 TGAAGATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 17 0.50
19 17 0.50
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:66847856 original size:21 final size:20
Alignment explanation
Indices: 66847819--66847857 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
66847809 TTGGACTCCG
**
66847819 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
66847839 TTTTATTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
66847858 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.13, C:0.03, G:0.13, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:66852140 original size:17 final size:18
Alignment explanation
Indices: 66852104--66852149 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
66852094 TATTGTTTGG
66852104 ATATTGTATAACTCTTGTT
1 ATATTGT-TAACTCTTGTT
*
66852123 ATATTGTTAA-TTTTGTT
1 ATATTGTTAACTCTTGTT
66852140 ACTATT-TTAA
1 A-TATTGTTAA
66852150 AGGCATCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 11 0.44
18 7 0.28
19 7 0.28
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (18 bp):
ATATTGTTAACTCTTGTT
Found at i:66856454 original size:32 final size:32
Alignment explanation
Indices: 66856413--66856477 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
66856403 GGACTGCCCC
66856413 AGCTGGCACAATTGAGGACAATAATAAAACTA
1 AGCTGGCACAATTGAGGACAATAATAAAACTA
*
66856445 AGCTGGCACAATTGAGGACAATATTAAAACTA
1 AGCTGGCACAATTGAGGACAATAATAAAACTA
66856477 A
1 A
66856478 CTTCGAATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.20
Consensus pattern (32 bp):
AGCTGGCACAATTGAGGACAATAATAAAACTA
Found at i:66868970 original size:30 final size:30
Alignment explanation
Indices: 66868934--66868996 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
66868924 TCAAAATATA
66868934 AGATAGTCAGCATAAAAGAAACTAAAAAGT
1 AGATAGTCAGCATAAAAGAAACTAAAAAGT
66868964 AGATAGTCAGCATAAAAGAAACTAAAAAGT
1 AGATAGTCAGCATAAAAGAAACTAAAAAGT
66868994 AGA
1 AGA
66868997 ATGTTTATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.16
Consensus pattern (30 bp):
AGATAGTCAGCATAAAAGAAACTAAAAAGT
Found at i:66873534 original size:20 final size:21
Alignment explanation
Indices: 66873481--66873543 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
66873471 AAAACGGGTA
*
66873481 TTAATA-T-TATTAAATATTT
1 TTAATATTATATTAATTATTT
* *
66873500 TTAATGTTATTTTAATTATTT
1 TTAATATTATATTAATTATTT
*
66873521 TTAA-ATTCTATTAATTATGTT
1 TTAATATTATATTAATTAT-TT
66873542 TT
1 TT
66873544 TAATCCTTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 5 0.14
20 12 0.34
21 18 0.51
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (21 bp):
TTAATATTATATTAATTATTT
Found at i:66876757 original size:24 final size:23
Alignment explanation
Indices: 66876688--66876757 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 23
66876678 ATAATGTTAA
*
66876688 AATTA-AATTATAACTATTTTTA-
1 AATTATAATTAT-ACAATTTTTAT
* *
66876710 ACTAATAATTATA-AATTATATTAT
1 AATTATAATTATACAATT-T-TTAT
66876734 AATTATAATTATCACAATTTTTAT
1 AATTATAATTAT-ACAATTTTTAT
66876758 TATATTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
21 3 0.08
22 5 0.14
23 9 0.24
24 14 0.38
25 2 0.05
26 4 0.11
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTATAATTATACAATTTTTAT
Found at i:66881241 original size:25 final size:28
Alignment explanation
Indices: 66881191--66881242 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
66881181 CAATATTTTT
*
66881191 GCATGAAAATTGATATGATAGGAAAATC
1 GCATGAAAATTGATATGATAGAAAAATC
66881219 GCATGAAAA-T-AT-TGATAGAAAAAT
1 GCATGAAAATTGATATGATAGAAAAAT
66881243 TTTACCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
27 1 0.04
28 9 0.39
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (28 bp):
GCATGAAAATTGATATGATAGAAAAATC
Found at i:66884638 original size:47 final size:47
Alignment explanation
Indices: 66884574--66884684 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
66884564 GACATTGAGT
* *
66884574 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
66884621 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
66884668 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
66884685 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:66897095 original size:30 final size:30
Alignment explanation
Indices: 66897059--66897115 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
66897049 CACAGACTGG
*
66897059 CACATGGGCGTATGGCCAGCTCGTGTGACT
1 CACATGGGCGTATGGCCAGCCCGTGTGACT
*
66897089 CACATGGGCGTGTGGCCAGCCCGTGTG
1 CACATGGGCGTATGGCCAGCCCGTGTG
66897116 GAAATGCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (30 bp):
CACATGGGCGTATGGCCAGCCCGTGTGACT
Found at i:66898988 original size:6 final size:6
Alignment explanation
Indices: 66898942--66899009 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
66898932 CAAAATAGAC
* * * *
66898942 ATAAAA ATTAAA ATTAAA ATTAAA ATTAAA ATAAAA GATAAAA AT--AA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA -ATAAAA ATAAAA
*
66898989 A-AAAA ATAAAC ATAAAA ATAA
1 ATAAAA ATAAAA ATAAAA ATAA
66899010 TCAGACTCAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
4 3 0.06
5 3 0.06
6 42 0.78
7 6 0.11
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (6 bp):
ATAAAA
Found at i:66899003 original size:21 final size:22
Alignment explanation
Indices: 66898969--66899009 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
66898959 AATTAAAATT
*
66898969 AAAATAAAAGATAAAAATAAAA
1 AAAATAAAACATAAAAATAAAA
66898991 AAAAT-AAACATAAAAATAA
1 AAAATAAAACATAAAAATAA
66899010 TCAGACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (22 bp):
AAAATAAAACATAAAAATAAAA
Found at i:66900691 original size:28 final size:28
Alignment explanation
Indices: 66900643--66900697 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
66900633 ATGGAAAGAC
* * *
66900643 AATAATAATGATATATAAAGAATAAATA
1 AATAATAAAGATACATAAAGAAAAAATA
66900671 AATAATAAAGA-ACATAGAAGAAAAAAT
1 AATAATAAAGATACATA-AAGAAAAAAT
66900698 CGACTGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (28 bp):
AATAATAAAGATACATAAAGAAAAAATA
Found at i:66901091 original size:29 final size:29
Alignment explanation
Indices: 66901033--66901096 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
66901023 TTAAATGGGG
* * *
66901033 ACACGATTGTGTGAGCCTCGTGTTGAGCC
1 ACACGATAGTGTGAGCCTCCTGTGGAGCC
* *
66901062 ATACGATAGTGTGAGCCTCCTGTGGGGCC
1 ACACGATAGTGTGAGCCTCCTGTGGAGCC
66901091 ACACGA
1 ACACGA
66901097 CCGTGTGGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.23
Consensus pattern (29 bp):
ACACGATAGTGTGAGCCTCCTGTGGAGCC
Found at i:66901102 original size:29 final size:29
Alignment explanation
Indices: 66901041--66901103 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
66901031 GGACACGATT
* * * *
66901041 GTGTGAGCCTCGTGTTGAGCCATACGATA
1 GTGTGAGCCTCCTGTGGAGCCACACGACA
* *
66901070 GTGTGAGCCTCCTGTGGGGCCACACGACC
1 GTGTGAGCCTCCTGTGGAGCCACACGACA
66901099 GTGTG
1 GTGTG
66901104 GCTCGAATCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (29 bp):
GTGTGAGCCTCCTGTGGAGCCACACGACA
Found at i:66914440 original size:19 final size:16
Alignment explanation
Indices: 66914410--66914459 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
66914400 TAGTAATTGA
*
66914410 TTATTTTTTTAAAATT
1 TTATATTTTTAAAATT
66914426 TTAATATAGTTTTAATAATT
1 TT-ATAT--TTTTAA-AATT
66914446 TTATATTTTTAAAA
1 TTATATTTTTAAAA
66914460 ATTAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 4 0.14
17 9 0.31
19 10 0.34
20 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TTATATTTTTAAAATT
Found at i:66918723 original size:10 final size:10
Alignment explanation
Indices: 66918708--66918732 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
66918698 CACTGATGAT
66918708 GAACAATAAA
1 GAACAATAAA
66918718 GAACAATAAA
1 GAACAATAAA
66918728 GAACA
1 GAACA
66918733 CAACAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACAATAAA
Found at i:66920317 original size:985 final size:985
Alignment explanation
Indices: 66918010--66921139 Score: 4150
Period size: 985 Copynumber: 3.2 Consensus size: 985
66918000 ACACTTGTGC
66918010 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* * ** *
66918075 TTTCCAAC-AAAACAACAAGATAATAAGCTAAAACAATAATGAATTCGGATTCTTTTTAATTTTA
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
* * *
66918139 AAATTTTATGTACTTTTAATTATAAAAATCATTCAAAAAATAATTTTAATA-TTTTT-AAGTTAC
131 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
* * *
66918202 AATTATATTTAATATATCTATATAACAATAATAACAATTGATTAGTGCAATACATAAACAAAATC
196 AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAATC
* * * ** *
66918267 ACAAGTACGATTGATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTCATGCACAAA
261 AAAAGTTCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCACAAA
* * * *
66918332 TAGACATATTAATAATCAACGTATATACATATATGGAACGCACGTGTTAAGATTTAAATAAAAAA
326 CAGACATATTAATAATCAACGAATATA-GT-T-T---A-GAAC-TGTTAAGA--TAAAT-AAAAA
* * *
66918397 AAACTACGTATTGGAAACGCACAAATGATATTTATGCATGGTGGGAGTCAACCTGGTATCACAAA
380 AAACTACGTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAA
* *
66918462 ATTTCTACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAACATTAAAATAAACATC
445 GTTTCTACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATC
*
66918527 AAAGGTTAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTT-TTTTAATACAAT
510 AAAGGTTAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAAT
* *
66918591 CGTTGAATAATTCTATTAGTAAAATATAAGTTAAATATTATGTATTATATTTTGAAAGTTCTAAA
575 CGTTGAATAATTCTATTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCT-AA
*
66918656 ATGATACTTGCAAGCAAATTGAATAAG-ACCAACTATTTTCGACACTGATGATGAACAATAAAGA
639 ATGATACTTGCAAGCAAATTGAGT-AGTACCAACTATTTTCGACACT-A--ATG-------AAGA
* * * ***
66918720 ACAATAAAGAACACAACAATATGTTTGCGTATTTTGGTTTCCATACATCAGCAAAGCCTTAGTTC
693 ATAATAAAG-ACACAACAATATGTTTGCGTATTTTAGTTT-CATACATCAGCAAGGCCTTAGCAA
* * * ** * *
66918785 TGATATAATCTATTTTCTTAATACTTTGTACAACAAGTAGTTACAAACACTAAGTCTCATAAAAA
756 TGAGATAATCCATTATCTTAGCACTTTGTACAACAAGTAGTTACAAACACTAACTCTCACAAAAA
* * *
66918850 TAGGATTACACTTTTGTTCCTAAGATCTAGACAAGCCCTCTCTAAATTTCCTCCCTGAAAATATA
821 TAGGATTTCACTTTTGTACCTAAGATCTAGACAAGTCC-CTCTAAATTTCCTCCCTGAAAATATA
*
66918915 GGATAAAAATCAAGTAACACACTTGATTTTACACTTAGTGCAATCTAAATAAACATTCATCACTA
885 GGATAAAAATCAAGTAACACACTTGATTTTACACTTAGTGCAATCTAAATAAACATTCCTCACTA
66918980 AACAGAAATAAGTGCTCTCAAATCAGTATATAACCT
950 AACAGAAATAAGTGCTCTCAAATCAGTATATAACCT
* * * *
66919016 ATACAAGTCTTCTCAATTTATAATAAAATTAGACTTGCTAACATACTAGATCAGTGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* * * * * *
66919081 CTTCCAACTAAAACAATAAGATAATCAGCTCTAAGAATAATGGAATCGGATTCTTTCTAGTTTAA
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
* * * *
66919146 AATTTTTATTTACTTTTAATTATAAAAATGACTCTAAATATCATTTTAATATTTTTTGAAGTTAC
131 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
* * *
66919211 AACTATAATTAATATA-CTTATATACCAATAATCACAATTAATTAGTGTAATACATAAACAAAAT
196 AATTATAATTAATATATC-TATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAAT
*
66919275 CACAAA-TAT-AATCAATACATCCGTACAATTATGACTAGAATCAACCAAAGCAATTTAATGCAC
260 CA-AAAGT-TCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCAC
* * *
66919338 AAACAAACATATTAATAAT-AACGCATAT-GTTTTG-A-T-TTAA-ATAAATAAATAAATAACTA
323 AAACAGACATATTAATAATCAACGAATATAGTTTAGAACTGTTAAGATAAATAAA-AAA-AACTA
* * * *
66919397 CGTATTGAAAACCCACAAATAATATTTATGCATGGTGGCAGTTGACCTGGAATCACAAAGTTTCT
386 CGTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAAGTTTCT
* *
66919462 ACTTTGCCATCAAACCAAAACCACATTGACAAAAGAATTTTAATATTAAAATAAACATTAAAGGT
451 ACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATCAAAGGT
* *
66919527 TAAGCGACTTAGACATAAGCAAGAAATTCTTTTATTATCTAAATTTGTTTCAATACAATCGTGGA
516 TAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAATCGTTGA
* * * *
66919592 CTAATTTTATTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTCCTACAATAATA
581 ATAATTCTATTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCTA-AATGATA
* * *
66919657 CTTGCAAGCAAATTGAGTAGTATCAACTATTTTCGGCACTAATGAAGAATAATAAAGAGCATAAC
645 CTTGCAAGCAAATTGAGTAGTACCAACTATTTTCGACACTAATGAAGAATAATAAAGA-CACAAC
* * * * **
66919722 AATACGTTTGTGTATTTTAGTTTGCATACATCAACAAGGCCTTTGCAATGAGATAATCCATCGTC
709 AATATGTTTGCGTATTTTAGTTT-CATACATCAGCAAGGCCTTAGCAATGAGATAATCCATTATC
* * * * *
66919787 TTAGCACTTTGTACAAAAAATAGTTACAAATACAAACTTTCACAAAAATAGGATTTCACTTTTGT
773 TTAGCACTTTGTACAACAAGTAGTTACAAACACTAACTCTCACAAAAATAGGATTTCACTTTTGT
** * * *
66919852 ACCTAAGATGAAGACAAGTACCCTCTAAATTTCATCACTAAAAATATAGGATAAAAATCAAGTAA
838 ACCTAAGATCTAGACAAGT-CCCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAATCAAGTAA
* * * *
66919917 CACACTAGATTTTACACTAAGTGCATAT-TAAATAAACATTCCTCAATAAACAGAAATAAGTGTT
902 CACACTTGATTTTACACTTAGTGCA-ATCTAAATAAACATTCCTCACTAAACAGAAATAAGTGCT
* *
66919981 CTCAAATCAGTACATAACTT
966 CTCAAATCAGTATATAACCT
66920001 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* * **
66920066 CTTCCAACTAAAACAACAAGATAATTAGCTCTAAGAATAATGGATTCGGATTCTTTTTTGTTTTA
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
66920131 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
131 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
*
66920196 AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAACCAAAATC
196 AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAATC
* * * *
66920261 AAAAGTTCAATCAAAACATCCGTACAATTATGGCTACAATCAACCAATGGAATTTAATGCACAAA
261 AAAAGTTCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCACAAA
* * *
66920326 CAGACATATTAATAATCAATGAATATACAGATATAGAACACACGTGTTGAGATTTAAATAAAAAA
326 CAGACATATTAATAATCAACGAATAT--AG-TTTAG---A-AC-TGTTAAGA--TAAATAAAAAA
* * * *
66920391 AATTACGTATTAAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCAGTTATCACAAAG
381 AACTACGTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAAG
* * *
66920456 TTTCTATTTTACCATCTAACCAAGA-C-CATTGACAAAAGAATTTTAATATTAAAATAAACATCA
446 TTTCTACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATCA
* * * * *
66920519 AAGGTTAAGCTACTTAGACATAACCAAGAAATTCTTCCATTACCTAAATTTGTTTCACTACAATC
511 AAGGTTAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAATC
* * *
66920584 GTTGAATAATTCTACTGGTAAAATTTAATTTAAATATTATATATTATATTTTGAAAGTTCTAAAC
576 GTTGAATAATTCTATTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCTAAA-
* * * * * * *
66920649 CGGTAGTCGCAAGCAAATTGAGTAGTGCCAACTATTTTCGACAATGATGAAGAATAA-AAA-ACA
640 TGATACTTGCAAGCAAATTGAGTAGTACCAACTATTTTCGACACTAATGAAGAATAATAAAGACA
* * * * * *
66920712 CAACAATATGTTTGCGCAGTTTAGTTTCATACATTAGCGAGGTCTTAGCAGTGAGATAATCCATT
705 CAACAATATGTTTGCGTATTTTAGTTTCATACATCAGCAAGGCCTTAGCAATGAGATAATCCATT
* *
66920777 ATCTTAGCACTTTATACAACAAGTAGTTACAAACACTAACTCTCACGAAAATAGGA--TCACTTT
770 ATCTTAGCACTTTGTACAACAAGTAGTTACAAACACTAACTCTCACAAAAATAGGATTTCACTTT
* * *
66920840 TGTACCTGAGATCTAGACAAATCTCCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAACCAAG
835 TGTACCTAAGATCTAGACAAGTC-CCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAATCAAG
* * * * * *
66920905 TAACATACTTGATTCTACACTTAGTG-AACTCTAAATAAGCTTTCCTCACTAAATAAAAATAAGT
899 TAACACACTTGATTTTACACTTAGTGCAA-TCTAAATAAACATTCCTCACTAAACAGAAATAAGT
*
66920969 GCTCTCAAATTAGTATATAACCT
963 GCTCTCAAATCAGTATATAACCT
* * * * * *
66920992 ATACAAGTATTTTCAATTTATAATGAAATAAGACTTGTTATCATACTAGATCAATGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* *
66921057 CTTCCAACTAAAACAACAAG---ATCAGCTCTAACAATAATGGGATTCGGAATCTTTTTTATTTT
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAAT-GGATTCGGATTCTTTTTAATTTT
66921119 AAATTTTTATTTACTTTTAAT
130 AAATTTTTATTTACTTTTAAT
66921140 CTGAACACAG
Statistics
Matches: 1867, Mismatches: 219, Indels: 93
0.86 0.10 0.04
Matches are distributed among these distances:
984 5 0.00
985 561 0.30
986 12 0.01
988 16 0.01
989 44 0.02
990 6 0.00
991 210 0.11
992 6 0.00
993 87 0.05
994 197 0.11
995 110 0.06
996 9 0.00
997 199 0.11
998 4 0.00
999 80 0.04
1000 4 0.00
1001 8 0.00
1004 1 0.00
1005 1 0.00
1006 69 0.04
1007 90 0.05
1008 14 0.01
1009 132 0.07
1010 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (985 bp):
ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAATC
AAAAGTTCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCACAAA
CAGACATATTAATAATCAACGAATATAGTTTAGAACTGTTAAGATAAATAAAAAAAACTACGTAT
TGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAAGTTTCTACTTT
GCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATCAAAGGTTAAGC
GACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAATCGTTGAATAAT
TCTATTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCTAAATGATACTTGCA
AGCAAATTGAGTAGTACCAACTATTTTCGACACTAATGAAGAATAATAAAGACACAACAATATGT
TTGCGTATTTTAGTTTCATACATCAGCAAGGCCTTAGCAATGAGATAATCCATTATCTTAGCACT
TTGTACAACAAGTAGTTACAAACACTAACTCTCACAAAAATAGGATTTCACTTTTGTACCTAAGA
TCTAGACAAGTCCCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAATCAAGTAACACACTTGA
TTTTACACTTAGTGCAATCTAAATAAACATTCCTCACTAAACAGAAATAAGTGCTCTCAAATCAG
TATATAACCT
Found at i:66923009 original size:60 final size:60
Alignment explanation
Indices: 66922943--66923063 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
66922933 GATCAAGAAA
66922943 ACATCTTTGTAAATAGACTTAATAGCCTTCAAGGTGGACACTTCAAAGATATTAAAACAT
1 ACATCTTTGTAAATAGACTTAATAGCCTTCAAGGTGGACACTTCAAAGATATTAAAACAT
66923003 ACATCTTTGTAAATAGACTTAATAGCCTTCAAGGTGGACACTTCAAAGATATTAAAACAT
1 ACATCTTTGTAAATAGACTTAATAGCCTTCAAGGTGGACACTTCAAAGATATTAAAACAT
66923063 A
1 A
66923064 ATGCCATGAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (60 bp):
ACATCTTTGTAAATAGACTTAATAGCCTTCAAGGTGGACACTTCAAAGATATTAAAACAT
Found at i:66927389 original size:156 final size:156
Alignment explanation
Indices: 66927105--66927417 Score: 626
Period size: 156 Copynumber: 2.0 Consensus size: 156
66927095 ACCACAGAAG
66927105 ATGGCATGGGGTTGTAGCTGTATTTGTAGATAAGATCACCCATTGATGGGCTTCCTTACATTAAA
1 ATGGCATGGGGTTGTAGCTGTATTTGTAGATAAGATCACCCATTGATGGGCTTCCTTACATTAAA
66927170 CAGAATGCCCACTTCTTATTCGCTAAAGAACTTGGGCCAGTAATGCTTCTTTTACATTTAGCCTC
66 CAGAATGCCCACTTCTTATTCGCTAAAGAACTTGGGCCAGTAATGCTTCTTTTACATTTAGCCTC
66927235 AGACAGATGGGAGTGGAAATTCACAC
131 AGACAGATGGGAGTGGAAATTCACAC
66927261 ATGGCATGGGGTTGTAGCTGTATTTGTAGATAAGATCACCCATTGATGGGCTTCCTTACATTAAA
1 ATGGCATGGGGTTGTAGCTGTATTTGTAGATAAGATCACCCATTGATGGGCTTCCTTACATTAAA
66927326 CAGAATGCCCACTTCTTATTCGCTAAAGAACTTGGGCCAGTAATGCTTCTTTTACATTTAGCCTC
66 CAGAATGCCCACTTCTTATTCGCTAAAGAACTTGGGCCAGTAATGCTTCTTTTACATTTAGCCTC
66927391 AGACAGATGGGAGTGGAAATTCACAC
131 AGACAGATGGGAGTGGAAATTCACAC
66927417 A
1 A
66927418 CGTTAGGGTC
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 157 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (156 bp):
ATGGCATGGGGTTGTAGCTGTATTTGTAGATAAGATCACCCATTGATGGGCTTCCTTACATTAAA
CAGAATGCCCACTTCTTATTCGCTAAAGAACTTGGGCCAGTAATGCTTCTTTTACATTTAGCCTC
AGACAGATGGGAGTGGAAATTCACAC
Found at i:66938281 original size:19 final size:19
Alignment explanation
Indices: 66938257--66938294 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
66938247 CATAATTGAC
66938257 CATGCAAAAATATAAAAGT
1 CATGCAAAAATATAAAAGT
66938276 CATGCAAAAATATAAAAGT
1 CATGCAAAAATATAAAAGT
66938295 TTTAGAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.21
Consensus pattern (19 bp):
CATGCAAAAATATAAAAGT
Found at i:66942946 original size:39 final size:39
Alignment explanation
Indices: 66942888--66942965 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
66942878 CCTAAACCAA
* * * *
66942888 AATCCACAAGAAAGCATCCTTCGAGTTTCAAGCC-AACCT
1 AATCCAAAAGAAAGAATCCTTCAAGCTTCAA-CCTAACCT
66942927 AATCCAAAAGAAAGAATCCTTCAAGCTTCAACCTAACCT
1 AATCCAAAAGAAAGAATCCTTCAAGCTTCAACCTAACCT
66942966 TGAATCACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 32 0.94
ACGTcount: A:0.40, C:0.29, G:0.10, T:0.21
Consensus pattern (39 bp):
AATCCAAAAGAAAGAATCCTTCAAGCTTCAACCTAACCT
Found at i:66961250 original size:33 final size:33
Alignment explanation
Indices: 66961205--66961270 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
66961195 TATCCAGAAA
* *
66961205 GAGTAAATTAGCACTTAGAACTTCAAGAGCTAC
1 GAGTAAAGTAGCACTTAGAACTTCAACAGCTAC
*
66961238 GAGTAAAGTAGCACTTAGAACTTCTACAGCTAC
1 GAGTAAAGTAGCACTTAGAACTTCAACAGCTAC
66961271 TTGGACTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (33 bp):
GAGTAAAGTAGCACTTAGAACTTCAACAGCTAC
Found at i:66965750 original size:21 final size:20
Alignment explanation
Indices: 66965712--66965750 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
66965702 ACATATACGA
*
66965712 AAACAACTTAAAACACTAGT
1 AAACAACTTAAAAAACTAGT
*
66965732 AAACCACTTGAAAAAACTA
1 AAACAACTT-AAAAAACTA
66965751 AAACACCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (20 bp):
AAACAACTTAAAAAACTAGT
Found at i:66967516 original size:20 final size:20
Alignment explanation
Indices: 66967491--66967528 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
66967481 AAATTTTATT
66967491 TTATTTTTATATTTTGAAAA
1 TTATTTTTATATTTTGAAAA
*
66967511 TTATTTTTATTTTTTGAA
1 TTATTTTTATATTTTGAA
66967529 TTTTAAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTATTTTTATATTTTGAAAA
Found at i:66967593 original size:18 final size:18
Alignment explanation
Indices: 66967518--66967599 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 18
66967508 AAATTATTTT
*
66967518 TATTTTTTGAATTTTAAA
1 TATTTTTTTAATTTTAAA
* *
66967536 GA--GTTTTAATTTTAATCA
1 TATTTTTTTAATTTTAA--A
**
66967554 TAATTTTTTATTTTTTTAAAA
1 T-ATTTTTT-TAATTTT-AAA
66967575 TATTTTTTTAATTTTAAA
1 TATTTTTTTAATTTTAAA
66967593 T-TTTTTT
1 TATTTTTT
66967600 ATTTAAAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
16 11 0.23
17 6 0.12
18 6 0.12
19 6 0.12
20 7 0.15
21 5 0.10
22 5 0.10
23 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (18 bp):
TATTTTTTTAATTTTAAA
Found at i:66967604 original size:20 final size:20
Alignment explanation
Indices: 66967555--66967605 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
66967545 TTTTAATCAT
66967555 AATTTTTTATTT--TTTTAA
1 AATTTTTTATTTAATTTTAA
*
66967573 AATATTTT-TTTAATTTTAA
1 AATTTTTTATTTAATTTTAA
*
66967592 ATTTTTTTATTTAA
1 AATTTTTTATTTAA
66967606 AATACAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.11
18 7 0.26
19 12 0.44
20 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
AATTTTTTATTTAATTTTAA
Found at i:66970011 original size:18 final size:18
Alignment explanation
Indices: 66969975--66970010 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
66969965 ATTAAAGGAG
*
66969975 GGAAGAAGAAAGGTAAAA
1 GGAAGAAGAAAGATAAAA
66969993 GGAAGAAGAAAAGATAAA
1 GGAAGAAG-AAAGATAAA
66970011 GTACTGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.06
Consensus pattern (18 bp):
GGAAGAAGAAAGATAAAA
Found at i:66983690 original size:21 final size:21
Alignment explanation
Indices: 66983664--66983703 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66983654 TACTGGAAAA
*
66983664 TGACCAATATAAAAATAATTG
1 TGACCAAAATAAAAATAATTG
*
66983685 TGACCAAAATAGAAATAAT
1 TGACCAAAATAAAAATAAT
66983704 AAAAAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (21 bp):
TGACCAAAATAAAAATAATTG
Found at i:66986305 original size:15 final size:15
Alignment explanation
Indices: 66986274--66986308 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
66986264 ATCTTAATTT
*
66986274 TATATCTTAAGATTA
1 TATATCTTAAGACTA
*
66986289 TATATCTTAAGGCTA
1 TATATCTTAAGACTA
66986304 TATAT
1 TATAT
66986309 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (15 bp):
TATATCTTAAGACTA
Found at i:66986324 original size:2 final size:2
Alignment explanation
Indices: 66986319--66986349 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
66986309 ATATATATAT
66986319 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
66986350 TAGGAGGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:66994684 original size:20 final size:21
Alignment explanation
Indices: 66994650--66994690 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66994640 TTTATAAAAG
*
66994650 CTTAAAGTTACAAAAAAAACC
1 CTTAAACTTACAAAAAAAACC
*
66994671 CTTAAACTTAAAAAAAAAAC
1 CTTAAACTTACAAAAAAAAC
66994691 ATCAAACCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.61, C:0.17, G:0.02, T:0.20
Consensus pattern (21 bp):
CTTAAACTTACAAAAAAAACC
Found at i:66996356 original size:18 final size:18
Alignment explanation
Indices: 66996335--66996369 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66996325 TTTTGAAAAT
66996335 ATTTAAAATATTAATATA
1 ATTTAAAATATTAATATA
**
66996353 ATTTATTATATTAATAT
1 ATTTAAAATATTAATAT
66996370 TCCAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTAAAATATTAATATA
Found at i:66996474 original size:17 final size:18
Alignment explanation
Indices: 66996448--66996494 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
66996438 ATTCAATATT
*
66996448 AATATTTTAATAA-TAAA
1 AATATATTAATAATTAAA
* *
66996465 AATTTATTAA-AATTATA
1 AATATATTAATAATTAAA
66996482 AATATATTAATAA
1 AATATATTAATAA
66996495 ATGTTTTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATATTAATAATTAAA
Found at i:66997280 original size:24 final size:23
Alignment explanation
Indices: 66997253--66997297 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
66997243 TTGGGAATAT
*
66997253 CAAAAGTTGACTTCCTAGGGTTCC
1 CAAAAATTGACTT-CTAGGGTTCC
*
66997277 CAAAAATTGACTTTTAGGGTT
1 CAAAAATTGACTTCTAGGGTT
66997298 TTGAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (23 bp):
CAAAAATTGACTTCTAGGGTTCC
Found at i:67003651 original size:19 final size:17
Alignment explanation
Indices: 67003612--67003661 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
67003602 GATTAAAATC
67003612 TAGTTTTCTCTAAAGAAAA
1 TAGTTTTC-CTAAA-AAAA
67003631 TAGTTTTCCTAAAATAGAA
1 TAGTTTTCCTAAAA-A-AA
67003650 TA-TTTT-CTAAAA
1 TAGTTTTCCTAAAA
67003662 CTTCCGCGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.24
18 10 0.34
19 12 0.41
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (17 bp):
TAGTTTTCCTAAAAAAA
Found at i:67008478 original size:40 final size:40
Alignment explanation
Indices: 67008441--67008666 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
67008431 GCTACTCGTT
* *
67008441 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
67008481 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
67008521 CAAATGCCTTCAGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
67008561 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
67008601 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
67008642 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
67008667 CATCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.90
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:67023654 original size:2 final size:2
Alignment explanation
Indices: 67023649--67023675 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
67023639 ATATATAAAT
67023649 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
67023676 AGTTTTTTGG
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:67028688 original size:195 final size:196
Alignment explanation
Indices: 67028305--67028706 Score: 754
Period size: 196 Copynumber: 2.1 Consensus size: 196
67028295 TAACAAAATC
*
67028305 TTTCATTCTTTCAATTTTTAAAACAAAAAAATCTTTCTATTTTCAACGCTTTAACTCATTTTTAC
1 TTTCATT-TTTCAATTTTCAAAACAAAAAAATCTTTCTATTTTCAACGCTTTAACTCATTTTTAC
67028370 AAAACTTTCCATGAAAGGAGGGAGAAGATTCTTTGAGTTTTCTTGAATCTAATCTCTTGGTTTCA
65 AAAACTTTCCATGAAAGGAGGGAGAAGATTCTTTGAGTTTTCTTGAATCTAATCTCTTGGTTTCA
67028435 ACAAGATATGTGTTTTTCAATCATTAAATTTGGTTTCAATCCATAGAAAGTTTATTTCAATAAAA
130 ACAAGATATGTGTTTTTCAATCATTAAATTTGGTTTCAATCCATAGAAAGTTTATTTCAAT-AAA
67028500 TTT
194 TTT
*
67028503 TTTCATTTTTCAATTTTCAAAA-AAAAAAATCTTTCTATTTTCAACGCTTTAACTCATTTTTGCA
1 TTTCATTTTTCAATTTTCAAAACAAAAAAATCTTTCTATTTTCAACGCTTTAACTCATTTTTACA
67028567 AAACTTTCCATGAAAGGAGGGAGAAGATTCTTTGAGTTTTCTTGAATCTAATCTCTTGGTTTCAA
66 AAACTTTCCATGAAAGGAGGGAGAAGATTCTTTGAGTTTTCTTGAATCTAATCTCTTGGTTTCAA
67028632 CAAGATAT-TGTTTTTCAATCATTAAATTTGGTTTCAATCCATAGAAAGTTTATTTCAATAAATT
131 CAAGATATGTGTTTTTCAATCATTAAATTTGGTTTCAATCCATAGAAAGTTTATTTCAATAAATT
67028696 T
196 T
67028697 TTTCATTTTT
1 TTTCATTTTT
67028707 TTCATTCACG
Statistics
Matches: 202, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
194 16 0.08
195 51 0.25
196 114 0.56
197 14 0.07
198 7 0.03
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (196 bp):
TTTCATTTTTCAATTTTCAAAACAAAAAAATCTTTCTATTTTCAACGCTTTAACTCATTTTTACA
AAACTTTCCATGAAAGGAGGGAGAAGATTCTTTGAGTTTTCTTGAATCTAATCTCTTGGTTTCAA
CAAGATATGTGTTTTTCAATCATTAAATTTGGTTTCAATCCATAGAAAGTTTATTTCAATAAATT
T
Found at i:67030552 original size:167 final size:169
Alignment explanation
Indices: 67030242--67030586 Score: 561
Period size: 167 Copynumber: 2.0 Consensus size: 169
67030232 AATGAAAACT
* *
67030242 AATTGCCCTTAAAAATCAAGTCAACATTTAGGCTTTGCAATGTGATGCCACGACTTGGGATATAT
1 AATT-CCCTTAAAAATCAAGTCAACATTTAGGCTTTGCAATGTGATGCCACAACTTAGGATATAT
** **
67030307 CTTGTTGCACATGATGGTCATCGTCGCGATATTGCTCTTCTCTTCATTGCGATAAGACTGCCTAT
65 CTTGTTGCACATGATGGTCATCGTCGCGATATTGCTCTTCTCCACATCACGATAAGACTGCCTAT
* * *
67030372 TTTATCTTTCATTTGTTTTCGTCTCATACTTTTATATTGTG
130 TTTATCATTCATTTGTTTT-GTCTCACACTTCTATATTGTG
67030413 AATTCCCTT-AAAATCAAGTCAAC-TTTAGGC-TTGCAATGTGATGCCACAACTTAGGATATATC
1 AATTCCCTTAAAAATCAAGTCAACATTTAGGCTTTGCAATGTGATGCCACAACTTAGGATATATC
67030475 TTGTTGCACATGATGGTCATCGTCGCGATATTGCTCTTCTCCACATCACGATAAGACTGCCTATT
66 TTGTTGCACATGATGGTCATCGTCGCGATATTGCTCTTCTCCACATCACGATAAGACTGCCTATT
*
67030540 TTATCATTCATTTGTTTTGTCTCACACTTCTATGTTGTG
131 TTATCATTCATTTGTTTTGTCTCACACTTCTATATTGTG
67030579 AATTCCCT
1 AATTCCCT
67030587 AGCTCGTGGT
Statistics
Matches: 164, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
166 26 0.16
167 108 0.66
168 7 0.04
169 14 0.09
170 5 0.03
171 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (169 bp):
AATTCCCTTAAAAATCAAGTCAACATTTAGGCTTTGCAATGTGATGCCACAACTTAGGATATATC
TTGTTGCACATGATGGTCATCGTCGCGATATTGCTCTTCTCCACATCACGATAAGACTGCCTATT
TTATCATTCATTTGTTTTGTCTCACACTTCTATATTGTG
Found at i:67032219 original size:13 final size:13
Alignment explanation
Indices: 67032213--67032240 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
67032203 TTAAAAATGT
67032213 AAATTAATAAATA
1 AAATTAATAAATA
67032226 AAATTAATAAATA
1 AAATTAATAAATA
67032239 AA
1 AA
67032241 GGTCAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATTAATAAATA
Found at i:67033434 original size:15 final size:14
Alignment explanation
Indices: 67033414--67033447 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
67033404 AGCTAATGTA
67033414 AGGGTTTAGGGCTTT
1 AGGGTTTAGGG-TTT
67033429 AGGGTTTAGGGTTT
1 AGGGTTTAGGGTTT
67033443 AGGGT
1 AGGGT
67033448 ATTGGTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.44, T:0.38
Consensus pattern (14 bp):
AGGGTTTAGGGTTT
Found at i:67033436 original size:7 final size:7
Alignment explanation
Indices: 67033414--67033447 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
67033404 AGCTAATGTA
67033414 AGGGTTT
1 AGGGTTT
67033421 AGGGCTTT
1 AGGG-TTT
67033429 AGGGTTT
1 AGGGTTT
67033436 AGGGTTT
1 AGGGTTT
67033443 AGGGT
1 AGGGT
67033448 ATTGGTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.15, C:0.03, G:0.44, T:0.38
Consensus pattern (7 bp):
AGGGTTT
Found at i:67039091 original size:13 final size:14
Alignment explanation
Indices: 67039074--67039135 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 14
67039064 GTATATCTAT
67039074 TTTCATATAACTGA
1 TTTCATATAACTGA
*
67039088 -TTCATATAAC-CA
1 TTTCATATAACTGA
*
67039100 TTTCATGT--CT-A
1 TTTCATATAACTGA
67039111 TTTTCATATAACTGA
1 -TTTCATATAACTGA
67039126 -TTCATATAAC
1 TTTCATATAAC
67039136 CATTTAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
11 2 0.05
12 8 0.21
13 26 0.67
14 2 0.05
15 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.44
Consensus pattern (14 bp):
TTTCATATAACTGA
Found at i:67039155 original size:27 final size:27
Alignment explanation
Indices: 67039125--67039176 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
67039115 CATATAACTG
67039125 ATTCATATAACCATTTAACATATCTGT
1 ATTCATATAACCATTTAACATATCTGT
* * *
67039152 ATTCATCTAACCATTTCATATATCT
1 ATTCATATAACCATTTAACATATCT
67039177 ATTTTTCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (27 bp):
ATTCATATAACCATTTAACATATCTGT
Found at i:67039170 original size:40 final size:38
Alignment explanation
Indices: 67039057--67039173 Score: 119
Period size: 38 Copynumber: 3.0 Consensus size: 38
67039047 ATCCAATGAT
* *
67039057 CCATTTCGTATATCTATTTTCATATAACTGATTCATATAA
1 CCATTTC--ATATCTATATTCATATAACTCATTCATATAA
* * *
67039097 CCATTTCATGTCTATTTTCATATAACTGATTCATATAA
1 CCATTTCATATCTATATTCATATAACTCATTCATATAA
* *
67039135 CCATTTAACATATCTGTATTCATCTAAC-CATTTCATATA
1 CCATTT--CATATCTATATTCATATAACTCA-TTCATATA
67039174 TCTATTTTTC
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
38 36 0.53
39 1 0.01
40 31 0.46
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (38 bp):
CCATTTCATATCTATATTCATATAACTCATTCATATAA
Found at i:67039180 original size:13 final size:13
Alignment explanation
Indices: 67039031--67039195 Score: 52
Period size: 13 Copynumber: 12.4 Consensus size: 13
67039021 ACTTACATTT
*
67039031 TATTTCAAATATC
1 TATTTCATATATC
*
67039044 TATATCCA-ATGATC
1 TAT-TTCATAT-ATC
* *
67039058 CATTTCGTATATC
1 TATTTCATATATC
*
67039071 TATTTTCATATAAC
1 TA-TTTCATATATC
*
67039085 TGA-TTCATATAAC
1 T-ATTTCATATATC
* *
67039098 CATTTC--ATGTC
1 TATTTCATATATC
*
67039109 TATTTTCATATAAC
1 TA-TTTCATATATC
*
67039123 TGA-TTCATATAAC
1 T-ATTTCATATATC
* * *
67039136 CATTTAACATATC
1 TATTTCATATATC
* * *
67039149 TGTATTCATCTAAC
1 TAT-TTCATATATC
*
67039163 CATTTCATATATC
1 TATTTCATATATC
*
67039176 TATTTTTCATATATT
1 TA--TTTCATATATC
67039191 TATTT
1 TATTT
67039196 TTCACCCAAT
Statistics
Matches: 109, Mismatches: 29, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
11 4 0.04
12 6 0.06
13 54 0.50
14 31 0.28
15 14 0.13
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.47
Consensus pattern (13 bp):
TATTTCATATATC
Found at i:67039189 original size:17 final size:15
Alignment explanation
Indices: 67039165--67039199 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
67039155 CATCTAACCA
*
67039165 TTTCATATATCTATT
1 TTTCATATATTTATT
67039180 TTTCATATATTTATT
1 TTTCATATATTTATT
67039195 TTTCA
1 TTTCA
67039200 CCCAATGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTCATATATTTATT
Found at i:67040324 original size:14 final size:14
Alignment explanation
Indices: 67040305--67040333 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
67040295 CGATCTAAGG
67040305 ATAAAGATGATGAA
1 ATAAAGATGATGAA
67040319 ATAAAGATGATGAA
1 ATAAAGATGATGAA
67040333 A
1 A
67040334 AATGCCAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (14 bp):
ATAAAGATGATGAA
Found at i:67051752 original size:12 final size:12
Alignment explanation
Indices: 67051730--67051754 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67051720 ACACAAAAAG
67051730 AAAAAGAAAATA
1 AAAAAGAAAATA
67051742 AAAAAGAAAATA
1 AAAAAGAAAATA
67051754 A
1 A
67051755 GTTTAAAATT
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATA
Found at i:67055837 original size:25 final size:24
Alignment explanation
Indices: 67055809--67055879 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
67055799 CATATAGTTC
*
67055809 AAAATATAAAAGAAAAATAAACATA
1 AAAATA-AAAAGAAAAATAAAAATA
* * *
67055834 AAAAGAAAAAAGACACATAAAAATA
1 AAAA-TAAAAAGAAAAATAAAAATA
*
67055859 AAAATAAAAA-TAAAATAAAAA
1 AAAATAAAAAGAAAAATAAAAA
67055880 CAAGCGGACT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 8 0.22
24 5 0.14
25 23 0.62
26 1 0.03
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (24 bp):
AAAATAAAAAGAAAAATAAAAATA
Found at i:67055851 original size:19 final size:18
Alignment explanation
Indices: 67055816--67055873 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
67055806 TTCAAAATAT
67055816 AAAAGAAAAATAAACATA
1 AAAAGAAAAATAAACATA
67055834 AAAAGAAAAA-AGACACATA
1 AAAAGAAAAATA-A-ACATA
* *
67055853 AAAATAAAAATAAAAATA
1 AAAAGAAAAATAAACATA
67055871 AAA
1 AAA
67055874 TAAAAACAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 1 0.03
18 18 0.51
19 15 0.43
20 1 0.03
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.10
Consensus pattern (18 bp):
AAAAGAAAAATAAACATA
Found at i:67055861 original size:5 final size:6
Alignment explanation
Indices: 67055809--67055879 Score: 65
Period size: 6 Copynumber: 11.7 Consensus size: 6
67055799 CATATAGTTC
* * * *
67055809 AAAATA TAAAAGA AAAATA AACATA AAAAGA AAAA-A GACACATA AAAATA
1 AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA -A-AAATA AAAATA
67055859 AAAATA AAAAT- AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
67055880 CAAGCGGACT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
5 6 0.11
6 38 0.72
7 8 0.15
8 1 0.02
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:67062619 original size:3 final size:3
Alignment explanation
Indices: 67062611--67062682 Score: 83
Period size: 3 Copynumber: 24.0 Consensus size: 3
67062601 TTATGTTGTA
* **
67062611 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ACC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
67062659 CTTT ATT ATT -TT CTT ATT ATT ATT
1 -ATT ATT ATT ATT ATT ATT ATT ATT
67062683 CTTTTCATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.93
4 2 0.03
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:67064245 original size:6 final size:6
Alignment explanation
Indices: 67064230--67064285 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
67064220 ATTGAGTCCA
* * * *
67064230 TTTATC TTTATG TTTATT TTTATT TCTATT TTTATT TTTATT TTTATG
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
67064278 TTTATT TT
1 TTTATT TT
67064286 GTTTTCCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:67064263 original size:18 final size:18
Alignment explanation
Indices: 67064242--67064298 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
67064232 TATCTTTATG
67064242 TTTATTTTTATTTCTATT
1 TTTATTTTTATTTCTATT
* *
67064260 TTTATTTTTATTTTTATG
1 TTTATTTTTATTTCTATT
67064278 TTTATTTTGT-TTTCCTATT
1 TTTATTTT-TATTT-CTATT
67064297 TT
1 TT
67064299 GAACTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 27 0.82
19 6 0.18
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTATTTTTATTTCTATT
Found at i:67064311 original size:36 final size:35
Alignment explanation
Indices: 67064230--67064311 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
67064220 ATTGAGTCCA
* **
67064230 TTTATCTTTATGTTTATTTTTATTTCTATTTTTATT
1 TTTAT-TTTATGTTTATTTTTATTTCTATTTTGAAC
67064266 TTTATTTTTATGTTTATTTTGT-TTTCCTATTTTGAAC
1 TTTA-TTTTATGTTTATTTT-TATTT-CTATTTTGAAC
67064303 TTTATTTTA
1 TTTATTTTA
67064312 ATTATTATGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 26 0.65
37 14 0.35
ACGTcount: A:0.17, C:0.06, G:0.05, T:0.72
Consensus pattern (35 bp):
TTTATTTTATGTTTATTTTTATTTCTATTTTGAAC
Found at i:67067838 original size:6 final size:7
Alignment explanation
Indices: 67067819--67067844 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
67067809 TATGTTAAGA
67067819 AGTTTTT
1 AGTTTTT
67067826 AGTTTTT
1 AGTTTTT
67067833 AGTTTTT
1 AGTTTTT
67067840 AGTTT
1 AGTTT
67067845 CAATTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (7 bp):
AGTTTTT
Found at i:67069914 original size:21 final size:21
Alignment explanation
Indices: 67069866--67069914 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
67069856 ATTAAGGAAC
* *
67069866 CTTTA-AAAATATTGGTGAAT
1 CTTTAGAAAATATTGCTAAAT
*
67069886 CCTT-GAAAATATTGCTAAAT
1 CTTTAGAAAATATTGCTAAAT
67069906 CTTTAGAAA
1 CTTTAGAAA
67069915 TTTTGATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
CTTTAGAAAATATTGCTAAAT
Found at i:67071446 original size:21 final size:21
Alignment explanation
Indices: 67071422--67071462 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
67071412 GATAAAAAAA
67071422 AAATTTAATATATCATAATAC
1 AAATTTAATATATCATAATAC
67071443 AAATTTAATATATCATAATA
1 AAATTTAATATATCATAATA
67071463 GTGTACTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATTTAATATATCATAATAC
Found at i:67074261 original size:17 final size:18
Alignment explanation
Indices: 67074239--67074275 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
67074229 ATTTTGGATA
*
67074239 TAATTT-TTTAGGTATTT
1 TAATTTATTTAGGCATTT
67074256 TAATTTATTTAGGCATTT
1 TAATTTATTTAGGCATTT
67074274 TA
1 TA
67074276 TGTTTGTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (18 bp):
TAATTTATTTAGGCATTT
Found at i:67083473 original size:23 final size:23
Alignment explanation
Indices: 67083444--67083509 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
67083434 CTGATTAATT
67083444 AATTAATAATTTAATTTAATTTC
1 AATTAATAATTTAATTTAATTTC
67083467 AATTAAT-ATTT--TTTAAAATTTC
1 AATTAATAATTTAATTT--AATTTC
67083489 AATT-ATCAA-TTAATTTAATTT
1 AATTAAT-AATTTAATTTAATTT
67083510 AAAATTAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
20 3 0.08
21 2 0.05
22 21 0.57
23 8 0.22
24 3 0.08
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTAATAATTTAATTTAATTTC
Found at i:67083500 original size:29 final size:27
Alignment explanation
Indices: 67083440--67083515 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 27
67083430 TGGTCTGATT
67083440 AATTAATTAATAATTT--AATTTAATTTC
1 AATTAATT--TAATTTAAAATTTAATTTC
*
67083467 AATTAATATT-TTTTAAAATTTCAATTATC
1 AATTAAT-TTAATTTAAAATTT-AATT-TC
67083496 AATTAATTTAATTTAAAATT
1 AATTAATTTAATTTAAAATT
67083516 AGGTGATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
25 3 0.07
26 1 0.02
27 12 0.29
28 7 0.17
29 18 0.44
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (27 bp):
AATTAATTTAATTTAAAATTTAATTTC
Found at i:67084511 original size:15 final size:16
Alignment explanation
Indices: 67084491--67084523 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
67084481 ATATATTTTT
67084491 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
67084506 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
67084523 T
1 T
67084524 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:67084643 original size:26 final size:24
Alignment explanation
Indices: 67084599--67084647 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
67084589 ATTTGTTTTA
*
67084599 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
67084623 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
67084648 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:67084910 original size:41 final size:41
Alignment explanation
Indices: 67084853--67084939 Score: 167
Period size: 41 Copynumber: 2.1 Consensus size: 41
67084843 ATCACCTCTA
67084853 TATATGACCCTAGCTTAATATAATATAAAAAATCATTCTTG
1 TATATGACCCTAGCTTAATATAATATAAAAAATCATTCTTG
67084894 TATATGACCCTAGCTTAATATAATATAAAAAATCATTCTTG
1 TATATGACCCTAGCTTAATATAATATAAAAAATCATTCTTG
67084935 T-TATG
1 TATATG
67084940 TATGAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.09
41 42 0.91
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (41 bp):
TATATGACCCTAGCTTAATATAATATAAAAAATCATTCTTG
Found at i:67093074 original size:13 final size:13
Alignment explanation
Indices: 67093058--67093090 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
67093048 TTTAATTAAA
*
67093058 TTAGTTAATTAGT
1 TTAGATAATTAGT
67093071 TTAGATAATTAGT
1 TTAGATAATTAGT
67093084 TTA-ATAA
1 TTAGATAA
67093091 ACAAACCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:67098449 original size:6 final size:6
Alignment explanation
Indices: 67098431--67098469 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
67098421 TCGTTCTATC
* *
67098431 TTTTTA TTCTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
67098470 CAATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:67101420 original size:13 final size:13
Alignment explanation
Indices: 67101404--67101436 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
67101394 TTTAATTAAA
*
67101404 TTAGTTAATTAGT
1 TTAGATAATTAGT
67101417 TTAGATAATTAGT
1 TTAGATAATTAGT
67101430 TTA-ATAA
1 TTAGATAA
67101437 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:67117232 original size:20 final size:20
Alignment explanation
Indices: 67117200--67117237 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
67117190 TGTTTCACAT
67117200 TCATATAACTAATATTTATG
1 TCATATAACTAATATTTATG
*
67117220 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
67117238 ACTTAATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATG
Found at i:67119443 original size:100 final size:100
Alignment explanation
Indices: 67119270--67119468 Score: 398
Period size: 100 Copynumber: 2.0 Consensus size: 100
67119260 TTTTAATATA
67119270 TATAATACATACATTCAACAAAAATCTTGATTTTTCTTCCATTTGCCCCCTCAATTTATGTAAAT
1 TATAATACATACATTCAACAAAAATCTTGATTTTTCTTCCATTTGCCCCCTCAATTTATGTAAAT
67119335 GGCTTAATTGCCATTTTGATCCTTTTTATTTTTTT
66 GGCTTAATTGCCATTTTGATCCTTTTTATTTTTTT
67119370 TATAATACATACATTCAACAAAAATCTTGATTTTTCTTCCATTTGCCCCCTCAATTTATGTAAAT
1 TATAATACATACATTCAACAAAAATCTTGATTTTTCTTCCATTTGCCCCCTCAATTTATGTAAAT
67119435 GGCTTAATTGCCATTTTGATCCTTTTTATTTTTT
66 GGCTTAATTGCCATTTTGATCCTTTTTATTTTTT
67119469 ATTACTTTAG
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.47
Consensus pattern (100 bp):
TATAATACATACATTCAACAAAAATCTTGATTTTTCTTCCATTTGCCCCCTCAATTTATGTAAAT
GGCTTAATTGCCATTTTGATCCTTTTTATTTTTTT
Found at i:67121377 original size:16 final size:16
Alignment explanation
Indices: 67121352--67121420 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
67121342 TTGGTTCGCT
*
67121352 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
67121368 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
67121384 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
67121400 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
67121416 GTAAT
1 GTAAT
67121421 AGGTAATTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:67121489 original size:44 final size:46
Alignment explanation
Indices: 67121400--67121490 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
67121390 GAATAGATGC
*
67121400 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
67121446 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
67121490 G
1 G
67121491 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:67121491 original size:39 final size:44
Alignment explanation
Indices: 67121400--67121506 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 44
67121390 GAATAGATGC
*
67121400 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
67121446 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
67121486 G-AATGGAATAGAGGTGTAATA
1 GTAATGGAATAGAGGCGTAATA
67121507 ACATAAGGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:67121659 original size:16 final size:15
Alignment explanation
Indices: 67121649--67121804 Score: 61
Period size: 17 Copynumber: 10.5 Consensus size: 15
67121639 CATAATTGTT
67121649 ATAAAATATAATTTA
1 ATAAAATATAATTTA
67121664 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
*
67121681 AT-AAAT-T-TTTTA
1 ATAAAATATAATTTA
67121693 AT-AAATAT--TCTT-
1 ATAAAATATAAT-TTA
* *
67121705 ATATAAAT-TTA-CTA
1 ATA-AAATATAATTTA
67121719 ATAAAATCATAATATATGA
1 ATAAAAT-ATAAT-T-T-A
67121738 TACTAAAATATAATTTA
1 -A-TAAAATATAATTTA
67121755 A-AATAAT-T-A-TT-
1 ATAA-AATATAATTTA
*
67121766 ATTAAATATAATTTA
1 ATAAAATATAATTTA
67121781 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
67121798 ATAAAAT
1 ATAAAAT
67121805 TGTTAATAAA
Statistics
Matches: 110, Mismatches: 6, Indels: 50
0.66 0.04 0.30
Matches are distributed among these distances:
11 4 0.04
12 17 0.15
13 12 0.11
14 14 0.13
15 13 0.12
16 9 0.08
17 25 0.23
18 2 0.02
19 2 0.02
20 6 0.05
21 6 0.05
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:67121811 original size:17 final size:17
Alignment explanation
Indices: 67121771--67121804 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
67121761 TTATTATTAA
67121771 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
67121788 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
67121805 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:67121840 original size:117 final size:117
Alignment explanation
Indices: 67121634--67122123 Score: 777
Period size: 117 Copynumber: 4.3 Consensus size: 117
67121624 TTAATCATAT
* * * * *
67121634 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAATTTTTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
* *
67121699 ATTCTTATATAAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
67121751 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
67121816 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
67121868 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
67121933 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
67121985 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
67122043 TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
67122095 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
67122124 TAATCTACTT
Statistics
Matches: 356, Mismatches: 14, Indels: 14
0.93 0.04 0.04
Matches are distributed among these distances:
108 21 0.06
109 26 0.07
110 13 0.04
111 19 0.05
114 1 0.00
115 2 0.01
117 255 0.72
118 19 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:67121903 original size:15 final size:15
Alignment explanation
Indices: 67121883--67121921 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
67121873 CATAATTGTT
67121883 ATAAAATATAATTTA
1 ATAAAATATAATTTA
67121898 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
67121915 ATAAAAT
1 ATAAAAT
67121922 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:67121928 original size:17 final size:17
Alignment explanation
Indices: 67121888--67121921 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
67121878 TTGTTATAAA
67121888 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
67121905 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
67121922 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:67121993 original size:20 final size:21
Alignment explanation
Indices: 67121954--67121993 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
67121944 AATTTACTAA
*
67121954 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
67121975 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
67121994 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:67122006 original size:26 final size:28
Alignment explanation
Indices: 67121961--67122040 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
67121951 TAATAAAATC
67121961 ATAATATATAATACTAAAATATAATTTAA-A
1 ATAATATATAAT--T-AAATATAATTTAATA
*
67121991 ATAAT-TATTATTAAATATAATTTAATA
1 ATAATATATAATTAAATATAATTTAATA
* *
67122018 ATAATATATAATTTAATAAAATT
1 ATAATATATAATTAAATATAATT
67122041 CTTATTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 14 0.32
29 5 0.11
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATATAATTAAATATAATTTAATA
Found at i:67122073 original size:44 final size:41
Alignment explanation
Indices: 67121738--67122073 Score: 137
Period size: 43 Copynumber: 8.3 Consensus size: 41
67121728 TAATATATGA
67121738 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * *
67121779 TAATAAAATATATAATTTAATAA-AATTGTTAATAAATAT--TCT
1 TACT-AAA-ATATAATTTAA-AATAATTATTATTAAATATAAT-T
* * * *
67121821 TA-T---AT-GAATTTACTAATAA-AATCA-TAATATATAA--
1 TACTAAAATATAATTTA-AAATAATTATTATTAA-ATATAATT
* * *
67121855 TACTAAAATATAATTTAACATAATTGTTATAAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * *
67121896 TAATAAAATATATAATTTAATAA-AATTGTTAATAAATAT--TCT
1 TACT-AAA-ATATAATTTAA-AATAATTATTATTAAATATAAT-T
* * * *
67121938 TA-T---AT-GAATTTACTAATAA-AATCA-TAATATATAA--
1 TACTAAAATATAATTTA-AAATAATTATTATTAA-ATATAATT
67121972 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * **
67122013 TAATAATAATATATAATTTAATAA-AATTCTTATTCTTATATGAATT
1 TACT-A-AA-ATATAATTTAA-AATAATTATTATT-AAATAT-AATT
67122059 TACTAAAATCATAAT
1 TACTAAAAT-ATAAT
67122074 ATATAATACT
Statistics
Matches: 219, Mismatches: 33, Indels: 83
0.65 0.10 0.25
Matches are distributed among these distances:
34 10 0.05
35 30 0.14
36 8 0.04
38 13 0.06
39 29 0.13
40 5 0.02
41 13 0.06
42 13 0.06
43 54 0.25
44 30 0.14
45 7 0.03
46 7 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (41 bp):
TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
Found at i:67122119 original size:32 final size:32
Alignment explanation
Indices: 67122083--67122146 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
67122073 TATATAATAC
*
67122083 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
67122115 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
67122147 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:67131555 original size:97 final size:98
Alignment explanation
Indices: 67131411--67131604 Score: 372
Period size: 97 Copynumber: 2.0 Consensus size: 98
67131401 TTTTAATATA
67131411 TATAATACATACATTCAACAAAAATCTTGATTTTTCTTCCATTTGCCCCCTCAATTTATGTAAAT
1 TATAATACATACATTCAACAAAAATCTTGATTTTTCTTCCATTTGCCCCCTCAATTTATGTAAAT
*
67131476 GGCTTAATTGTCATTTTGATCCTTTTTATTTTT
66 GGCTTAATTGCCATTTTGATCCTTTTTATTTTT
67131509 TATAATACATACATTCAAC-AAAATCTTGATTTTTCTTCCATTTGCCCCCTCAATTTATGTAAAT
1 TATAATACATACATTCAACAAAAATCTTGATTTTTCTTCCATTTGCCCCCTCAATTTATGTAAAT
67131573 GGCTTAATTGCCATTTTGATCCTTTTTATTTT
66 GGCTTAATTGCCATTTTGATCCTTTTTATTTT
67131605 CTATTACTTT
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
97 76 0.80
98 19 0.20
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.46
Consensus pattern (98 bp):
TATAATACATACATTCAACAAAAATCTTGATTTTTCTTCCATTTGCCCCCTCAATTTATGTAAAT
GGCTTAATTGCCATTTTGATCCTTTTTATTTTT
Found at i:67151122 original size:30 final size:30
Alignment explanation
Indices: 67151086--67151142 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
67151076 TAGGCACTTC
* * *
67151086 CACACGGGTAAACCACATGCTCGTGTGAGG
1 CACACGGGCAAACCACACGCCCGTGTGAGG
*
67151116 CACACGGGCAGACCACACGCCCGTGTG
1 CACACGGGCAAACCACACGCCCGTGTG
67151143 TCATGGCCGT
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:0.25, C:0.33, G:0.30, T:0.12
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTGTGAGG
Found at i:67159403 original size:26 final size:27
Alignment explanation
Indices: 67159374--67159424 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
67159364 ACTTGATTGA
*
67159374 ATTG-ATAATTTAGTTTTTTTATTTTT
1 ATTGTATAATGTAGTTTTTTTATTTTT
* *
67159400 ATTGTTTTATGTAGTTTTTTTATTT
1 ATTGTATAATGTAGTTTTTTTATTT
67159425 AATTAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (27 bp):
ATTGTATAATGTAGTTTTTTTATTTTT
Found at i:67172497 original size:16 final size:15
Alignment explanation
Indices: 67172472--67172501 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
67172462 GAGATTAAGT
67172472 TAATCATATTAATTG
1 TAATCATATTAATTG
67172487 TAATACATATTAATT
1 TAAT-CATATTAATT
67172502 ACATTTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TAATCATATTAATTG
Found at i:67172518 original size:17 final size:18
Alignment explanation
Indices: 67172491--67172528 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
67172481 TAATTGTAAT
67172491 ACATATTAATTACATTTA
1 ACATATTAATTACATTTA
67172509 ACAT-TTAATTACATTTA
1 ACATATTAATTACATTTA
67172526 ACA
1 ACA
67172529 GAGGATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (18 bp):
ACATATTAATTACATTTA
Found at i:67175232 original size:22 final size:21
Alignment explanation
Indices: 67175207--67175265 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 21
67175197 TAAATATTAA
67175207 AATTTTAAGTTTTTAAGTTTTT-
1 AATTTTAA-TTTTTAA-TTTTTC
67175229 AATTTTTAATTTTTAATTTTTC
1 AA-TTTTAATTTTTAATTTTTC
67175251 AATTTTTCAATTTTT
1 AA-TTTT-AATTTTT
67175266 TTGAAGAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.15
22 16 0.47
23 13 0.38
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (21 bp):
AATTTTAATTTTTAATTTTTC
Found at i:67175249 original size:7 final size:7
Alignment explanation
Indices: 67175209--67175265 Score: 78
Period size: 8 Copynumber: 7.6 Consensus size: 7
67175199 AATATTAAAA
67175209 TTTTAAGT
1 TTTTAA-T
67175217 TTTTAAGT
1 TTTTAA-T
67175225 TTTTAAT
1 TTTTAAT
67175232 TTTTAAT
1 TTTTAAT
67175239 TTTTAAT
1 TTTTAAT
67175246 TTTTCAAT
1 TTTT-AAT
67175254 TTTTCAAT
1 TTTT-AAT
67175262 TTTT
1 TTTT
67175266 TTGAAGAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.40
8 29 0.60
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (7 bp):
TTTTAAT
Found at i:67175254 original size:15 final size:14
Alignment explanation
Indices: 67175209--67175265 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 14
67175199 AATATTAAAA
67175209 TTTTAAGTTTTTAAGT
1 TTTTAA-TTTTTAA-T
67175225 TTTTAATTTTTAAT
1 TTTTAATTTTTAAT
67175239 TTTTAATTTTTCAAT
1 TTTTAATTTTT-AAT
67175254 TTTTCAATTTTT
1 TTTT-AATTTTT
67175266 TTGAAGAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.31
15 14 0.36
16 13 0.33
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (14 bp):
TTTTAATTTTTAAT
Found at i:67175266 original size:9 final size:8
Alignment explanation
Indices: 67175224--67175265 Score: 63
Period size: 7 Copynumber: 5.6 Consensus size: 8
67175214 AGTTTTTAAG
67175224 TTTTT-AA
1 TTTTTCAA
67175231 TTTTT-AA
1 TTTTTCAA
67175238 TTTTT-AA
1 TTTTTCAA
67175245 TTTTTCAA
1 TTTTTCAA
67175253 TTTTTCAA
1 TTTTTCAA
67175261 TTTTT
1 TTTTT
67175266 TTGAAGAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 19 0.56
8 15 0.44
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTCAA
Found at i:67175409 original size:25 final size:25
Alignment explanation
Indices: 67175381--67175444 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
67175371 TTTAAGTATA
*
67175381 AATATATCAATATATTTTTATATTG-
1 AATATATCAATATATTTATATA-TGC
* *
67175406 AATAAATCTAA-ATATTTATGTATGC
1 AATATATC-AATATATTTATATATGC
*
67175431 AATATATAAATATA
1 AATATATCAATATA
67175445 AAATGATGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 4 0.13
25 25 0.81
26 2 0.06
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (25 bp):
AATATATCAATATATTTATATATGC
Found at i:67175669 original size:22 final size:22
Alignment explanation
Indices: 67175644--67175686 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
67175634 TCTTACATAA
67175644 CCATAAAT-CATAAACCCTAAAC
1 CCAT-AATCCATAAACCCTAAAC
*
67175666 CCATAATCCATAAACCTTAAA
1 CCATAATCCATAAACCCTAAA
67175687 ATAATAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
CCATAATCCATAAACCCTAAAC
Found at i:67175862 original size:14 final size:14
Alignment explanation
Indices: 67175833--67175882 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
67175823 CTAATCTAAA
*
67175833 CCCTAAACTCTTAAT
1 CCCTAAAC-ATTAAT
67175848 CCCTAAACATTAAT
1 CCCTAAACATTAAT
*
67175862 CCCTAAAACATAAAT
1 CCCT-AAACATTAAT
67175877 -CCTAAA
1 CCCTAAA
67175883 TCATAAACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 3 0.09
14 12 0.38
15 17 0.53
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAAACATTAAT
Found at i:67175887 original size:14 final size:14
Alignment explanation
Indices: 67175845--67175894 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
67175835 CTAAACTCTT
*
67175845 AATCCCTAAACATT
1 AATCCCTAAACATA
67175859 AATCCCTAAAACATA
1 AATCCCT-AAACATA
67175874 AAT-CCTAAATCATA
1 AATCCCTAAA-CATA
*
67175888 AACCCCT
1 AATCCCT
67175895 CACCCTTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 3 0.10
14 16 0.52
15 12 0.39
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AATCCCTAAACATA
Found at i:67176362 original size:23 final size:22
Alignment explanation
Indices: 67176332--67176379 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
67176322 GTTTAAGATT
* *
67176332 TTTTAAGGTTTAGGAGTTTAGTG
1 TTTTAAGGATTA-GAGATTAGTG
*
67176355 TTTTAAGGATTATAGATTAGTG
1 TTTTAAGGATTAGAGATTAGTG
67176377 TTT
1 TTT
67176380 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (22 bp):
TTTTAAGGATTAGAGATTAGTG
Found at i:67176477 original size:41 final size:41
Alignment explanation
Indices: 67176420--67176784 Score: 525
Period size: 41 Copynumber: 8.9 Consensus size: 41
67176410 GTTATATGAC
* **
67176420 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
* *
67176461 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
* * * *
67176502 TTTTAACTGCGTTTTACCAAAAGCGCCGCTAATACTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
* * * *
67176543 TTCTAGCGGCGTTTTACCAAAAGTGCCGCTAATGTTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
* *
67176584 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTATTGCTTTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
*
67176625 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
*
67176666 TTTTAGCGACGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
**
67176707 TTTTAGCGGCGTTTTACCAAAAGCGCCATTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
* * *
67176747 TTTTAGCGGTGTTTTACCAAAAACGTCGCTATTGCTCT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT
67176785 ATGTTTTATA
Statistics
Matches: 292, Mismatches: 32, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 0.12
41 257 0.88
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
Found at i:67176831 original size:12 final size:12
Alignment explanation
Indices: 67176816--67176841 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
67176806 GTTTTTTTAT
67176816 AAAACGCCGCTA
1 AAAACGCCGCTA
67176828 AAAACGCCGCTA
1 AAAACGCCGCTA
67176840 AA
1 AA
67176842 GCCCTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:67180197 original size:20 final size:19
Alignment explanation
Indices: 67180156--67180198 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
67180146 TTATGTTTAA
* * *
67180156 AAAACATTTAAGATGATGG
1 AAAACATTAAAGATAATAG
67180175 AAAACATTAAAGATAAGTAG
1 AAAACATTAAAGATAA-TAG
67180195 AAAA
1 AAAA
67180199 AAATAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (19 bp):
AAAACATTAAAGATAATAG
Found at i:67182238 original size:6 final size:6
Alignment explanation
Indices: 67182223--67182253 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
67182213 GCACCAGAGC
*
67182223 AGGCAA AGGCAG AGGCAG AGGCAG AGGCAG A
1 AGGCAG AGGCAG AGGCAG AGGCAG AGGCAG A
67182254 CGAGAGTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.45, T:0.00
Consensus pattern (6 bp):
AGGCAG
Found at i:67183737 original size:33 final size:34
Alignment explanation
Indices: 67183699--67183769 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
67183689 AAATAAATAC
* *
67183699 AAATT-AAACCCAATATCCAAATATAATTT-GCAA
1 AAATTAAAACCCAAT-TCAAAATATAATTTAACAA
*
67183732 AAATTAAAACCCAATTCAAAATTTAATTTAACAA
1 AAATTAAAACCCAATTCAAAATATAATTTAACAA
67183766 AAAT
1 AAAT
67183770 AATTTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.28
Consensus pattern (34 bp):
AAATTAAAACCCAATTCAAAATATAATTTAACAA
Found at i:67188432 original size:6 final size:6
Alignment explanation
Indices: 67188423--67188447 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
67188413 TTATTTTTAT
67188423 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
67188448 AAAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Done.