Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 203 of 333
Found at i:66541246 original size:39 final size:39
Alignment explanation
Indices: 66541190--66541266 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
66541180 AGCCATGTCC
* *
66541190 TAAAACTTGTGTGAATTTAACATCTTAAATAAGCTTCAA
1 TAAAACTTGTATAAATTTAACATCTTAAATAAGCTTCAA
*
66541229 TAAAACTTGTATAAATTTAACATCTTGAATAAGCTTCA
1 TAAAACTTGTATAAATTTAACATCTTAAATAAGCTTCA
66541267 GCTTTCTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (39 bp):
TAAAACTTGTATAAATTTAACATCTTAAATAAGCTTCAA
Found at i:66544701 original size:15 final size:15
Alignment explanation
Indices: 66544681--66544738 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
66544671 ATTATAAAGT
*
66544681 TTAATTATTATTATG
1 TTAATTAATATTATG
*
66544696 TTAATTAATATTATA
1 TTAATTAATATTATG
* *
66544711 AT-ATTATTATTATG
1 TTAATTAATATTATG
66544725 TTAATTAATATTAT
1 TTAATTAATATTAT
66544739 AATGTAAATC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
14 11 0.31
15 24 0.69
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TTAATTAATATTATG
Found at i:66544721 original size:29 final size:29
Alignment explanation
Indices: 66544684--66544741 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
66544674 ATAAAGTTTA
66544684 ATTATTATTATGTTAATTAATATTATAAT
1 ATTATTATTATGTTAATTAATATTATAAT
66544713 ATTATTATTATGTTAATTAATATTATAAT
1 ATTATTATTATGTTAATTAATATTATAAT
66544742 GTAAATCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (29 bp):
ATTATTATTATGTTAATTAATATTATAAT
Found at i:66547098 original size:33 final size:33
Alignment explanation
Indices: 66547053--66547326 Score: 112
Period size: 33 Copynumber: 8.2 Consensus size: 33
66547043 TTATCTGTAG
66547053 GACCATAGTTGGGCTATGGCATTCTAATGATAA
1 GACCATAGTTGGGCTATGGCATTCTAATGATAA
* * *
66547086 GACCATAATTGGGTTATGG-A-ACT-ATGGACGTAA
1 GACCATAGTTGGGCTATGGCATTCTAAT-GA--TAA
* * * * *
66547119 GACCATGGTTGGACCATGGTAGTGTTTATATG-TAA
1 GACCATAGTTGGGCTATGGCA-T-TCTA-ATGATAA
* * *
66547154 GACCATAGCTGGGTTATGGCATTCTGATGATAA
1 GACCATAGTTGGGCTATGGCATTCTAATGATAA
** * * * * *
66547187 GACCATAACTGAGTTATGACACTCTGGATG-TAA
1 GACCATAGTTGGGCTATGGCATTCT-AATGATAA
* * * * * *
66547220 GACAATGGTTGGACCATGTCAGTGTTTATAT-ATAA
1 GACCATAGTTGGGCTATGGCA-T-TCTA-ATGATAA
* * * *
66547255 TACCATAGTTGGGCTATGACATTATGATGATAA
1 GACCATAGTTGGGCTATGGCATTCTAATGATAA
* * * *
66547288 GACCATAATTGGGTTATGGCACTACGAATG-TAA
1 GACCATAGTTGGGCTATGGCA-TTCTAATGATAA
66547321 GACCAT
1 GACCAT
66547327 GGCAGGGCTA
Statistics
Matches: 174, Mismatches: 50, Indels: 34
0.67 0.19 0.13
Matches are distributed among these distances:
30 2 0.01
31 4 0.02
32 6 0.03
33 107 0.61
34 11 0.06
35 40 0.23
37 1 0.01
38 1 0.01
39 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (33 bp):
GACCATAGTTGGGCTATGGCATTCTAATGATAA
Found at i:66547190 original size:101 final size:101
Alignment explanation
Indices: 66547015--66547328 Score: 425
Period size: 101 Copynumber: 3.1 Consensus size: 101
66547005 AATTGACGGA
** * * *
66547015 TAAGACCATGGTTGGACCATGACAGTGTTTATCTGTAGGACCATAGTTGGGCTATGGCATTCTAA
1 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGA
*
66547080 TGATAAGACCATAATTGGGTTATGGAACTATGGACG
66 TGATAAGACCATAATTGGGTTATGGAACTATGGATG
* *
66547116 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTCTGA
1 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGA
* * *
66547181 TGATAAGACCATAACTGAGTTAT-GACACTCTGGATG
66 TGATAAGACCATAATTGGGTTATGGA-ACTATGGATG
* * * * *
66547217 TAAGACAATGGTTGGACCAT-GTCAGTGTTTATATATAATACCATAGTTGGGCTATGACATTATG
1 TAAGACCATGGTTGGACCATGGT-AGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTG
* * *
66547281 ATGATAAGACCATAATTGGGTTATGGCACTACGAATG
65 ATGATAAGACCATAATTGGGTTATGGAACTATGGATG
66547318 TAAGACCATGG
1 TAAGACCATGG
66547329 CAGGGCTAAT
Statistics
Matches: 185, Mismatches: 25, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
100 4 0.02
101 180 0.97
102 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGA
TGATAAGACCATAATTGGGTTATGGAACTATGGATG
Found at i:66549314 original size:49 final size:48
Alignment explanation
Indices: 66549252--66549382 Score: 136
Period size: 49 Copynumber: 2.7 Consensus size: 48
66549242 TGTTGTGTGT
* *
66549252 CAGTGTAAGACCTGTCTGGAACATGGCATCGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGAACATGGCATCGAC-CCGATAGATAAAAGC
* * * * * * * *
66549301 CAGTTTAAGACCTGTTTGGGACACGGCATCAGGCTCGATATATAAAAGT
1 CAGTGTAAGACCTGTCTGGAACATGGCATC-GACCCGATAGATAAAAGC
* *
66549350 TAGTGTAAGACCTGTCTAGAACATGGCATCGAC
1 CAGTGTAAGACCTGTCTGGAACATGGCATCGAC
66549383 TTTAATGTGC
Statistics
Matches: 64, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
48 2 0.03
49 60 0.94
50 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGAACATGGCATCGACCCGATAGATAAAAGC
Found at i:66556286 original size:34 final size:34
Alignment explanation
Indices: 66556248--66556314 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
66556238 GTATGCATAT
66556248 TGAATCTG-AGATGGGCTAAGGCCTAAACTGCATC
1 TGAATCTGTA-ATGGGCTAAGGCCTAAACTGCATC
* * *
66556282 TGAATTTGTAATGGGCTTAGGCCTAGACTGCAT
1 TGAATCTGTAATGGGCTAAGGCCTAAACTGCAT
66556315 TTGACCGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (34 bp):
TGAATCTGTAATGGGCTAAGGCCTAAACTGCATC
Found at i:66558441 original size:22 final size:22
Alignment explanation
Indices: 66558416--66558481 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 22
66558406 TATTTTATAA
66558416 TATTTTTTAAAATTTTAAATAT
1 TATTTTTTAAAATTTTAAATAT
*
66558438 TA-TTTTTGAAATTTTAAATA-
1 TATTTTTTAAAATTTTAAATAT
* *
66558458 TATTTTTTAATAATATAAAATAT
1 TATTTTTTAA-AATTTTAAATAT
66558481 T
1 T
66558482 TAAATATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.05
21 23 0.62
22 11 0.30
23 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTTTTTAAAATTTTAAATAT
Found at i:66558449 original size:21 final size:20
Alignment explanation
Indices: 66558407--66558464 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
66558397 TATTTGAAAT
66558407 ATTTTATAATAT-TTTTTAAA
1 ATTTTA-AATATATTTTTAAA
*
66558427 ATTTTAAATATTATTTTTGAA
1 ATTTTAAATA-TATTTTTAAA
66558448 ATTTTAAATATATTTTT
1 ATTTTAAATATATTTTT
66558465 TAATAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 4 0.11
20 14 0.40
21 17 0.49
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTAAATATATTTTTAAA
Found at i:66558476 original size:21 final size:20
Alignment explanation
Indices: 66558415--66558482 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 20
66558405 ATATTTTATA
66558415 ATATTTTTTAAAATTTTAAAT
1 ATATTTTTTAAAA-TTTAAAT
* *
66558436 ATTATTTTTGAAATTTTAAAT
1 A-TATTTTTTAAAATTTAAAT
*
66558457 ATATTTTTTAATAATATAAA-
1 ATATTTTTTAA-AATTTAAAT
66558477 ATATTT
1 ATATTT
66558483 AAATATTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 15 0.38
21 15 0.38
22 10 0.25
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (20 bp):
ATATTTTTTAAAATTTAAAT
Found at i:66558562 original size:21 final size:19
Alignment explanation
Indices: 66558530--66558576 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
66558520 AGTTTTATAA
66558530 TATTTTTAATATTTTTAATT
1 TATTTTTAATATTTTT-ATT
*
66558550 TGTTTTATAATATTTTTATT
1 TATTTT-TAATATTTTTATT
66558570 TATTTTT
1 TATTTTT
66558577 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.54
21 10 0.42
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (19 bp):
TATTTTTAATATTTTTATT
Found at i:66558562 original size:104 final size:103
Alignment explanation
Indices: 66558449--66558639 Score: 271
Period size: 104 Copynumber: 1.8 Consensus size: 103
66558439 ATTTTTGAAA
*
66558449 TTTTAAATATATTT-TTTA-ATAATATAAAATAT-TTAAATATTTTAAAGATATGACCTTTCAAA
1 TTTTAAATATATTTATTTATATAATAAAAAATATATT--AT-TTTTAAAGATATGACCTTTCAAA
66558511 TTTATTATTAGTTTTATAATATTTTTAATATTTTTAATTTG
63 TTTATTATTAGTTTTATAATATTTTTAATATTTTTAATTTG
* * **
66558552 TTTTATAATATTTTTATTTATTTTTTAAAAAATATATTATTTTTAAAGATATGACCTTTCAAATT
1 TTTTA-AATATATTTATTTATATAATAAAAAATATATTATTTTTAAAGATATGACCTTTCAAATT
*
66558617 TATTATTTGTTTTATAATATTTT
65 TATTATTAGTTTTATAATATTTT
66558640 AAATGTATAT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
103 5 0.06
104 55 0.71
105 6 0.08
106 10 0.13
107 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.57
Consensus pattern (103 bp):
TTTTAAATATATTTATTTATATAATAAAAAATATATTATTTTTAAAGATATGACCTTTCAAATTT
ATTATTAGTTTTATAATATTTTTAATATTTTTAATTTG
Found at i:66558670 original size:31 final size:27
Alignment explanation
Indices: 66558626--66558759 Score: 90
Period size: 31 Copynumber: 4.4 Consensus size: 27
66558616 TTATTATTTG
66558626 TTTTATAATATTTTAAATGTATATTTTAAATA
1 TTTTA-AA-ATTTTAAAT-TA-ATTTTAAA-A
66558658 TTTCTAAAATTTTAAATATAATTTTTATAAA
1 TTT-TAAAATTTTAAAT-TAA-TTTTA-AAA
*
66558689 TTATT-AATTTTTAAATTAATTTTAAATA
1 TT-TTAAAATTTTAAATTAATTTTAAA-A
*
66558717 TATTCAAACATTTTTTAAAATTAAATTTTAAAA
1 T-TTTAAA-A--TTTT-AAATT-AATTTTAAAA
66558750 TTTTAAAATT
1 TTTTAAAATT
66558760 AATATTTTAT
Statistics
Matches: 85, Mismatches: 5, Indels: 27
0.73 0.04 0.23
Matches are distributed among these distances:
27 2 0.02
28 8 0.09
29 8 0.09
30 11 0.13
31 21 0.25
32 17 0.20
33 9 0.11
34 9 0.11
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (27 bp):
TTTTAAAATTTTAAATTAATTTTAAAA
Found at i:66558682 original size:12 final size:13
Alignment explanation
Indices: 66558667--66558718 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 13
66558657 ATTTCTAAAA
66558667 TTTTAAATATAATT
1 TTTTAAATATAA-T
66558681 TTTATAAATTATTAAT
1 TTT-TAAA-TA-TAAT
66558697 TTTTAAAT-TAA-
1 TTTTAAATATAAT
66558708 TTTTAAATATA
1 TTTTAAATATA
66558719 TTCAAACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 8 0.24
12 5 0.15
14 4 0.12
15 8 0.24
16 6 0.18
17 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAAATATAAT
Found at i:66558694 original size:104 final size:105
Alignment explanation
Indices: 66558474--66558703 Score: 276
Period size: 104 Copynumber: 2.2 Consensus size: 105
66558464 TTAATAATAT
*
66558474 AAAATAT-TTAAATATTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTTA
1 AAAATATATT-AAT-TTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAA
* * * * *
66558538 ATATTTTTAATTTGTTTTATAATATTTTTATTTATTTTTTAA
64 ATATTTTTAATATGTTCTATAATATTTTAATATAATTTTTAA
*
66558580 AAAATATATT-ATTTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAAT
1 AAAATATATTAATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAA-
66558644 GTATATTTTAAATAT-TTCTA-AA-ATTTTAAATATAATTTTT-A
65 -TAT-TTTT-AATATGTTCTATAATATTTT-AATATAATTTTTAA
*
66558685 TAAAT-TATTAATTTTTAAA
1 AAAATATATTAATTTTTAAA
66558704 TTAATTTTAA
Statistics
Matches: 109, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
104 53 0.49
105 21 0.19
106 21 0.19
107 10 0.09
108 4 0.04
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (105 bp):
AAAATATATTAATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAAT
ATTTTTAATATGTTCTATAATATTTTAATATAATTTTTAA
Found at i:66564809 original size:30 final size:30
Alignment explanation
Indices: 66564775--66564846 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
66564765 CTATGTATGG
* * *
66564775 GTGATATGAATTTGAACCGCCCATGTCTGA
1 GTGATATGAACTTGAACCGCCAATGTCCGA
* *
66564805 GTGATATGAACTTGAACCGCTAATGTCCGG
1 GTGATATGAACTTGAACCGCCAATGTCCGA
66564835 GTGATATGAACT
1 GTGATATGAACT
66564847 GCTCTGTGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (30 bp):
GTGATATGAACTTGAACCGCCAATGTCCGA
Found at i:66567322 original size:24 final size:26
Alignment explanation
Indices: 66567294--66567354 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 26
66567284 ATAACTATAA
66567294 AATAAA-AA-AATACAAAATAAAATT
1 AATAAATAATAATACAAAATAAAATT
66567318 AATAAATAACTTAATACAAAATAAAATT
1 AATAAATAA--TAATACAAAATAAAATT
66567346 AATAAATAA
1 AATAAATAA
66567355 CTTACTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 6 0.18
25 2 0.06
28 25 0.76
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (26 bp):
AATAAATAATAATACAAAATAAAATT
Found at i:66567324 original size:13 final size:13
Alignment explanation
Indices: 66567308--66567354 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
66567298 AAAAAATACA
66567308 AAATAAAATTAAT
1 AAATAAAATTAAT
*
66567321 AAAT-AACTTAAT
1 AAATAAAATTAAT
66567333 ACAAAATAAAATTAAT
1 ---AAATAAAATTAAT
66567349 AAATAA
1 AAATAA
66567355 CTTACTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 7 0.25
13 10 0.36
15 4 0.14
16 7 0.25
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAAAATTAAT
Found at i:66567333 original size:28 final size:28
Alignment explanation
Indices: 66567302--66567358 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
66567292 AAAATAAAAA
66567302 AATACAAAATAAAATTAATAAATAACTT
1 AATACAAAATAAAATTAATAAATAACTT
66567330 AATACAAAATAAAATTAATAAATAACTT
1 AATACAAAATAAAATTAATAAATAACTT
66567358 A
1 A
66567359 CTCTTTTTTT
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:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (28 bp):
AATACAAAATAAAATTAATAAATAACTT
Found at i:66567341 original size:54 final size:54
Alignment explanation
Indices: 66567236--66567341 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 54
66567226 TAATATCTGC
* * * * *
66567236 ATAATATAAAAAAAACATAAATAAAATATAATTAATTATTATATTATAATAACT
1 ATAAAATAAAAAAAACATAAATAAAATATAATAAATAATTATATCAAAATAACT
66567290 ATAAAATAAAAAAATACA-AAATAAAAT-TAATAAATAACTTA-ATACAAAATAA
1 ATAAAATAAAAAAA-ACATAAATAAAATATAATAAATAA-TTATAT-CAAAATAA
66567342 AATTAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
53 10 0.23
54 31 0.70
55 3 0.07
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (54 bp):
ATAAAATAAAAAAAACATAAATAAAATATAATAAATAATTATATCAAAATAACT
Found at i:66567349 original size:16 final size:16
Alignment explanation
Indices: 66567292--66567349 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 16
66567282 TAATAACTAT
*
66567292 AAAATAAAA-AAATAC
1 AAAATAAAATTAATAC
66567307 AAAATAAAATTAAT--
1 AAAATAAAATTAATAC
*
66567321 -AAAT-AACTTAATAC
1 AAAATAAAATTAATAC
66567335 AAAATAAAATTAATA
1 AAAATAAAATTAATA
66567350 AATAACTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
12 7 0.20
13 4 0.11
15 13 0.37
16 11 0.31
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAAAATTAATAC
Found at i:66567533 original size:21 final size:21
Alignment explanation
Indices: 66567500--66567555 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
66567490 TGACCAGTTA
66567500 TTAATATATATTTTTAATTTT
1 TTAATATATATTTTTAATTTT
* * *
66567521 TTAATTTAAATTTTTACTTTT
1 TTAATATATATTTTTAATTTT
66567542 TTAATATATATTTT
1 TTAATATATATTTT
66567556 AAATAAATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTAATATATATTTTTAATTTT
Found at i:66568497 original size:18 final size:18
Alignment explanation
Indices: 66568471--66568531 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
66568461 AATATCATTT
*
66568471 AGTAACAATCAATTTTTC
1 AGTAACAATCAATTATTC
* *
66568489 AGTAGCAATCAGTTATTC
1 AGTAACAATCAATTATTC
*
66568507 AGTAAAAATCAATTATTC
1 AGTAACAATCAATTATTC
66568525 AGTAACA
1 AGTAACA
66568532 GTTAGTCGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (18 bp):
AGTAACAATCAATTATTC
Found at i:66569878 original size:17 final size:17
Alignment explanation
Indices: 66569856--66569894 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
66569846 AAAATCCTTA
66569856 TTTCTCCCTTTT-CTTTC
1 TTTCT-CCTTTTCCTTTC
*
66569873 TTTCTCTTTTTCCTTTC
1 TTTCTCCTTTTCCTTTC
66569890 TTTCT
1 TTTCT
66569895 TTCTTCCCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTCCTTTTCCTTTC
Found at i:66570129 original size:18 final size:19
Alignment explanation
Indices: 66570108--66570143 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
66570098 TTCCTTTTGC
66570108 TTTCCC-CAAAACTTTTAT
1 TTTCCCTCAAAACTTTTAT
66570126 TTTCCCTCAAAACTTTTA
1 TTTCCCTCAAAACTTTTA
66570144 CTTCCTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTCCCTCAAAACTTTTAT
Found at i:66570148 original size:18 final size:19
Alignment explanation
Indices: 66570109--66570154 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
66570099 TCCTTTTGCT
*
66570109 TTCCC-CAAAACTTTTATT
1 TTCCCTCAAAACTTTTATC
66570127 TTCCCTCAAAACTTTTA-C
1 TTCCCTCAAAACTTTTATC
*
66570145 TTCCTTCAAA
1 TTCCCTCAAA
66570155 TCTCTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCCCTCAAAACTTTTATC
Found at i:66573712 original size:13 final size:13
Alignment explanation
Indices: 66573694--66573746 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
66573684 CTTAAACCAA
*
66573694 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
66573707 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
*
66573720 ACCTTTCAAAAGC
1 ACTTTTCAAAAGC
*
66573733 AATTTTCAAAAGC
1 ACTTTTCAAAAGC
66573746 A
1 A
66573747 TTGCTAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 4 0.12
13 23 0.72
14 5 0.16
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:66575271 original size:7 final size:6
Alignment explanation
Indices: 66575230--66575270 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
66575220 ATAATTTAAT
*
66575230 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
66575271 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:66575271 original size:20 final size:20
Alignment explanation
Indices: 66575233--66575272 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
66575223 ATTTAATAAA
**
66575233 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
66575253 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
66575273 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:66575304 original size:9 final size:9
Alignment explanation
Indices: 66575290--66575358 Score: 86
Period size: 9 Copynumber: 7.7 Consensus size: 9
66575280 TTTAGACAAA
66575290 TAATTTGGT
1 TAATTTGGT
*
66575299 TAATTTGAT
1 TAATTTGGT
*
66575308 TAATTTGGG
1 TAATTTGGT
66575317 TAATTTGAG-
1 TAATTTG-GT
*
66575326 TAATTCGGT
1 TAATTTGGT
*
66575335 TAATTTGAT
1 TAATTTGGT
66575344 TAATTTGGT
1 TAATTTGGT
66575353 TAATTT
1 TAATTT
66575359 TATACTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
8 1 0.02
9 49 0.96
10 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.19, T:0.52
Consensus pattern (9 bp):
TAATTTGGT
Found at i:66575313 original size:18 final size:18
Alignment explanation
Indices: 66575290--66575358 Score: 111
Period size: 18 Copynumber: 3.8 Consensus size: 18
66575280 TTTAGACAAA
66575290 TAATTTGGTTAATTTGAT
1 TAATTTGGTTAATTTGAT
* *
66575308 TAATTTGGGTAATTTGAG
1 TAATTTGGTTAATTTGAT
*
66575326 TAATTCGGTTAATTTGAT
1 TAATTTGGTTAATTTGAT
66575344 TAATTTGGTTAATTT
1 TAATTTGGTTAATTT
66575359 TATACTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.28, C:0.01, G:0.19, T:0.52
Consensus pattern (18 bp):
TAATTTGGTTAATTTGAT
Found at i:66579711 original size:26 final size:26
Alignment explanation
Indices: 66579682--66579788 Score: 162
Period size: 26 Copynumber: 4.1 Consensus size: 26
66579672 TGGTACAAAT
66579682 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
66579708 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
66579734 TGATAATGGGTTAGGTAACTGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
66579760 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
66579786 TGA
1 TGA
66579789 CGGGCATTTC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
26 72 0.97
27 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:66581407 original size:27 final size:26
Alignment explanation
Indices: 66581387--66581482 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 26
66581377 CTGGTGTTTA
66581387 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGATCTGGTGGCTC
*
66581414 TGCCACACATATCTGTTCTGGTGGCTC
1 TGCCACA-ATATCTGATCTGGTGGCTC
* *
66581441 TGCCACAATATCTGTATCTGGTGACTT
1 TGCCACAATATCTG-ATCTGGTGGCTC
*
66581468 TGTCACAATATCTGA
1 TGCCACAATATCTGA
66581483 CAGTCTCACT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.13
27 53 0.85
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (26 bp):
TGCCACAATATCTGATCTGGTGGCTC
Found at i:66586738 original size:26 final size:26
Alignment explanation
Indices: 66586709--66586816 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
66586699 TGGTACAAAT
66586709 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
66586735 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
66586761 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
66586787 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66586813 TGAT
1 TGAT
66586817 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:66588470 original size:42 final size:42
Alignment explanation
Indices: 66588411--66588496 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
66588401 GTCCTGGTGG
*
66588411 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT
1 CTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATAT
*
66588453 CTATGCCACAATTATCTGATTTGGTGGCTCTGCAACATATAT
1 CTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATAT
66588495 CT
1 CT
66588497 GTTCTGGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (42 bp):
CTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATAT
Found at i:66588495 original size:27 final size:26
Alignment explanation
Indices: 66588460--66588550 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 26
66588450 TATCTATGCC
66588460 ACAATTATCTGATTTGGTGGCTCTGCA
1 ACAA-TATCTGATTTGGTGGCTCTGCA
* *
66588487 ACATATATCTG-TTCTGGTGGCTTTGCC
1 ACA-ATATCTGATT-TGGTGGCTCTGCA
* * *
66588514 ACAATATCTGTATCTGGTGACTTTGTC-
1 ACAATATCTG-ATTTGGTGGCTCTG-CA
66588541 ACAATATCTG
1 ACAATATCTG
66588551 GCAGCCTCGC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
26 9 0.16
27 43 0.78
28 3 0.05
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
ACAATATCTGATTTGGTGGCTCTGCA
Found at i:66606009 original size:49 final size:50
Alignment explanation
Indices: 66605927--66606172 Score: 289
Period size: 49 Copynumber: 4.9 Consensus size: 50
66605917 AGCTATTGTG
* *
66605927 AGGTCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ** *
66605977 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * * **
66606027 CGATCACGTGTGTAGCACTAAGTACAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
**
66606077 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
66606127 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
66606173 GCTTTAGCTA
Statistics
Matches: 162, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 81 0.50
50 46 0.28
51 35 0.22
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:66608611 original size:40 final size:41
Alignment explanation
Indices: 66608556--66608721 Score: 241
Period size: 40 Copynumber: 4.1 Consensus size: 41
66608546 AAACCAAGTA
* *
66608556 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTAGCACAAATG
* *
66608596 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTAGCACAAATG
* *
66608636 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTAGCACAAATG
*
66608676 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTAGCACAAATG
66608716 CCTTCG
1 CCTTCG
66608722 TTATCATCCG
Statistics
Matches: 120, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
39 3 0.03
40 115 0.96
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATTAGTAACTAGCACAAATG
Found at i:66620182 original size:3 final size:3
Alignment explanation
Indices: 66620174--66620218 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
66620164 TACTGCCATG
*
66620174 GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA G-A GGA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
66620219 GGGCGGCGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:66620201 original size:14 final size:14
Alignment explanation
Indices: 66620174--66620218 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
66620164 TACTGCCATG
66620174 GAAGAAGAAGAAGAA
1 GAAGAAG-AGAAGAA
66620189 GAAGAAGAGAAGAA
1 GAAGAAGAGAAGAA
*
66620203 GAAGAGGAGAAGAA
1 GAAGAAGAGAAGAA
66620217 GA
1 GA
66620219 GGGCGGCGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 22 0.76
15 7 0.24
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (14 bp):
GAAGAAGAGAAGAA
Found at i:66620220 original size:11 final size:11
Alignment explanation
Indices: 66620174--66620219 Score: 74
Period size: 11 Copynumber: 4.1 Consensus size: 11
66620164 TACTGCCATG
66620174 GAAGAAGAAGAA
1 GAAGAAGAAG-A
66620186 GAAGAAGAAGA
1 GAAGAAGAAGA
66620197 GAAGAAGAAGA
1 GAAGAAGAAGA
*
66620208 GGAGAAGAAGA
1 GAAGAAGAAGA
66620219 G
1 G
66620220 GGCGGCGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 23 0.70
12 10 0.30
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (11 bp):
GAAGAAGAAGA
Found at i:66620254 original size:24 final size:25
Alignment explanation
Indices: 66620227--66620274 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
66620217 GAGGGCGGCG
*
66620227 AAAAAGGAA-AGAAAGA-AAGAAAA
1 AAAAAAGAAGAGAAAGAGAAGAAAA
*
66620250 AAAAAAGAAGAGAGAGAGAAGAAAA
1 AAAAAAGAAGAGAAAGAGAAGAAAA
66620275 GAGAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 6 0.29
25 7 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (25 bp):
AAAAAAGAAGAGAAAGAGAAGAAAA
Found at i:66620769 original size:30 final size:31
Alignment explanation
Indices: 66620709--66620768 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
66620699 TTGTATGTAT
*
66620709 TGTTATTTTAAAAGTCGGTATAATTTTTTTA
1 TGTTATTTTAAAAGTCGATATAATTTTTTTA
*
66620740 TGTTATTTTAAAAGTTGATATAATTTTTT
1 TGTTATTTTAAAAGTCGATATAATTTTTT
66620769 AACTCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.57
Consensus pattern (31 bp):
TGTTATTTTAAAAGTCGATATAATTTTTTTA
Found at i:66621127 original size:20 final size:20
Alignment explanation
Indices: 66621112--66621148 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66621102 TAATAATAAT
66621112 AAATTAAATTTTATAACAAA
1 AAATTAAATTTTATAACAAA
*
66621132 AAATTACATTTT-TAACA
1 AAATTAAATTTTATAACA
66621149 CTTTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTAAATTTTATAACAAA
Found at i:66630644 original size:42 final size:42
Alignment explanation
Indices: 66630575--66630719 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
66630565 CAATGTCATG
* * ** *
66630575 TCCCAGACATGGTCTTACAAGGGATCTCATATCGATGCCATA
1 TCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATA
* * * *
66630617 TCCCAGAAATGGTCTTATACGAAATCTCATTTAGATGCCATG
1 TCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATA
* * *
66630659 TCCTAGATGTGGTCTTACACGAAATCTCATATTA-ACGCCATA
1 TCCCAGATATGGTCTTACACGAAATCTCATA-TAGATGCCATA
66630701 TCCCAGATATGGTCTTACA
1 TCCCAGATATGGTCTTACA
66630720 TGATAACACA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 83 0.98
43 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
TCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATA
Found at i:66651697 original size:20 final size:20
Alignment explanation
Indices: 66651672--66651717 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
66651662 TTCCCTTATT
66651672 AGATTTGACTCTAATCTGCC
1 AGATTTGACTCTAATCTGCC
66651692 AGATTTGACTCTAATCTGCC
1 AGATTTGACTCTAATCTGCC
66651712 AGATTT
1 AGATTT
66651718 ATGTTGTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (20 bp):
AGATTTGACTCTAATCTGCC
Found at i:66653971 original size:41 final size:41
Alignment explanation
Indices: 66653905--66654104 Score: 177
Period size: 41 Copynumber: 4.9 Consensus size: 41
66653895 AAACACCGCA
* * * * *
66653905 AAAAACTAAACAATAACGGCATTTTTGGCCCAAACGCCATT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
* * * **
66653946 AAAAACTGATCGATAGCAGCGTTTTTTAGCTAAAACGCCACT
1 AAAAACTGATCAATAGCGGCG-TTTTTGGCCCAAACGCCACT
* *****
66653988 AAAAACTGATCAATAGCGGCATTTTTATATAAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
* * ** *
66654029 AAAAACTAAGCAATAGTTGCGTTTTTGGTCCAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
* *
66654070 -AAAATTGATCAATAGCGGCGTTTTTGGTCCAAACG
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACG
66654105 TCGCAAAAAA
Statistics
Matches: 128, Mismatches: 30, Indels: 3
0.80 0.19 0.02
Matches are distributed among these distances:
40 30 0.23
41 64 0.50
42 34 0.27
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (41 bp):
AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
Found at i:66653982 original size:42 final size:41
Alignment explanation
Indices: 66653936--66654044 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 41
66653926 TTTTTGGCCC
* * *
66653936 AAACGCCATTAAAAACTGATCGATAGCAGCGTTTTT-TAGCTA
1 AAACGCCACTAAAAACTGATCAATAGCAGCATTTTTATA--TA
*
66653978 AAACGCCACTAAAAACTGATCAATAGCGGCATTTTTATATA
1 AAACGCCACTAAAAACTGATCAATAGCAGCATTTTTATATA
* *
66654019 AAACGCCACTAAAAACTAAGCAATAG
1 AAACGCCACTAAAAACTGATCAATAG
66654045 TTGCGTTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 26 0.43
42 32 0.53
43 2 0.03
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGATCAATAGCAGCATTTTTATATA
Found at i:66654033 original size:83 final size:81
Alignment explanation
Indices: 66653936--66654094 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 81
66653926 TTTTTGGCCC
* * * *
66653936 AAACGCCATTAAAAACTGATCGATAGCAGCGTTTTTTAGCT-AAAACGCCACTAAAAACTGATCA
1 AAACGCCACTAAAAACTAAGCAATAGCAGCG-TTTTT-GCTCAAAACGCCACT-AAAACTGATCA
66654000 ATAGCGGCATTTTTATATA
63 ATAGCGGCATTTTTATATA
** * * *
66654019 AAACGCCACTAAAAACTAAGCAATAGTTGCGTTTTTGGTCCAAACGCCACTAAAATTGATCAATA
1 AAACGCCACTAAAAACTAAGCAATAGCAGCGTTTTTGCTCAAAACGCCACTAAAACTGATCAATA
*
66654084 GCGGCGTTTTT
66 GCGGCATTTTT
66654095 GGTCCAAACG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
81 25 0.38
82 15 0.23
83 25 0.38
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (81 bp):
AAACGCCACTAAAAACTAAGCAATAGCAGCGTTTTTGCTCAAAACGCCACTAAAACTGATCAATA
GCGGCATTTTTATATA
Found at i:66654458 original size:14 final size:14
Alignment explanation
Indices: 66654433--66654480 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
66654423 ATGGCTTTCT
66654433 CTAAACCCTTAAATC
1 CTAAA-CCTTAAATC
66654448 CTAAACCTTAAA-C
1 CTAAACCTTAAATC
* *
66654461 CTTAAACCCTAAATT
1 C-TAAACCTTAAATC
66654476 CTAAA
1 CTAAA
66654481 AACATAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 2 0.07
14 21 0.72
15 6 0.21
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (14 bp):
CTAAACCTTAAATC
Found at i:66654488 original size:29 final size:28
Alignment explanation
Indices: 66654433--66654527 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 28
66654423 ATGGCTTTCT
* *
66654433 CTAAACCCTTAAATCCTAAACCTTAAACC
1 CTAAACCC-TAAATCCTAAAACATAAACC
* *
66654462 TTAAACCCTAAATTCTAAAAACATAAACC
1 CTAAACCCTAAATCCT-AAAACATAAACC
* *
66654491 CTAAACACT-AATCC-ATAAACTCTAAAACC
1 CTAAACCCTAAATCCTA-AAAC-AT-AAACC
66654520 CTAAACCC
1 CTAAACCC
66654528 CCCAAAAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 4 0.08
28 12 0.23
29 36 0.68
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (28 bp):
CTAAACCCTAAATCCTAAAACATAAACC
Found at i:66654746 original size:34 final size:35
Alignment explanation
Indices: 66654672--66654751 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 35
66654662 GTTTAAAGCC
* *
66654672 TATGGTTTAGGGTTCAATGGTAGTATATATTTTAAGTT
1 TATGGTTTAGGGCTCAATGGTAG---ATATGTTAAGTT
66654710 TATGGTTTAGGGCTCAATGGTAG-TATGTTAAGTT
1 TATGGTTTAGGGCTCAATGGTAGATATGTTAAGTT
66654744 TATGGTTT
1 TATGGTTT
66654752 GGGTCGGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 18 0.45
38 22 0.55
ACGTcount: A:0.24, C:0.04, G:0.26, T:0.46
Consensus pattern (35 bp):
TATGGTTTAGGGCTCAATGGTAGATATGTTAAGTT
Found at i:66655933 original size:82 final size:82
Alignment explanation
Indices: 66655822--66655985 Score: 215
Period size: 82 Copynumber: 2.0 Consensus size: 82
66655812 CTCCAGCGAC
*
66655822 ATTAGCGGCGCTTTTTTGAAAAACACCACTAAAGATCGAGAGTTAGCGGCGC-TTTTGTAAAAAT
1 ATTAGCGGCGCTTTTTTGAAAAACACCACTAAAGATCGAGAGTTAGCGGCACTTTTTGTAAAAAT
* *
66655886 GCCGGAAAAGATCGAGA
66 ACCGCAAAAGATCGAGA
** * * *
66655903 ATTAGCGGCAG-TTTTTTCGAAAAATGCCACTAAAGTTCGAGATTTAGCGGCACTTTTTTTAAAA
1 ATTAGCGGC-GCTTTTTT-GAAAAACACCACTAAAGATCGAGAGTTAGCGGCACTTTTTGTAAAA
*
66655967 ATACCGCTAAAGATCGAGA
64 ATACCGCAAAAGATCGAGA
66655986 TTTATTGGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
81 15 0.21
82 31 0.44
83 25 0.35
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (82 bp):
ATTAGCGGCGCTTTTTTGAAAAACACCACTAAAGATCGAGAGTTAGCGGCACTTTTTGTAAAAAT
ACCGCAAAAGATCGAGA
Found at i:66655943 original size:42 final size:40
Alignment explanation
Indices: 66655822--66655985 Score: 159
Period size: 42 Copynumber: 4.0 Consensus size: 40
66655812 CTCCAGCGAC
*
66655822 ATTAGCGGCGCTTTTTTGAAAAACACCACTAAAGATCGAGA
1 ATTAGCGGCG-TTTTTTGAAAAATACCACTAAAGATCGAGA
* * * ***
66655863 GTTAGCGGCG-CTTTTGTAAAAATGCCGGAAAAGATCGAGA
1 ATTAGCGGCGTTTTTTG-AAAAATACCACTAAAGATCGAGA
* *
66655903 ATTAGCGGCAGTTTTTTCGAAAAATGCCACTAAAGTTCGAGA
1 ATTAGCGGC-GTTTTTT-GAAAAATACCACTAAAGATCGAGA
* * * *
66655945 TTTAGCGGCACTTTTTTTAAAAATACCGCTAAAGATCGAGA
1 ATTAGCGGC-GTTTTTTGAAAAATACCACTAAAGATCGAGA
66655986 TTTATTGGCT
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 5 0.05
40 26 0.26
41 30 0.30
42 38 0.38
43 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (40 bp):
ATTAGCGGCGTTTTTTGAAAAATACCACTAAAGATCGAGA
Found at i:66655986 original size:41 final size:41
Alignment explanation
Indices: 66655823--66655989 Score: 183
Period size: 41 Copynumber: 4.1 Consensus size: 41
66655813 TCCAGCGACA
* * *
66655823 TTAGCGGCGCTTTTTTGAAAAACACCACTAAAGATCGAGAG
1 TTAGCGGCACTTTTTTGAAAAATACCACTAAAGATCGAGAT
* * * *** *
66655864 TTAGCGGCGCTTTTGT-AAAAATGCCGGAAAAGATCGAGAA
1 TTAGCGGCACTTTTTTGAAAAATACCACTAAAGATCGAGAT
* * *
66655904 TTAGCGGCAGTTTTTTCGAAAAATGCCACTAAAGTTCGAGAT
1 TTAGCGGCACTTTTTT-GAAAAATACCACTAAAGATCGAGAT
* *
66655946 TTAGCGGCACTTTTTTTAAAAATACCGCTAAAGATCGAGAT
1 TTAGCGGCACTTTTTTGAAAAATACCACTAAAGATCGAGAT
66655987 TTA
1 TTA
66655990 TTGGCTTTCT
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
40 31 0.30
41 39 0.38
42 34 0.33
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (41 bp):
TTAGCGGCACTTTTTTGAAAAATACCACTAAAGATCGAGAT
Found at i:66657002 original size:85 final size:87
Alignment explanation
Indices: 66656883--66657057 Score: 246
Period size: 85 Copynumber: 2.0 Consensus size: 87
66656873 GTGAACTGTG
** * *
66656883 AAGCAATCTATTAACATTTTAAACCTCAGCTAAACAACTCTTCTACCTATAAAGAACATTT-AC-
1 AAGCAATCTATTAACATTTTAAACCTCAGCTAAACAACTCTTCTACAAACAAAAAACATTTGACT
*
66656946 TATACCATTGCAATTATTACTC
66 TATACCATTGCAATTATTACCC
* * *
66656968 AAGCAATTTATTAACATTTTAAACCTCAGTTAAACAAGTCTTCTACAAACAAAAAACATTTGACT
1 AAGCAATCTATTAACATTTTAAACCTCAGCTAAACAACTCTTCTACAAACAAAAAACATTTGACT
* *
66657033 TTTATCATTGCAATTATTACCC
66 TATACCATTGCAATTATTACCC
66657055 AAG
1 AAG
66657058 AACAAGGCCT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
85 54 0.69
86 2 0.03
87 22 0.28
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (87 bp):
AAGCAATCTATTAACATTTTAAACCTCAGCTAAACAACTCTTCTACAAACAAAAAACATTTGACT
TATACCATTGCAATTATTACCC
Found at i:66659140 original size:16 final size:16
Alignment explanation
Indices: 66659116--66659149 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66659106 TAATACTAAT
*
66659116 TAATTTTTGATATTAA
1 TAATGTTTGATATTAA
*
66659132 TAATGTTTGATTTTAA
1 TAATGTTTGATATTAA
66659148 TA
1 TA
66659150 TTTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
TAATGTTTGATATTAA
Found at i:66659440 original size:22 final size:22
Alignment explanation
Indices: 66659382--66659503 Score: 108
Period size: 22 Copynumber: 5.7 Consensus size: 22
66659372 TCATCTCAAG
66659382 ATAAGTTTAAAAGGTATTTAAT
1 ATAAGTTTAAAAGGTATTTAAT
* **
66659404 ATAA--ATAAATTGTATTTAAT
1 ATAAGTTTAAAAGGTATTTAAT
66659424 ATAAGTTTAAAAGGTATTTAAT
1 ATAAGTTTAAAAGGTATTTAAT
* ** *** * *
66659446 ATTA--TCCAAATCCATCTCAAG
1 ATAAGTTTAAAAGGTAT-TTAAT
66659467 ATAAGTTTAAAAGGTATTTAAT
1 ATAAGTTTAAAAGGTATTTAAT
66659489 ATAAGTTTAAAAGGT
1 ATAAGTTTAAAAGGT
66659504 TGGGTTTCAT
Statistics
Matches: 73, Mismatches: 22, Indels: 10
0.70 0.21 0.10
Matches are distributed among these distances:
20 23 0.32
21 6 0.08
22 38 0.52
23 6 0.08
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (22 bp):
ATAAGTTTAAAAGGTATTTAAT
Found at i:66659485 original size:43 final size:43
Alignment explanation
Indices: 66659357--66659490 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 43
66659347 CTTTAGTTGC
66659357 AATATTATCCAAATCTCATCTCAAGATAAGTTTAAAAGGTATTT
1 AATATTATCCAAATC-CATCTCAAGATAAGTTTAAAAGGTATTT
* ** * *
66659401 AATATAAAT--AAATTGTAT-TTAATATAAGTTTAAAAGGTATTT
1 AATAT-TATCCAAA-TCCATCTCAAGATAAGTTTAAAAGGTATTT
66659443 AATATTATCCAAATCCATCTCAAGATAAGTTTAAAAGGTATTT
1 AATATTATCCAAATCCATCTCAAGATAAGTTTAAAAGGTATTT
66659486 AATAT
1 AATAT
66659491 AAGTTTAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
41 2 0.03
42 30 0.40
43 35 0.47
44 6 0.08
45 2 0.03
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (43 bp):
AATATTATCCAAATCCATCTCAAGATAAGTTTAAAAGGTATTT
Found at i:66659722 original size:9 final size:9
Alignment explanation
Indices: 66659710--66660005 Score: 141
Period size: 9 Copynumber: 33.6 Consensus size: 9
66659700 TATATCATAT
66659710 CATAACTTA
1 CATAACTTA
66659719 CATAACTTA
1 CATAACTTA
*
66659728 CATAACCTA
1 CATAACTTA
*
66659737 TATAACTTA
1 CATAACTTA
* *
66659746 GATAA-ATA
1 CATAACTTA
* *
66659754 TATAACATA
1 CATAACTTA
* *
66659763 GATAA-ATA
1 CATAACTTA
*
66659771 TATAACTTA
1 CATAACTTA
66659780 CATAACTTA
1 CATAACTTA
* *
66659789 CACAA-ATA
1 CATAACTTA
* * *
66659797 TATATCATA
1 CATAACTTA
66659806 TCATAACTTA
1 -CATAACTTA
66659816 CATAA--TA
1 CATAACTTA
*
66659823 CATAA-ATA
1 CATAACTTA
* * *
66659831 TATATCATA
1 CATAACTTA
66659840 TCATAACTTA
1 -CATAACTTA
66659850 CATAACTTA
1 CATAACTTA
66659859 CATAACTTA
1 CATAACTTA
*
66659868 TATAACTTA
1 CATAACTTA
* *
66659877 GATAA-ATA
1 CATAACTTA
*
66659885 TATAACTTA
1 CATAACTTA
*
66659894 CACAACTTTA
1 CATAAC-TTA
*
66659904 CATAA-ATA
1 CATAACTTA
* * *
66659912 TATATCATA
1 CATAACTTA
*
66659921 TCATATCTTA
1 -CATAACTTA
66659931 CATAACTTA
1 CATAACTTA
66659940 CATAATACTTA
1 CAT-A-ACTTA
* *
66659951 AAT-ATTTA
1 CATAACTTA
66659959 TCAT-A--T-
1 -CATAACTTA
*
66659965 CATATCTTA
1 CATAACTTA
66659974 CATAACTTA
1 CATAACTTA
*
66659983 CAAAACTTA
1 CATAACTTA
*
66659992 CTTAACTTA
1 CATAACTTA
66660001 CATAA
1 CATAA
66660006 TAAATAAATA
Statistics
Matches: 223, Mismatches: 46, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
5 3 0.01
7 8 0.04
8 38 0.17
9 140 0.63
10 27 0.12
11 7 0.03
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:66659757 original size:17 final size:17
Alignment explanation
Indices: 66659720--66659895 Score: 93
Period size: 17 Copynumber: 10.6 Consensus size: 17
66659710 CATAACTTAC
*
66659720 ATAACTTACATAACCTAT
1 ATAACTTACATAA-ATAT
*
66659738 ATAACTTAGATAAATAT
1 ATAACTTACATAAATAT
* *
66659755 ATAACATAGATAAATAT
1 ATAACTTACATAAATAT
66659772 ATAACTTAC--------
1 ATAACTTACATAAATAT
*
66659781 ATAACTTACACAAATAT
1 ATAACTTACATAAATAT
* * * *
66659798 ATATCATATCATAACTTAC
1 ATAACTTA-CATAA-ATAT
66659817 ATAA--TACATAAATAT
1 ATAACTTACATAAATAT
* * * *
66659832 ATATCATATCATAACTTAC
1 ATAACTTA-CATAA-ATAT
*
66659851 ATAACTTACATAACTTAT
1 ATAACTTACATAA-ATAT
*
66659869 ATAACTTAGATAAATAT
1 ATAACTTACATAAATAT
66659886 ATAACTTACA
1 ATAACTTACA
66659896 CAACTTTACA
Statistics
Matches: 122, Mismatches: 22, Indels: 29
0.71 0.13 0.17
Matches are distributed among these distances:
9 9 0.07
15 5 0.04
16 5 0.04
17 48 0.39
18 42 0.34
19 13 0.11
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (17 bp):
ATAACTTACATAAATAT
Found at i:66659785 original size:43 final size:44
Alignment explanation
Indices: 66659706--66659908 Score: 189
Period size: 43 Copynumber: 4.6 Consensus size: 44
66659696 TATATATATC
* * *
66659706 ATATCATAACTTACATAACTTACATAACCTATATAACTTAGATAA
1 ATAT-ATAACATACATAACTTACATAACTTACATAACTTAGATAA
* * * * *
66659751 ATATATAACATAGATAA-ATATATAACTTACATAACTTACACAA
1 ATATATAACATACATAACTTACATAACTTACATAACTTAGATAA
* * * *
66659794 ATATATATCATATCATAACTTACATAA--TACATAA-ATATATATC
1 ATATATAACATA-CATAACTTACATAACTTACATAACTTAGATA-A
* *
66659837 ATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAA
1 ATAT-ATAACATACATAACTTACATAACTTACATAACTTAGATAA
* *
66659882 ATATATAACTTACACAACTTTACATAA
1 ATATATAACATACATAAC-TTACATAA
66659909 ATATATATCA
Statistics
Matches: 127, Mismatches: 23, Indels: 16
0.77 0.14 0.10
Matches are distributed among these distances:
42 4 0.03
43 56 0.44
44 34 0.27
45 28 0.22
46 5 0.04
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (44 bp):
ATATATAACATACATAACTTACATAACTTACATAACTTAGATAA
Found at i:66659962 original size:43 final size:41
Alignment explanation
Indices: 66659906--66659991 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 41
66659896 CAACTTTACA
66659906 TAAATATATATCATATCATATCTTACATAACTTACATAATACT
1 TAAATATATATCATATCATATCTTACATAACTTACA-AA-ACT
*
66659949 TAAATATTTATCATATCATATCTTACATAACTTACAAAACT
1 TAAATATATATCATATCATATCTTACATAACTTACAAAACT
66659990 TA
1 TA
66659992 CTTAACTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
41 5 0.12
42 2 0.05
43 35 0.83
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (41 bp):
TAAATATATATCATATCATATCTTACATAACTTACAAAACT
Found at i:66659990 original size:124 final size:129
Alignment explanation
Indices: 66659697--66660005 Score: 391
Period size: 124 Copynumber: 2.4 Consensus size: 129
66659687 TTAATGTTAT
*
66659697 ATATATATCATATCATAACTTACATAACTTACATAACCTATATAACTTAGATAAATATATAACAT
1 ATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACAT
* * * *
66659762 AGATAAATATATAACTTACATAACTTACACAAATATATATCATATCATAACTTACATAATACATA
66 ACACAAATATATAACATAAATAAC-TACAC-AATATATATCATATCATAACTTACATAATACATA
66659827 A
129 A
*
66659828 ATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTT
1 ATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACAT
* * * *
66659893 ACACAACT-T-T-ACATAAATATA-TA-TC-ATATCATATCTTA-CATAACTTACATAATACTTA
66 ACACAAATATATAACATAAATA-ACTACACAATAT-ATATCATATCATAACTTACATAATACATA
66659951 A
129 A
* * * *
66659952 ATATTTATCATATCATATCTTACATAACTTACAAAACTTACT-TAACTTACATAA
1 ATATATATCATATCATAACTTACATAACTTACATAACTTA-TATAACTTAGATAA
66660006 TAAATAAATA
Statistics
Matches: 161, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
124 72 0.45
125 8 0.05
126 1 0.01
127 2 0.01
128 7 0.04
129 2 0.01
130 1 0.01
131 68 0.42
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (129 bp):
ATATATATCATATCATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACAT
ACACAAATATATAACATAAATAACTACACAATATATATCATATCATAACTTACATAATACATAA
Found at i:66665750 original size:47 final size:47
Alignment explanation
Indices: 66665681--66665774 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
66665671 CATTGAATTT
66665681 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
1 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
*
66665728 TTGAAGTATCATTTAGGTTTGCTGTTATTGGTTGGATTTGATGTTGC
1 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
66665775 AGGAAGGATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.18, C:0.06, G:0.27, T:0.49
Consensus pattern (47 bp):
TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
Found at i:66672791 original size:42 final size:41
Alignment explanation
Indices: 66672730--66672891 Score: 119
Period size: 42 Copynumber: 3.9 Consensus size: 41
66672720 AGATACCAAT
* * * *
66672730 GCCATGTCCCAGACGTGGTCTTACATGGGATCTCACATCGAC
1 GCCATATCCCAGACATGGTCTTACA-GGAATCTCATATCGAC
* * * * *
66672772 GCCATATCCCAGATATGGTCTTATACGAAATCTCATTTCGAT
1 GCCATATCCCAGACATGGTCTTACA-GGAATCTCATATCGAC
* ** * * *
66672814 GCCATGTCCTTGACGTGGTCTTACACGAAGTCTCATATCAAC
1 GCCATATCCCAGACATGGTCTTACAGGAA-TCTCATATCGAC
* *
66672856 GCCATATCCCAGATATGGTTTTATACAGG-ATCTCAT
1 GCCATATCCCAGACATGG-TCT-TACAGGAATCTCAT
66672892 CAAACCAAAT
Statistics
Matches: 89, Mismatches: 28, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
41 2 0.02
42 79 0.89
43 3 0.03
44 5 0.06
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
GCCATATCCCAGACATGGTCTTACAGGAATCTCATATCGAC
Found at i:66672891 original size:84 final size:84
Alignment explanation
Indices: 66672728--66672881 Score: 229
Period size: 84 Copynumber: 1.8 Consensus size: 84
66672718 TAAGATACCA
* * *
66672728 ATGCCATGTCCCAGACGTGGTCTTACATGGGATCTCACATCGACGCCATATCCCAGATATGGTCT
1 ATGCCATGTCCCAGACGTGGTCTTACACGAGATCTCACATCAACGCCATATCCCAGATATGGTCT
66672793 TATACGAAATCTCATTTCG
66 TATACGAAATCTCATTTCG
** * *
66672812 ATGCCATGTCCTTGACGTGGTCTTACACGA-AGTCTCATATCAACGCCATATCCCAGATATGGTT
1 ATGCCATGTCCCAGACGTGGTCTTACACGAGA-TCTCACATCAACGCCATATCCCAGATATGGTC
66672876 TTATAC
65 TTATAC
66672882 AGGATCTCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
83 1 0.02
84 61 0.98
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (84 bp):
ATGCCATGTCCCAGACGTGGTCTTACACGAGATCTCACATCAACGCCATATCCCAGATATGGTCT
TATACGAAATCTCATTTCG
Found at i:66675060 original size:29 final size:27
Alignment explanation
Indices: 66675026--66675107 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 27
66675016 TGATTCATCC
66675026 ATGGAAAATAAAATAAAAAAATGATGAA
1 ATGGAAAATAAAATAAAAAAATGAT-AA
* *
66675054 ATTGGAAAGTGAAATAATAAAAGATGATAA
1 A-TGGAAAATAAAATAA-AAAA-ATGATAA
* * *
66675084 ATGATAAAAAAAAAGAAAAAAATG
1 ATG-GAAAATAAAATAAAAAAATG
66675108 TCATTTATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
28 4 0.09
29 19 0.44
30 15 0.35
31 5 0.12
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (27 bp):
ATGGAAAATAAAATAAAAAAATGATAA
Found at i:66677632 original size:271 final size:271
Alignment explanation
Indices: 66677147--66677692 Score: 975
Period size: 271 Copynumber: 2.0 Consensus size: 271
66677137 TTGGCCAATA
66677147 TTGGCATATAAATGCTTTAATTGTAACTAGCCATTGGAATGGCTTATGATGAATATGTTTGGTAT
1 TTGGCATATAAATGCTTTAATTGTAACTAGCCATTGGAATGGCTTATGATGAATATGTTTGGTAT
66677212 GCGTTTGAAATGGTTGATTGATAGAAATTATATTGGCATATTGATGATTGAATTAAGTTAGCATA
66 GCGTTTGAAATGGTTGATTGATAGAAATTATATTGGCATATTGATGATTGAATTAAGTTAGCATA
*
66677277 TTTGATAAGATATGCATATATGTGAACTTGGTAATTTAAGTAAATGTGTATACTTGATTATATGA
131 TTTGATAAGATATGCATATATGTGAACTTGGTAATTTAAGTAAATGTGTATACTTGATTATAAGA
*
66677342 GGTATTATATCATGTATAGGACTTGATTTTGAGTTGGGTTAAATGACCTATGATAGCTTGTGAAT
196 GGTATTATATCAGGTATAGGACTTGATTTTGAGTTGGGTTAAATGACCTATGATAGCTTGTGAAT
*
66677407 GTGTGAAAGTG
261 GTGTGAAACTG
* ** *
66677418 TTGGCATATAAATGCTTTAATTGTAATTAGTTATTGGAATGGCTTATGATGGATATGTTTGGTAT
1 TTGGCATATAAATGCTTTAATTGTAACTAGCCATTGGAATGGCTTATGATGAATATGTTTGGTAT
* *
66677483 GCGTTTGAAGTGGTTGATTGATAGAAATTATTTTGGCATATTGATGATTGAATTAAGTTAGCATA
66 GCGTTTGAAATGGTTGATTGATAGAAATTATATTGGCATATTGATGATTGAATTAAGTTAGCATA
** *
66677548 TTTGATAATCTATGCATATATGTGAACTTGGTAATTTAAGTAAGTGTGTATACTTGATTATAAGA
131 TTTGATAAGATATGCATATATGTGAACTTGGTAATTTAAGTAAATGTGTATACTTGATTATAAGA
66677613 GGTATTATATCAGGTATAGGACTTGATTTTGAGTTGGGTTAAATGACCTATGATAGCTTGTGAAT
196 GGTATTATATCAGGTATAGGACTTGATTTTGAGTTGGGTTAAATGACCTATGATAGCTTGTGAAT
*
66677678 GTGTTAAACTG
261 GTGTGAAACTG
66677689 TTGG
1 TTGG
66677693 TGTAGGAGGA
Statistics
Matches: 262, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
271 262 1.00
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.40
Consensus pattern (271 bp):
TTGGCATATAAATGCTTTAATTGTAACTAGCCATTGGAATGGCTTATGATGAATATGTTTGGTAT
GCGTTTGAAATGGTTGATTGATAGAAATTATATTGGCATATTGATGATTGAATTAAGTTAGCATA
TTTGATAAGATATGCATATATGTGAACTTGGTAATTTAAGTAAATGTGTATACTTGATTATAAGA
GGTATTATATCAGGTATAGGACTTGATTTTGAGTTGGGTTAAATGACCTATGATAGCTTGTGAAT
GTGTGAAACTG
Found at i:66682286 original size:29 final size:27
Alignment explanation
Indices: 66682268--66682337 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
66682258 ATATTAAGTC
66682268 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
66682295 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
66682323 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
66682338 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:66682331 original size:28 final size:28
Alignment explanation
Indices: 66682268--66682365 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
66682258 ATATTAAGTC
*
66682268 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
66682295 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66682323 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
66682352 CGCGCACTTAGTGC
1 CGCACACTTAGTGC
66682366 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 22 0.35
28 23 0.37
29 18 0.29
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66690134 original size:29 final size:27
Alignment explanation
Indices: 66690116--66690185 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
66690106 ATATTAAGTC
66690116 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
66690143 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
66690171 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
66690186 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:66690179 original size:28 final size:28
Alignment explanation
Indices: 66690116--66690213 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
66690106 ATATTAAGTC
*
66690116 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
66690143 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66690171 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
66690200 CGCGCACTTAGTGC
1 CGCACACTTAGTGC
66690214 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 22 0.35
28 23 0.37
29 18 0.29
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66699966 original size:19 final size:20
Alignment explanation
Indices: 66699942--66699979 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66699932 GGTACCACCA
66699942 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
66699961 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
66699980 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:66700318 original size:93 final size:93
Alignment explanation
Indices: 66700209--66700379 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
66700199 GCCCCTAAGT
* * * *
66700209 GAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
66700274 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
66700302 GAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
66700367 CGAGTTCGGATGC
66 CGAGTTCGGATGC
66700380 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:66700376 original size:46 final size:46
Alignment explanation
Indices: 66700204--66700376 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
66700194 AACCCGCCCC
* * * * **
66700204 TAAGTGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
* *
66700250 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACATCCA
* *
66700298 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
66700343 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
66700377 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 7 0.07
44 2 0.02
45 2 0.02
46 59 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
Found at i:66700833 original size:30 final size:30
Alignment explanation
Indices: 66700799--66700858 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
66700789 ATTTAATATG
*
66700799 AACTTTAAAAAAATTCCACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
66700829 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
66700859 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:66708521 original size:38 final size:38
Alignment explanation
Indices: 66708478--66708559 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
66708468 TTCCTTATGA
66708478 CATGTTTTCTCATTGGTCAAGTTTTAATAAGCCTTTGT
1 CATGTTTTCTCATTGGTCAAGTTTTAATAAGCCTTTGT
*
66708516 CATGTTTTCTCATTGGTCAAGTTTTAATAAGTCTTTGT
1 CATGTTTTCTCATTGGTCAAGTTTTAATAAGCCTTTGT
66708554 CA-GTTT
1 CATGTTT
66708560 CAATTAATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.49
Consensus pattern (38 bp):
CATGTTTTCTCATTGGTCAAGTTTTAATAAGCCTTTGT
Found at i:66710723 original size:42 final size:42
Alignment explanation
Indices: 66710676--66710767 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
66710666 TGGCCCTTAG
* ** *
66710676 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
66710718 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
66710760 GCCCATTT
1 GCCCATTT
66710768 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:66711008 original size:26 final size:26
Alignment explanation
Indices: 66710912--66711137 Score: 314
Period size: 26 Copynumber: 8.8 Consensus size: 26
66710902 CCTCTTTAAT
***
66710912 AACTGGGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
* ***
66710937 AACTAGGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
66710962 AACTGGGGCA-AAGCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
66710987 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
66711013 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
66711039 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
66711065 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
66711091 AACTGGGGCATAAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
66711117 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
66711138 GCACTTCCTC
Statistics
Matches: 184, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
25 54 0.29
26 130 0.71
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:66711048 original size:52 final size:52
Alignment explanation
Indices: 66710912--66711137 Score: 350
Period size: 52 Copynumber: 4.4 Consensus size: 52
66710902 CCTCTTTAAT
*** * *
66710912 AACTGGGGCA-AAGCCCTTTTTGGTAAACTAGGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
*
66710962 AACTGGGGCA-AAGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
66711013 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
***
66711065 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
66711117 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
66711138 GCACTTCCTC
Statistics
Matches: 164, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 30 0.18
51 24 0.15
52 110 0.67
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:66712021 original size:27 final size:27
Alignment explanation
Indices: 66711942--66712029 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
66711932 TATTCGTCAT
* * *
66711942 TTTACCATAC-AGGGGTATTACGGTCAC
1 TTTACCTTACAAGGGCT-TTACGGTCTC
* *
66711969 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCTTACAAGGGCTTTACGGTCTC
*
66711996 TTTACCTTACAAGGGCTTTACGGTCTT
1 TTTACCTTACAAGGGCTTTACGGTCTC
66712023 TTTACCT
1 TTTACCT
66712030 AATAGGGGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
27 49 0.92
28 4 0.08
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
TTTACCTTACAAGGGCTTTACGGTCTC
Found at i:66712102 original size:27 final size:27
Alignment explanation
Indices: 66712059--66712394 Score: 190
Period size: 27 Copynumber: 12.4 Consensus size: 27
66712049 TTTCATCCTA
* * *
66712059 CAAGGGTGTTTTGGTAAATTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* **
66712086 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* ** * *
66712113 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-C
* ** ** *
66712142 CAAGGGTATTTCTGTAACATTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * * *
66712169 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
** * *
66712196 TGAGGGTATTTCAGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
*
66712223 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTACAAAC
* * * * *
66712250 TAGGGGTATTTTGGTAATTTTACTAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
**
66712277 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* ** * * *
66712304 CAGGGGTATTTTAGCAATTTTATAGA-
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * ** *
66712330 CTAGGGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * **
66712357 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
*
66712384 CAAGGGCATTT
1 CAAGGGTATTT
66712395 TAGTAATTCT
Statistics
Matches: 236, Mismatches: 68, Indels: 10
0.75 0.22 0.03
Matches are distributed among these distances:
26 22 0.09
27 187 0.79
28 13 0.06
29 14 0.06
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:66712231 original size:54 final size:54
Alignment explanation
Indices: 66712172--66712416 Score: 219
Period size: 54 Copynumber: 4.6 Consensus size: 54
66712162 TGTAAATTAG
* * *
66712172 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCAGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGGTATTTTAGTAATTTTACAAACCA
* * ***
66712225 GTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACTAATTGA
1 G-GGTATTTTGGTAATTTTACAAATCGAGGGGTATTTTAGTAATTTTAC-AAACCA
* * * * * *
66712280 GGGTATTTCGGTAATTTTACAAA-CCAGGGGTATTTTAGCAATTTTATAGACTA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGGTATTTTAGTAATTTTACAAACCA
** * **
66712333 GGGTATTTTGGTAATTTTACTGATCGA-GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGAGGGGTATTTTAGTAATTTTACAAACC-A
* * * **
66712387 GGGCATTTTAGTAATTCTGTAAATCGAGGG
1 GGGTATTTTGGTAATTTTACAAATCGAGGG
66712417 TAAAACGGTA
Statistics
Matches: 153, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
53 44 0.29
54 103 0.67
55 6 0.04
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGGTATTTTAGTAATTTTACAAACCA
Found at i:66712264 original size:81 final size:81
Alignment explanation
Indices: 66712169--66712376 Score: 310
Period size: 81 Copynumber: 2.6 Consensus size: 81
66712159 CATTGTAAAT
* * *
66712169 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTT
1 TAGGGGTATTTTGGTAATTTTACTAATTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTT
* *
66712234 TGGTAATTTTACAAAC
66 TAGCAATTTTACAAAC
*
66712250 TAGGGGTATTTTGGTAATTTTACTAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTT
1 TAGGGGTATTTTGGTAATTTTACTAATTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTT
* *
66712315 TAGCAATTTTATAGAC
66 TAGCAATTTTACAAAC
* * *
66712331 TA-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTT
1 TAGGGGTATTTTGGTAATTTTACTAATTGAGGGTATTTCGGTAATTT
66712377 TGTAAACCAA
Statistics
Matches: 116, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
80 41 0.35
81 75 0.65
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACTAATTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTT
TAGCAATTTTACAAAC
Found at i:66712480 original size:27 final size:27
Alignment explanation
Indices: 66712172--66712510 Score: 179
Period size: 27 Copynumber: 12.6 Consensus size: 27
66712162 TGTAAATTAG
* * *
66712172 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTCTATAAATCGA
** * *
66712199 GGGTATTTCAGTAATT-TCACAAA-CCA
1 GGGTATTTTGGTAATTCT-ATAAATCGA
* * *
66712225 GTGGTATTTTGGTAATTTTACAAA-CTA
1 G-GGTATTTTGGTAATTCTATAAATCGA
* *
66712252 GGGGTATTTTGGTAATTTTACT-AATTGA
1 -GGGTATTTTGGTAATTCTA-TAAATCGA
* * * *
66712280 GGGTATTTCGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTCTATAAATCGA
* * * * *
66712306 GGGGTATTTTAGCAATTTTATAGA-CTA
1 -GGGTATTTTGGTAATTCTATAAATCGA
* *
66712333 GGGTATTTTGGTAATTTTACT-GATCGA
1 GGGTATTTTGGTAATTCTA-TAAATCGA
* * * *
66712360 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTCTATAAATCGA
* * *
66712387 GGGCATTTTAGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTCTATAAATCGA
****
66712414 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTCTATAAATCGA
****
66712441 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTCTATAAATCGA
* * * * *
66712468 GGGTACTTTGGTAATTTTACAATTTGA
1 GGGTATTTTGGTAATTCTATAAATCGA
*
66712495 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
66712511 TGGTAAACTA
Statistics
Matches: 252, Mismatches: 49, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
26 24 0.10
27 225 0.89
28 3 0.01
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTCTATAAATCGA
Found at i:66712509 original size:54 final size:53
Alignment explanation
Indices: 66712172--66712511 Score: 211
Period size: 54 Copynumber: 6.3 Consensus size: 53
66712162 TGTAAATTAG
* * ** * * ***
66712172 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAATTGA
* *
66712225 GTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACTAATTGA
1 G-GGTATTTTGGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTA-TAATTGA
* * * * * *
66712280 GGGTATTTCGGTAATTTTACAAA-CCAGGGGTATTTTAGCAATTTTATAGACT-A
1 GGGTATTTTGGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTATA-ATTGA
* * ***
66712333 GGGTATTTTGGTAATTTTACT-GATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTA-TAAATCGAGGGTATTTTGGTAATTTTAT-AATTGA
* * * * **** * *
66712387 GGGCATTTTAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTAT-AATTGA
**** * * *
66712441 GGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAATTTGA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAA-TTGA
*
66712495 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
66712512 GGTAAACTAA
Statistics
Matches: 222, Mismatches: 55, Indels: 19
0.75 0.19 0.06
Matches are distributed among these distances:
53 46 0.21
54 172 0.77
55 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAATTGA
Found at i:66720718 original size:27 final size:27
Alignment explanation
Indices: 66720696--66720838 Score: 169
Period size: 27 Copynumber: 5.3 Consensus size: 27
66720686 AGAATTACTG
**
66720696 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* *
66720723 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
66720750 AAATACCCTTGGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* ** *
66720777 AAATACCCCTAATTTGTGAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
****
66720804 AAATACCCTCAACTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
*
66720831 AAGTACCC
1 AAATACCC
66720839 CCGATTTACA
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATACCCTTGGTTTGTAAAATTACCA
Found at i:66720771 original size:54 final size:54
Alignment explanation
Indices: 66720696--66720839 Score: 207
Period size: 54 Copynumber: 2.7 Consensus size: 54
66720686 AGAATTACTG
** *
66720696 AAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCA
*
66720750 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCA
**** *
66720804 AAATACCCTCAACTTGTAAAATTACCAAAGTACCCC
1 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCC
66720840 CGATTTACAG
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (54 bp):
AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCA
Found at i:66720891 original size:27 final size:27
Alignment explanation
Indices: 66720821--66720893 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
66720811 CTCAACTTGT
*
66720821 AAAATTA-CCAAAGTACCCCCGATTTAC
1 AAAATTATCGAAA-TACCCCCGATTTAC
* *** *
66720848 AGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTATCGAAATACCCCCGATTTAC
*
66720875 AAAATTATTGAAATACCCC
1 AAAATTATCGAAATACCCC
66720894 TATAGGGTAG
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTATCGAAATACCCCCGATTTAC
Found at i:66720943 original size:54 final size:54
Alignment explanation
Indices: 66720885--66720992 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
66720875 AAAATTATTG
*
66720885 AAATACCCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAA-TACCA
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA-AAATTACCA
* *
66720939 AAATACCCCTATAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
66720993 TTTTGCCCTA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 3 0.06
54 47 0.94
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (54 bp):
AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
Found at i:66720982 original size:27 final size:27
Alignment explanation
Indices: 66720884--66720991 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 27
66720874 CAAAATTATT
* * *
66720884 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
*
66720911 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
66720938 AAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
66720965 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
66720992 ATTTTGCCCT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:66721807 original size:27 final size:27
Alignment explanation
Indices: 66721724--66721828 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
66721714 ATTCTGTTAA
* *
66721724 GTGGCTTTGCCACAATATCTGTTGC-TA
1 GTGGCTCTGCCACAATATCTGTT-CATG
*
66721751 GTGGCTATGCCACAAATATCTGTTCA-G
1 GTGGCTCTGCCAC-AATATCTGTTCATG
66721778 GTGGCTCTGCCACAATATCTGTAT-ATG
1 GTGGCTCTGCCACAATATCTGT-TCATG
* *
66721805 GTGACTCTGTCACAATATCTGTTC
1 GTGGCTCTGCCACAATATCTGTTC
66721829 TGGCAACCAT
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
26 11 0.16
27 47 0.69
28 10 0.15
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTCATG
Found at i:66721819 original size:54 final size:53
Alignment explanation
Indices: 66721716--66721828 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 53
66721706 TGCCACGTAT
* * *
66721716 TCTGTT-AAGTGGCTTTGCCACAATATCTGTTGCTAGTGGCTATGCCACAAATA
1 TCTGTTCAAGTGGCTCTGCCACAATATCTGTTGATAGTGACTATGCCAC-AATA
* * * *
66721769 TCTGTTCAGGTGGCTCTGCCACAATATCTGTAT-ATGGTGACTCTGTCACAATA
1 TCTGTTCAAGTGGCTCTGCCACAATATCTGT-TGATAGTGACTATGCCACAATA
66721822 TCTGTTC
1 TCTGTTC
66721829 TGGCAACCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
53 17 0.33
54 33 0.65
55 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (53 bp):
TCTGTTCAAGTGGCTCTGCCACAATATCTGTTGATAGTGACTATGCCACAATA
Found at i:66721958 original size:6 final size:6
Alignment explanation
Indices: 66721949--66722169 Score: 112
Period size: 6 Copynumber: 35.8 Consensus size: 6
66721939 TTGCATTCAC
* * * * *
66721949 ATTCTG ATTCTA ATTCTG -TTACCTG ATACAG ATTCTG ATTCT- ATCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
66721999 ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG ATTCTG -TTACCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * * * *
66722048 ATACTG ATTGTA ATTCTG -TCACCTA ACTCTG ATTCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* ** * * *
66722097 ATTCTG ATCCTG -TTACTTG ACACTG ATTTTG ATTCTG -TCACCTA ATTCTG
1 ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
*
66722147 ATTCTG ATTCTG ACTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
66722170 ACCACCTGAT
Statistics
Matches: 158, Mismatches: 39, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
5 9 0.06
6 129 0.82
7 15 0.09
8 5 0.03
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.45
Consensus pattern (6 bp):
ATTCTG
Found at i:66721982 original size:25 final size:25
Alignment explanation
Indices: 66721952--66722090 Score: 122
Period size: 25 Copynumber: 5.6 Consensus size: 25
66721942 CATTCACATT
66721952 CTGATTCTAATTCTGTTACCTGATA
1 CTGATTCTAATTCTGTTACCTGATA
* * * * * *
66721977 CAGATTCTGATTCTATCACCTAATT
1 CTGATTCTAATTCTGTTACCTGATA
* * *
66722002 CTGATTCTGATTCTGATT--TTGATT
1 CTGATTCTAATTCTG-TTACCTGATA
*
66722026 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTAATTCTGTTACCTGATA
* * *
66722051 CTGATTGTAATTCTGTCACCTAACT-
1 CTGATTCTAATTCTGTTACCTGA-TA
66722076 CTGATTCTAATTCTG
1 CTGATTCTAATTCTG
66722091 ATTCTGATTC
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
23 2 0.02
24 19 0.21
25 69 0.75
26 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (25 bp):
CTGATTCTAATTCTGTTACCTGATA
Found at i:66722039 original size:74 final size:74
Alignment explanation
Indices: 66721949--66722169 Score: 292
Period size: 74 Copynumber: 3.1 Consensus size: 74
66721939 TTGCATTCAC
* * *
66721949 ATTCTGATTCTAATTCTGTTACCTGATACAGATTCTGATTCTATCACCTAATTCTGATTCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
*
66722014 CTGATTTTG
66 CTGATTCTG
* *
66722023 ATTCTGATTCTGATTCTGTTACCTGATACTGATTGTAATTCTGTCACCTAA--C----TCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
*
66722082 CTAATTCTG
66 CTGATTCTG
* * * *
66722091 ATTCTGATTCTGATCCTGTTACTTGACACTGATTTTGATTCTGTCACCTAATTCTGATTCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
*
66722156 CTGACTCTG
66 CTGATTCTG
66722165 ATTCT
1 ATTCT
66722170 ACCACCTGAT
Statistics
Matches: 127, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
68 60 0.47
70 1 0.01
72 1 0.01
74 65 0.51
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.45
Consensus pattern (74 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
CTGATTCTG
Found at i:66722079 original size:68 final size:68
Alignment explanation
Indices: 66721949--66722169 Score: 271
Period size: 68 Copynumber: 3.2 Consensus size: 68
66721939 TTGCATTCAC
* * *
66721949 ATTCTGATTCTAATTCTGTTACCTGATACAGATTCTGATTCTATCACCTAATTCTGATTCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAA--C----TCTGATT
*
66722014 CTGATTTTG
60 CTGATTCTG
* * *
66722023 ATTCTGATTCTGATTCTGTTACCTGATACTGATTGTAATTCTGTCACCTAACTCTGATTCTAATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAACTCTGATTCTGATT
66722088 CTG
66 CTG
* * * * *
66722091 ATTCTGATTCTGATCCTGTTACTTGACACTGATTTTGATTCTGTCACCTAATTCTGATTCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAACTCTGATTCTGATT
66722156 CTG
66 CTG
*
66722159 ACTCTGATTCT
1 ATTCTGATTCT
66722170 ACCACCTGAT
Statistics
Matches: 132, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
68 85 0.64
72 1 0.01
74 46 0.35
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.45
Consensus pattern (68 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAACTCTGATTCTGATT
CTG
Found at i:66722204 original size:37 final size:37
Alignment explanation
Indices: 66722119--66722207 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
66722109 TTACTTGACA
** *
66722119 CTGATTTTGATTCTGTCACCTAATTCTGATTCTGATT
1 CTGATTTTGATTCTACCACCTAATTCTGATTCTGATC
* * * *
66722156 CTGACTCTGATTCTACCACCTGATTTTGATTCTGATC
1 CTGATTTTGATTCTACCACCTAATTCTGATTCTGATC
*
66722193 CTTATTTTGATTCTA
1 CTGATTTTGATTCTA
66722208 GTTCTGATAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.47
Consensus pattern (37 bp):
CTGATTTTGATTCTACCACCTAATTCTGATTCTGATC
Found at i:66724120 original size:27 final size:27
Alignment explanation
Indices: 66724098--66724240 Score: 153
Period size: 27 Copynumber: 5.3 Consensus size: 27
66724088 AGAATTACTG
* **
66724098 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCATGGTTTGTAAAATTACCA
* * *
66724125 AAATACCCCTGCTTTGTAAAATTACCC
1 AAATACCCATGGTTTGTAAAATTACCA
66724152 AAATACCCATGGTTTGTAAAATTACCA
1 AAATACCCATGGTTTGTAAAATTACCA
* * * *
66724179 AAATACCCCTGATGTGTGAAATTACCA
1 AAATACCCATGGTTTGTAAAATTACCA
**
66724206 AAATACCC-TCGACTTGTAAAATTACCA
1 AAATACCCAT-GGTTTGTAAAATTACCA
*
66724233 AAGTACCC
1 AAATACCC
66724241 CCAATTTATA
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 98 0.99
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.27
Consensus pattern (27 bp):
AAATACCCATGGTTTGTAAAATTACCA
Found at i:66724173 original size:54 final size:53
Alignment explanation
Indices: 66724098--66724241 Score: 180
Period size: 54 Copynumber: 2.7 Consensus size: 53
66724088 AGAATTACTG
** * * *
66724098 AAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGCTTTGTAAAATTACCC
1 AAATACCC-TGGTTTGTAAAATTACCAAAATACCCCTGATGTGTAAAATTACCA
*
66724152 AAATACCCATGGTTTGTAAAATTACCAAAATACCCCTGATGTGTGAAATTACCA
1 AAATACCC-TGGTTTGTAAAATTACCAAAATACCCCTGATGTGTAAAATTACCA
** *
66724206 AAATACCCTCGACTTGTAAAATTACCAAAGTACCCC
1 AAATACCCT-GGTTTGTAAAATTACCAAAATACCCC
66724242 CAATTTATAG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 78 0.99
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (53 bp):
AAATACCCTGGTTTGTAAAATTACCAAAATACCCCTGATGTGTAAAATTACCA
Found at i:66724255 original size:27 final size:27
Alignment explanation
Indices: 66724115--66724259 Score: 78
Period size: 27 Copynumber: 5.4 Consensus size: 27
66724105 CTTGGTTTAC
** *
66724115 AAAATTACCAAAATA-CCCCTGCTTTGT
1 AAAATTACCAAAATACCCCCAAC-TTAT
* ***** *
66724142 AAAATTACCCAAATACCCATGGTTTGT
1 AAAATTACCAAAATACCCCCAACTTAT
** *
66724169 AAAATTACCAAAATACCCCTGA-TGTGT
1 AAAATTACCAAAATACCCCCAACT-TAT
* * * *
66724196 GAAATTACCAAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCCCAACTTAT
* *
66724223 AAAATTACCAAAGTACCCCCAATTTAT
1 AAAATTACCAAAATACCCCCAACTTAT
*
66724250 AGAATTACCA
1 AAAATTACCA
66724260 TTTTACCCTC
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 92 0.95
28 4 0.04
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCCAACTTAT
Found at i:66724256 original size:54 final size:54
Alignment explanation
Indices: 66724115--66724259 Score: 168
Period size: 54 Copynumber: 2.7 Consensus size: 54
66724105 CTTGGTTTAC
* * * **
66724115 AAAATTACCAAAATACCCCTGCTTTGTAAAATTACCCAAATACCCATGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGTAGAATTACCAAAATACCCATGACTTGT
*
66724169 AAAATTACCAAAATACCCCTGATGTGT-GAAATTACCAAAATACCC-TCGACTTGT
1 AAAATTACCAAAATACCCCTGATTTGTAG-AATTACCAAAATACCCAT-GACTTGT
* ** *
66724223 AAAATTACCAAAGTACCCCCAATTTATAGAATTACCA
1 AAAATTACCAAAATACCCCTGATTTGTAGAATTACCA
66724260 TTTTACCCTC
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 75 0.97
55 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATTTGTAGAATTACCAAAATACCCATGACTTGT
Found at i:66724309 original size:27 final size:27
Alignment explanation
Indices: 66724286--66724420 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 27
66724276 CAAAATTATT
* *
66724286 GAAATACCTCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
66724313 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
66724340 AAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
66724367 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
66724394 GAGATACCCTTGT-GAGGTAAAATTACC
1 GAAATACCCCTGTAG-GGTAGAATTACC
66724421 ATTTTGCCCT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 95 0.99
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:66724430 original size:27 final size:27
Alignment explanation
Indices: 66724400--66724461 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
66724390 TACCGAGATA
*
66724400 CCCTTGTGAG-GTAAAATTACCATTTTG
1 CCCTTGTG-GTGTAAAATGACCATTTTG
* * *
66724427 CCCTAG-GGTGTTAAATGACTATTTTG
1 CCCTTGTGGTGTAAAATGACCATTTTG
66724453 CCCTTGTGG
1 CCCTTGTGG
66724462 GCAAGTGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
25 1 0.04
26 20 0.71
27 7 0.25
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (27 bp):
CCCTTGTGGTGTAAAATGACCATTTTG
Found at i:66724973 original size:22 final size:22
Alignment explanation
Indices: 66724948--66724996 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
66724938 ATGGCTTTAC
66724948 GCCAACCT-ACATATGGCTCTGT
1 GCCAACCTGA-ATATGGCTCTGT
* *
66724970 GCCAACCTGATTATGGCTGTGT
1 GCCAACCTGAATATGGCTCTGT
66724992 GCCAA
1 GCCAA
66724997 ACGTATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (22 bp):
GCCAACCTGAATATGGCTCTGT
Found at i:66725184 original size:27 final size:27
Alignment explanation
Indices: 66725154--66725262 Score: 96
Period size: 27 Copynumber: 4.1 Consensus size: 27
66725144 TATTCTGTTA
*
66725154 AGTGGCTTTGCCACATTATCTGTTTCT
1 AGTGGCTTTGCCACAATATCTGTTTCT
*
66725181 AGTGGCTATGCCACAAATATCTG-TTCT
1 AGTGGCTTTGCCAC-AATATCTGTTTCT
* * * *
66725208 GGTAGTTTTGCCACAATATCTGTATCT
1 AGTGGCTTTGCCACAATATCTGTTTCT
* * * **
66725235 GGTGACTCTATCACAATATCTG-TTCT
1 AGTGGCTTTGCCACAATATCTGTTTCT
66725261 AG
1 AG
66725263 CAGGCATGCT
Statistics
Matches: 65, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
26 12 0.18
27 46 0.71
28 7 0.11
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (27 bp):
AGTGGCTTTGCCACAATATCTGTTTCT
Found at i:66725391 original size:6 final size:6
Alignment explanation
Indices: 66725380--66725603 Score: 122
Period size: 6 Copynumber: 36.3 Consensus size: 6
66725370 TTGCGTTCAC
* *
66725380 ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACAG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * *
66725429 -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * * *
66725479 ATTCTG ATTTTG -TCACCTA ACTCTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
66725528 -TTACTTG ATACTG ATTCTG ATTCT- -TTCACCTA ATTTTG ATTTTG ATTCTG
1 ATT-C-TG ATTCTG ATTCTG ATTCTG ATT---CTG ATTCTG ATTCTG ATTCTG
* *
66725578 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
66725604 AATGTTTCTT
Statistics
Matches: 167, Mismatches: 29, Indels: 44
0.70 0.12 0.18
Matches are distributed among these distances:
4 2 0.01
5 9 0.05
6 135 0.81
7 15 0.09
8 4 0.02
9 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:66725411 original size:25 final size:25
Alignment explanation
Indices: 66725383--66725577 Score: 120
Period size: 25 Copynumber: 7.8 Consensus size: 25
66725373 CGTTCACATT
66725383 CTGATTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
* * *
66725408 CTGATACAGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGTTAC
* *
66725433 CTAATTTTGATTCTGATTCTGATT--
1 CTGATTCTGATTCTGATTCTG-TTAC
*
66725457 CTGATTCTG-TTACCTGATACTGATT--
1 CTGATTCTGATT--CTGATTCTG-TTAC
* * * *
66725482 CTGATTTTG-TCACCTAACTCTGATT--
1 CTGATTCTGAT--TCTGATTCTG-TTAC
66725507 CTGATTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
* *
66725532 TTGATACTGATTCTGATTCT-TTCAC
1 CTGATTCTGATTCTGATTCTGTT-AC
* * *
66725557 CTAATTTTGATTTTGATTCTG
1 CTGATTCTGATTCTGATTCTG
66725578 ATTCTCATTT
Statistics
Matches: 133, Mismatches: 27, Indels: 19
0.74 0.15 0.11
Matches are distributed among these distances:
23 4 0.03
24 16 0.12
25 111 0.83
26 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTTAC
Found at i:66725449 original size:37 final size:37
Alignment explanation
Indices: 66725408--66725486 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
66725398 ATTCTGTTAC
**
66725408 CTGATACAGATTCTGATTCTGTCACCTAATTTTGATT
1 CTGATACAGATTCTGATTCTGTCACCTAATACTGATT
* * * *
66725445 CTGATTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATACAGATTCTGATTCTGTCACCTAATACTGATT
66725482 CTGAT
1 CTGAT
66725487 TTTGTCACCT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (37 bp):
CTGATACAGATTCTGATTCTGTCACCTAATACTGATT
Found at i:66725482 original size:62 final size:62
Alignment explanation
Indices: 66725380--66725582 Score: 343
Period size: 62 Copynumber: 3.3 Consensus size: 62
66725370 TTGCGTTCAC
*
66725380 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACAGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTG
* * *
66725442 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTTTGTCACCTAACTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTG
* *
66725504 ATTCTGATTCTGATTCTGATTCTGTTACTTGATACTGATTCTGATTCTTTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTG
*
66725566 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
66725583 CATTTTGATT
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 131 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTG
Found at i:66725487 original size:37 final size:37
Alignment explanation
Indices: 66725416--66725551 Score: 118
Period size: 37 Copynumber: 4.0 Consensus size: 37
66725406 ACCTGATACA
* **
66725416 GATTCTGATTCTGTCACCTAATTTTGATTCTGATTCT
1 GATTCTGATTCTGTTACCTAATACTGATTCTGATTCT
*
66725453 GATTCTGATTCTGTTACCTGATACTGATTCTGA---T
1 GATTCTGATTCTGTTACCTAATACTGATTCTGATTCT
66725487 --TT-TG--TC----ACCTAACT-CTGATTCTGATTCT
1 GATTCTGATTCTGTTACCTAA-TACTGATTCTGATTCT
* *
66725515 GATTCTGATTCTGTTACTTGATACTGATTCTGATTCT
1 GATTCTGATTCTGTTACCTAATACTGATTCTGATTCT
66725552 TTCACCTAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 28
0.69 0.06 0.25
Matches are distributed among these distances:
25 15 0.19
26 1 0.01
28 1 0.01
29 2 0.03
30 2 0.03
31 4 0.05
32 2 0.03
33 2 0.03
34 1 0.01
36 1 0.01
37 47 0.60
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (37 bp):
GATTCTGATTCTGTTACCTAATACTGATTCTGATTCT
Found at i:66729317 original size:40 final size:40
Alignment explanation
Indices: 66729217--66729388 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
66729207 GCTCCTCGTT
* * *
66729217 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
66729257 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
66729296 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
66729336 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
66729376 CAAATGCCTTCGG
1 CAAATGCCTTCGG
66729389 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:66746531 original size:43 final size:42
Alignment explanation
Indices: 66746484--66746625 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 42
66746474 TCTTGCATGT
*
66746484 AATCAAATATCAATGCCACTATCCCAGACAGGGTCTTACACAA
1 AATCAAATATCAATGCCA-TGTCCCAGACAGGGTCTTACACAA
* * * * * *
66746527 AATCAAAT-GCGATGACGATGTCCCAAACATGGTCTTACATGAA
1 AATCAAATATCAATG-CCATGTCCCAGACAGGGTCTTACA-CAA
* *
66746570 AATCTCAA-ATCAATGCCAATGTCCCAGAC-GTGGTCTTACACGA
1 AATC-AAATATCAATGCC-ATGTCCCAGACAG-GGTCTTACACAA
*
66746613 AATCACATATCAA
1 AATCAAATATCAA
66746626 AAATTCTATG
Statistics
Matches: 75, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
42 23 0.31
43 27 0.36
44 25 0.33
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (42 bp):
AATCAAATATCAATGCCATGTCCCAGACAGGGTCTTACACAA
Found at i:66746563 original size:42 final size:41
Alignment explanation
Indices: 66746505--66746617 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 41
66746495 AATGCCACTA
* * *
66746505 TCCCAGACAGGGTCTTACACAAAATCAAATGCGATGACGATG
1 TCCCAGACATGGTCTTACACAAAATCAAAT-CAATGACAATG
* * *
66746547 TCCCAAACATGGTCTTACATGAAAATCTCAAATCAATGCCAATG
1 TCCCAGACATGGTCTTACA-CAAAA--TCAAATCAATGACAATG
* *
66746591 TCCCAGACGTGGTCTTACACGAAATCA
1 TCCCAGACATGGTCTTACACAAAATCA
66746618 CATATCAAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
41 3 0.05
42 17 0.29
43 7 0.12
44 25 0.43
45 6 0.10
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACACAAAATCAAATCAATGACAATG
Found at i:66750286 original size:39 final size:39
Alignment explanation
Indices: 66750232--66750306 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
66750222 TTTAAGTCTC
66750232 CTTCACCGAAACTCCATAGTTTCAACTTCTCCAAGCAGA
1 CTTCACCGAAACTCCATAGTTTCAACTTCTCCAAGCAGA
* *
66750271 CTTCACTGAAACTCCATAGTTTCAACTTCTCTAAGC
1 CTTCACCGAAACTCCATAGTTTCAACTTCTCCAAGC
66750307 TTCGGTCTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (39 bp):
CTTCACCGAAACTCCATAGTTTCAACTTCTCCAAGCAGA
Found at i:66752431 original size:46 final size:46
Alignment explanation
Indices: 66752282--66752440 Score: 176
Period size: 46 Copynumber: 3.4 Consensus size: 46
66752272 TCACTGGTGT
* * * * * *
66752282 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACAATATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
* *
66752328 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* * * *
66752376 GTGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
66752423 -AGCCAGTGTAAGACATGT
1 GAGCCAGTGTAAGACATGT
66752441 GTAACACCCT
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 43 0.46
47 28 0.30
48 23 0.24
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:66754440 original size:29 final size:29
Alignment explanation
Indices: 66754408--66754505 Score: 144
Period size: 29 Copynumber: 3.4 Consensus size: 29
66754398 TTTGGGTCGG
66754408 ATGGGCCATATGAACGTGATTTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
66754437 ATGGGCCATATGAACGTGATTTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
* * *
66754466 ATAGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAACGTGATTTGGGCCTA
* *
66754494 GTGGGCAATATG
1 ATGGGCCATATG
66754506 CATGTATGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 18 0.29
29 45 0.71
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
ATGGGCCATATGAACGTGATTTGGGCCTA
Found at i:66756040 original size:46 final size:49
Alignment explanation
Indices: 66755922--66756047 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 49
66755912 CGAGATGTGT
* * *
66755922 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATAGGTGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GCACGAATAGATAAGAGC
* * *
66755972 TAGTGTAAGACCATGTCTGGGACATGGCATC-CTCG-AT-GATAATAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATAGATAAGAGC
*
66756018 CAGTGTAAGACCATGTCCGGGACATGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCAT
66756048 TAGCAACTTG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 34 0.50
47 2 0.03
48 3 0.04
50 29 0.43
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATAGATAAGAGC
Found at i:66759005 original size:29 final size:30
Alignment explanation
Indices: 66758973--66759035 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
66758963 CACGGGCCGC
*
66758973 CACATGGTTGTGTGCCACACACG-CCACCT
1 CACATGGTCGTGTGCCACACACGACCACCT
* *
66759002 CACATGGTCGTGTGCCATACACGACCACTT
1 CACATGGTCGTGTGCCACACACGACCACCT
66759032 CACA
1 CACA
66759036 CGACCATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.21
Consensus pattern (30 bp):
CACATGGTCGTGTGCCACACACGACCACCT
Done.