Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold40
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: 3440810
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 28138 characters in sequence are not A, C, G, or T
File 1 of 24
Found at i:91 original size:58 final size:57
Alignment explanation
Indices: 2--611 Score: 746
Period size: 58 Copynumber: 10.6 Consensus size: 57
1 C
* * *
2 GTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATTCCTTTCAGAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
** * * *
59 GTGGCATTTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCA
1 GTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
* *
117 GTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
* * *
174 GTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAATCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
* * * *
232 GTGGCACTCTTTTTAAAGCCCACAAGTCAGCGGCAC-CCTTTCAAAGCCCACAAGTTA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
* *
289 GTGGCACCCTTTCAGAGCCCACAAGTCAGTGGCAC-CCTTTCGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
* * * *
345 GTGGCACCATTGCGAAGCCCACAATTCAGTGGCACT-CTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
* * * *
401 GTGGCACCCTTTTAAAGCCCACACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTTA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCACTCCTTTCAAAGC-C-CACAAGTCA
* *
462 GTGGTACCTTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
* * * * *
518 GTGGCATCCTTTTAAAGCCCACGAGTTAGTGGCA-TTCTTTCAAAGCCCACGCAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCA
* *
576 GTGGCACCCTTTTAAAGCCCATGCAAGTCAATGGCA
1 GTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCA
612 ACCCTTTTCA
Statistics
Matches: 478, Mismatches: 61, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
55 1 0.00
56 153 0.32
57 87 0.18
58 177 0.37
59 26 0.05
60 13 0.03
61 21 0.04
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (57 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
Found at i:167 original size:28 final size:28
Alignment explanation
Indices: 2--623 Score: 731
Period size: 28 Copynumber: 21.6 Consensus size: 28
1 C
*
2 GTGGCACCCTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
30 GTGGCATTCCTTTCAGAGCCCACAAGTCA
1 GTGGCA-CCCTTTCAAAGCCCACAAGTCA
**
59 GTGGCATTTCTTTCAAAGCCCACAAGTCA
1 GTGGCA-CCCTTTCAAAGCCCACAAGTCA
* * *
88 GTGGCACTCTTTTCAAAGCCCATAAATCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
* *
117 GTGGCACTCTTTTCAAAGCCCACAAGTTA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
146 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
174 GTGGCACTCCTTTCAAAGCCCACAAGTTA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
* *
203 GTGGCACTCTTTTCAAAGCCCACAAATCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
* *
232 GTGGCACTCTTTTTAAAGCCCACAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACAAGTCA
* *
261 GCGGCACCCTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
289 GTGGCACCCTTTCAGAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
317 GTGGCACCCTTTCGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
345 GTGGCACCATTGCGAAGCCCACAATTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
373 GTGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
401 GTGGCACCCTTTTAAAGCCCACACAAGTCA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
* * *
431 GTGGCACTCCTTTTAAAGCTCACGCAAGTTA
1 GTGGCAC-CCTTTCAAAGC-C-CACAAGTCA
* *
462 GTGGTACCTTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
490 GTGGCACTCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
518 GTGGCATCCTTTTAAAGCCCACGAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
**
546 GTGGCATTCTTTCAAAGCCCACGCAAGTCA
1 GTGGCACCCTTTCAAAGCCCA--CAAGTCA
*
576 GTGGCACCCTTTTAAAGCCCATGCAAGTCA
1 GTGGCACCCTTTCAAAGCCCA--CAAGTCA
*
606 ATGGCAACCCTTTTCAAA
1 GTGGC-ACCC-TTTCAAA
624 TCACCACTGT
Statistics
Matches: 518, Mismatches: 65, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
28 238 0.46
29 184 0.36
30 61 0.12
31 29 0.06
32 6 0.01
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCA
Found at i:1165 original size:20 final size:19
Alignment explanation
Indices: 1137--1211 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
1127 TCATACCCTG
*
1137 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTAT-A
* *
1157 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTAT-A
*
1177 ATGTATCGATATATTCTATA
1 ATGTATCGATACATT-TATA
1197 ATGTATCGATACATT
1 ATGTATCGATACATT
1212 ATGTCTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTATA
Found at i:1204 original size:40 final size:39
Alignment explanation
Indices: 1137--1214 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
1127 TCATACCCTG
*
1137 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTTATCAATATATCGATACAT-TATGA
* *
1177 ATGTATCGATATATTCTAT-AATGTATCGATACATTATG
1 ATGTATCGATACATT-TATCAATATATCGATACATTATG
1215 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 28 0.82
41 2 0.06
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTTATCAATATATCGATACATTATGA
Found at i:4956 original size:43 final size:43
Alignment explanation
Indices: 4908--4995 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 43
4898 TTAAAAAATA
* *
4908 TTAACAATATTATAAACTTAAA-GATGATTATGTCTTTACTTAT
1 TTAACAATATTATAAAC-TAAAGGATGATTATGCCTTTACATAT
4951 TTAACAATATTATAAACTAAAGGATGATTATGCCTTTACATAT
1 TTAACAATATTATAAACTAAAGGATGATTATGCCTTTACATAT
4994 TT
1 TT
4996 TAAAAAACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (43 bp):
TTAACAATATTATAAACTAAAGGATGATTATGCCTTTACATAT
Found at i:5390 original size:20 final size:20
Alignment explanation
Indices: 5365--5414 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
5355 AAATTACCTA
5365 TAATTTTTAAATATCAATGTT
1 TAATTTTTAAATATCAAT-TT
* *
5386 T-ATTTTAAAATATTAATTT
1 TAATTTTTAAATATCAATTT
5405 TAATTTTTAA
1 TAATTTTTAA
5415 TCACTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 21 0.84
21 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TAATTTTTAAATATCAATTT
Found at i:5636 original size:21 final size:22
Alignment explanation
Indices: 5594--5640 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
5584 AATATTTATT
* *
5594 TAAAAAATTAATCACTATTTTA
1 TAAAAAAATAATCACTACTTTA
*
5616 TAAAAAAAT-ATCACTCCTTTA
1 TAAAAAAATAATCACTACTTTA
5637 -AAAA
1 TAAAA
5641 CTACTACTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 4 0.18
21 10 0.45
22 8 0.36
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAAAAAATAATCACTACTTTA
Found at i:6885 original size:2 final size:2
Alignment explanation
Indices: 6878--6910 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6868 ATTTTATCTT
6878 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6911 TTGTTTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7367 original size:24 final size:24
Alignment explanation
Indices: 7320--7364 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
7310 TATCATAAAA
7320 ATATTTTAAATAATAATAATTTAT
1 ATATTTTAAATAATAATAATTTAT
7344 ATATTTTAAATAA-AATAATTT
1 ATATTTTAAATAATAATAATTT
7365 TATGAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATATTTTAAATAATAATAATTTAT
Found at i:7458 original size:15 final size:15
Alignment explanation
Indices: 7438--7484 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
7428 ATAAAATATT
*
7438 AAATAAAAATACATA
1 AAATAAAAATAAATA
7453 AAATAAAAATAAATAA
1 AAATAAAAATAAAT-A
7469 ATAATAAAAGATAAAT
1 A-AATAAAA-ATAAAT
7485 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 13 0.46
16 2 0.07
17 7 0.25
18 6 0.21
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AAATAAAAATAAATA
Found at i:7484 original size:22 final size:21
Alignment explanation
Indices: 7428--7484 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
7418 TTTTATAATT
7428 ATAAAATATTAAATAAAAATAC
1 ATAAAATA-TAAATAAAAATAC
*
7450 ATAAAATAAAAATAAATAAATA-
1 ATAAAATATAAAT-AA-AAATAC
*
7472 ATAAAAGATAAAT
1 ATAAAATATAAAT
7485 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 21 0.70
23 5 0.17
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (21 bp):
ATAAAATATAAATAAAAATAC
Found at i:7517 original size:17 final size:17
Alignment explanation
Indices: 7479--7522 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7469 ATAATAAAAG
**
7479 ATAAATTTATTTTTTAA
1 ATAAATTTATTTAATAA
*
7496 TTAAATTTATTTAATAA
1 ATAAATTTATTTAATAA
7513 ATAAACTTTA
1 ATAAA-TTTA
7523 AGAGATTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATAAATTTATTTAATAA
Found at i:13845 original size:6 final size:6
Alignment explanation
Indices: 13834--13889 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
13824 ATCCATGGAG
13834 ATTACT ATTACT ATTACT ATTACT ATTACT ATTACT ATTACT ATTACT
1 ATTACT ATTACT ATTACT ATTACT ATTACT ATTACT ATTACT ATTACT
13882 ATTACT AT
1 ATTACT AT
13890 AACCGTGAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTACT
Found at i:14254 original size:4 final size:4
Alignment explanation
Indices: 14245--14280 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
14235 TGGGAAAAGC
14245 AAAT AAAT AAAT AAAT AAAT AAAT AAGA- AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT
14281 CAGTCACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 1 0.03
4 28 0.93
5 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:16944 original size:24 final size:24
Alignment explanation
Indices: 16917--16970 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
16907 AATGTGAGGT
*
16917 AAATTATA-ATAAAAAATAATATTA
1 AAATTATATATAAAAAATAAT-TAA
*
16941 AAA-TATATATAATAAATAATTAA
1 AAATTATATATAAAAAATAATTAA
16964 AAATTAT
1 AAATTAT
16971 TAAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATTATATATAAAAAATAATTAA
Found at i:17445 original size:27 final size:28
Alignment explanation
Indices: 17388--17445 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
17378 ATTTTTTTTC
* * *
17388 TTAAATATGTATTAAAATTATATTTATA
1 TTAAATATGTAATAAAATTATATTAAAA
*
17416 TTAAATA-GTAATAAAATTTTATTAAAA
1 TTAAATATGTAATAAAATTATATTAAAA
17443 TTA
1 TTA
17446 TATTTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (28 bp):
TTAAATATGTAATAAAATTATATTAAAA
Found at i:18014 original size:34 final size:33
Alignment explanation
Indices: 17966--18186 Score: 257
Period size: 34 Copynumber: 6.5 Consensus size: 33
17956 TGGTAAAAAC
*
17966 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
17999 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
18033 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
18067 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
18101 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
* *
18135 CACCCATTTAATCAATAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
18169 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
18187 TCTCCCACTT
Statistics
Matches: 160, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
33 22 0.14
34 132 0.82
35 6 0.04
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:18082 original size:68 final size:67
Alignment explanation
Indices: 17968--18186 Score: 287
Period size: 68 Copynumber: 3.2 Consensus size: 67
17958 GTAAAAACCA
* * *
17968 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
18033 CAC
65 CAC
* * * *
18036 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
18101 CTC
65 CAC
* * * * *
18104 CCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAATAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTA-CCATTTAATCAACAATGGTAAGCTACCAAAT
18169 CA-
65 CAC
18171 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
18187 TCTCCCACTT
Statistics
Matches: 131, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
67 17 0.13
68 113 0.86
69 1 0.01
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.26
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:18110 original size:102 final size:101
Alignment explanation
Indices: 17966--18186 Score: 361
Period size: 102 Copynumber: 2.2 Consensus size: 101
17956 TGGTAAAAAC
* *
17966 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
*
18031 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAATAATGGTAAACTACCAAAT
** * * *
18067 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
18132 AATCACCCATTTAATCAATAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAATAATGGTAAACTACCAAAT
18169 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
18187 TCTCCCACTT
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 16 0.15
102 93 0.85
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAATAATGGTAAACTACCAAAT
Found at i:22643 original size:34 final size:33
Alignment explanation
Indices: 22595--22813 Score: 253
Period size: 34 Copynumber: 6.5 Consensus size: 33
22585 TGGTAAAAAC
*
22595 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
22628 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
22662 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
22696 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
22730 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
* *
22764 CACCCATTTAATCAATAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
22798 CACCATTTAATCAACA
1 CACCATTTAATCAACA
22814 TCTACCACCT
Statistics
Matches: 158, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
33 20 0.13
34 132 0.84
35 6 0.04
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:22711 original size:68 final size:67
Alignment explanation
Indices: 22597--22813 Score: 283
Period size: 68 Copynumber: 3.2 Consensus size: 67
22587 GTAAAAACCA
* * *
22597 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
22662 CAC
65 CAC
* * * *
22665 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
22730 CTC
65 CAC
* * * * *
22733 CCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAATAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTA-CCATTTAATCAACAATGGTAAGCTACCAAAT
22798 CA-
65 CAC
22800 CCATTTAATCAACA
1 CCATTTAATCAACA
22814 TCTACCACCT
Statistics
Matches: 129, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
67 15 0.12
68 113 0.88
69 1 0.01
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:22739 original size:102 final size:101
Alignment explanation
Indices: 22595--22813 Score: 357
Period size: 102 Copynumber: 2.2 Consensus size: 101
22585 TGGTAAAAAC
* *
22595 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
*
22660 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAATAATGGTAAACTACCAAAT
** * * *
22696 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
22761 AATCACCCATTTAATCAATAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAATAATGGTAAACTACCAAAT
22798 CACCATTTAATCAACA
1 CACCATTTAATCAACA
22814 TCTACCACCT
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 14 0.13
102 93 0.87
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAATAATGGTAAACTACCAAAT
Found at i:23083 original size:27 final size:27
Alignment explanation
Indices: 23044--23109 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
23034 AACAAATAAA
* * *
23044 TTTATATACTTATGTAATAATTAATTT
1 TTTATATACTTATATAAAAATAAATTT
* *
23071 TTTATTTATTTATATAAAAATAAA---
1 TTTATATACTTATATAAAAATAAATTT
23095 TTTATATACTTATAT
1 TTTATATACTTATAT
23110 GATAGTTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 13 0.41
27 19 0.59
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (27 bp):
TTTATATACTTATATAAAAATAAATTT
Found at i:23119 original size:51 final size:53
Alignment explanation
Indices: 23013--23121 Score: 159
Period size: 51 Copynumber: 2.1 Consensus size: 53
23003 ATATACTTTA
*
23013 AATTATTTATTCATTTAGTATAACAAATAAATTTATATACTTATGTAATAATT
1 AATTATTTATTCATTTAGTATAACAAATAAATTTATATACTTATATAATAATT
* * * *
23066 AATTTTTTATTTATTTA-TATAA-AAATAAATTTATATACTTATATGATAGTT
1 AATTATTTATTCATTTAGTATAACAAATAAATTTATATACTTATATAATAATT
23117 AATTA
1 AATTA
23122 ATATATAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 30 0.60
52 5 0.10
53 15 0.30
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (53 bp):
AATTATTTATTCATTTAGTATAACAAATAAATTTATATACTTATATAATAATT
Found at i:31818 original size:13 final size:13
Alignment explanation
Indices: 31800--31824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31790 CAAAGATCAG
31800 TGTATCGATACAA
1 TGTATCGATACAA
31813 TGTATCGATACA
1 TGTATCGATACA
31825 TTTGGGTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:31977 original size:21 final size:21
Alignment explanation
Indices: 31927--31977 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
31917 TTTTTAACCG
** *
31927 TTTGGACCTTGTATCGATACA
1 TTTGGACAATGTATCGAGACA
*
31948 TTCT-AACAATGTATCGAGACA
1 TT-TGGACAATGTATCGAGACA
31969 TTTGGACAA
1 TTTGGACAA
31978 AAATGTGATT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (21 bp):
TTTGGACAATGTATCGAGACA
Found at i:32579 original size:89 final size:89
Alignment explanation
Indices: 32317--32596 Score: 366
Period size: 89 Copynumber: 3.1 Consensus size: 89
32307 GCAAACTCCA
* *
32317 AGTTTTTCTCTGATAAGCTCAAATTTGCTGACTGACAAAAGG-TTTGTAAATAAGTCAGCCAGTT
1 AGTTATTCTCTGTTAAGCTCAAATTTGCTGACTGAC-AAAGGCTTTGTAAATAAGTCAGCCAGTT
32381 GTTCTTCTGTCCTGCAGTAGATAAG
65 GTTCTTCTGTCCTGCAGTAGATAAG
** **** ** * **
32406 AGTTATATCTCCATTCTTTTGCAAATAAG-TCAACCAACAAAGGCTTTGTAAATAAGTCAGCCAG
1 AGTTAT-TCTCTGTTAAGCT-CAAATTTGCT-GACTGACAAAGGCTTTGTAAATAAGTCAGCCAG
*
32470 TTGTTCTTCTGTCCTACAGTAGATAAG
63 TTGTTCTTCTGTCCTGCAGTAGATAAG
*
32497 AGTTGTTCTCTGTTAAGCTCAAATTTGCTGACTGACAAAGGCTTTGTAAATAAGTCAGCCAGTTG
1 AGTTATTCTCTGTTAAGCTCAAATTTGCTGACTGACAAAGGCTTTGTAAATAAGTCAGCCAGTTG
32562 TTCTTCTGTCCTGCAGTAGATAAG
66 TTCTTCTGTCCTGCAGTAGATAAG
32586 AGTTATATCTC
1 AGTTAT-TCTC
32597 CATTCTTTTG
Statistics
Matches: 157, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
89 72 0.46
90 24 0.15
91 61 0.39
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (89 bp):
AGTTATTCTCTGTTAAGCTCAAATTTGCTGACTGACAAAGGCTTTGTAAATAAGTCAGCCAGTTG
TTCTTCTGTCCTGCAGTAGATAAG
Found at i:34113 original size:115 final size:115
Alignment explanation
Indices: 33911--34145 Score: 452
Period size: 115 Copynumber: 2.0 Consensus size: 115
33901 AACCAGCTCC
*
33911 CATATTTTGTTCTTCTCAATCATAGACAACTCCTCCTCCATTGCAACCATCCAATTTTGATCTTT
1 CATATTTTGTTCTTCTCAATCATAGACAACTCCTCCTCCATTGCAACCATCCAATTTTGATATTT
*
33976 CTCTACTGCTCTAAAATCTGCAGGTTCACAAAGAGCAATGTTGCACCTCT
66 CTCTACTGCTCCAAAATCTGCAGGTTCACAAAGAGCAATGTTGCACCTCT
34026 CATATTTTGTTCTTCTCAATCATAGACAACTCCTCCTCCATTGCAACCATCCAATTTTGATATTT
1 CATATTTTGTTCTTCTCAATCATAGACAACTCCTCCTCCATTGCAACCATCCAATTTTGATATTT
34091 CTCTACTGCTCCAAAATCTGCAGGTTCACAAAGAGCAATGTTGCACCTCT
66 CTCTACTGCTCCAAAATCTGCAGGTTCACAAAGAGCAATGTTGCACCTCT
34141 CATAT
1 CATAT
34146 ATATCAAAGA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 118 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (115 bp):
CATATTTTGTTCTTCTCAATCATAGACAACTCCTCCTCCATTGCAACCATCCAATTTTGATATTT
CTCTACTGCTCCAAAATCTGCAGGTTCACAAAGAGCAATGTTGCACCTCT
Found at i:38540 original size:17 final size:17
Alignment explanation
Indices: 38518--38566 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
38508 TTGAATTCAT
*
38518 ATAATTCAAATTTAAAA
1 ATAATTTAAATTTAAAA
*
38535 ATAATTTAAACTTAAAA
1 ATAATTTAAATTTAAAA
*
38552 A-GATTTAAATTTAAA
1 ATAATTTAAATTTAAA
38567 TTACTTTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (17 bp):
ATAATTTAAATTTAAAA
Found at i:38984 original size:13 final size:13
Alignment explanation
Indices: 38966--38990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38956 TATTATTCAG
38966 TATAATTTAATAA
1 TATAATTTAATAA
38979 TATAATTTAATA
1 TATAATTTAATA
38991 TAAATTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAATTTAATAA
Found at i:39334 original size:17 final size:17
Alignment explanation
Indices: 39314--39361 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
39304 TTTGTAATTT
39314 TTAAAATTTAAAAGTAA-
1 TTAAAATTTAAAA-TAAC
*
39331 TTAAAATTCAAAATAAC
1 TTAAAATTTAAAATAAC
39348 TTAAAATTTAAAAT
1 TTAAAATTTAAAAT
39362 TATTTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 3 0.11
17 25 0.89
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (17 bp):
TTAAAATTTAAAATAAC
Found at i:39368 original size:17 final size:17
Alignment explanation
Indices: 39309--39369 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
39299 TTTTTTTTGT
39309 AATT-TTTAAAATTTAA
1 AATTATTTAAAATTTAA
* * *
39325 AAGTAATTAAAATTCAA
1 AATTATTTAAAATTTAA
* *
39342 AATAACTTAAAATTTAA
1 AATTATTTAAAATTTAA
39359 AATTATTTAAA
1 AATTATTTAAA
39370 TTAAATTAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
16 3 0.09
17 32 0.91
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (17 bp):
AATTATTTAAAATTTAA
Found at i:40153 original size:20 final size:18
Alignment explanation
Indices: 40125--40179 Score: 67
Period size: 17 Copynumber: 3.0 Consensus size: 18
40115 GATCTATAAA
*
40125 ATTTATATTAATTATTTAT
1 ATTTTTATTAATTATTT-T
40144 GATTTTTATTAA-TATTTT
1 -ATTTTTATTAATTATTTT
*
40162 ATTTTTATTCATTATTTT
1 ATTTTTATTAATTATTTT
40180 TAAAAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 10 0.31
18 7 0.22
19 5 0.16
20 10 0.31
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTTATTAATTATTTT
Found at i:40187 original size:60 final size:61
Alignment explanation
Indices: 40122--40249 Score: 147
Period size: 60 Copynumber: 2.1 Consensus size: 61
40112 TATGATCTAT
* * * * *
40122 AAAATTTATA-TTAATTATTTAT-GAT-TTTTATTAATATTTTATTTTTATTCATTATTTTTA
1 AAAATTTATACTT-ATCATTT-TCGATCTTTGATTAAGATTTTATTTTTATTCATAACTTTTA
* *
40182 AAAA-TTATACTTATCATTTTCTATCTTTGATTAGGATTTTATTTTTATTCATAACTTTTA
1 AAAATTTATACTTATCATTTTCGATCTTTGATTAAGATTTTATTTTTATTCATAACTTTTA
40242 AAAATTTA
1 AAAATTTA
40250 ATCTACCAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
58 1 0.02
59 13 0.23
60 40 0.70
61 3 0.05
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (61 bp):
AAAATTTATACTTATCATTTTCGATCTTTGATTAAGATTTTATTTTTATTCATAACTTTTA
Found at i:40925 original size:29 final size:32
Alignment explanation
Indices: 40893--40952 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 32
40883 TTTTTTAATA
40893 TTATGGATAA-T-AAATATAA-TTTTAAAAAG
1 TTATGGATAAGTGAAATATAATTTTTAAAAAG
*
40922 TTATTGATAAGTGAAATATAATTTTTAAAAA
1 TTATGGATAAGTGAAATATAATTTTTAAAAA
40953 TCACAGATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.33
30 1 0.04
31 8 0.30
32 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (32 bp):
TTATGGATAAGTGAAATATAATTTTTAAAAAG
Found at i:47834 original size:16 final size:16
Alignment explanation
Indices: 47815--47877 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
47805 TTATTTTTCG
*
47815 ATTTAAGTATTTTTAA
1 ATTTAAATATTTTTAA
*
47831 ATTTAAATTTTTTTAA
1 ATTTAAATATTTTTAA
*
47847 ATTTAAAT-TATTTCAA
1 ATTTAAATAT-TTTTAA
*
47863 ATTTGAATTATTTTT
1 ATTT-AAATATTTTT
47878 GATAATGACG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 1 0.03
16 31 0.79
17 6 0.15
18 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTTAAATATTTTTAA
Found at i:48712 original size:39 final size:44
Alignment explanation
Indices: 48667--48786 Score: 126
Period size: 39 Copynumber: 2.7 Consensus size: 44
48657 CTATGTTTGA
48667 ATATTTTATTATATTAA-AA-TTATATT-TATAAA-ATT-TTAT
1 ATATTTTATTATATTAATAATTTATATTATATAAATATTATTAT
*
48706 ATATTTTAATATATTAATAATTTATATTATATAAATATTAAATTAT
1 ATATTTTATTATATTAATAATTTATATTATATAAATATT--ATTAT
*
48752 ATATTTGTATTATGTATTTAATATTTTAT-TTATAT
1 ATATTT-TATTA--TA-TTAATAATTTATATTATAT
48787 TATATTCGTA
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
39 16 0.24
40 2 0.03
41 7 0.10
42 6 0.09
43 3 0.04
46 10 0.15
47 4 0.06
49 8 0.12
50 11 0.16
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (44 bp):
ATATTTTATTATATTAATAATTTATATTATATAAATATTATTAT
Found at i:51669 original size:32 final size:31
Alignment explanation
Indices: 51601--51673 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
51591 GATAAAATAT
* *
51601 TTTAATGATTATCAAATTTATGAATAGTTATG
1 TTTAAT-ATTATCAAATTTATGAATAATTATA
*
51633 TTTAATATTCATCAAATTTAT-AAGTAATTTTA
1 TTTAATATT-ATCAAATTTATGAA-TAATTATA
51665 TTTAATATT
1 TTTAATATT
51674 TAATAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 5 0.14
32 31 0.86
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTAATATTATCAAATTTATGAATAATTATA
Found at i:54461 original size:10 final size:10
Alignment explanation
Indices: 54443--54482 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
54433 TCAATTAAAT
54443 TACAT-TATA
1 TACATATATA
*
54452 TGCATATATA
1 TACATATATA
*
54462 TATATATATA
1 TACATATATA
54472 TACATATATA
1 TACATATATA
54482 T
1 T
54483 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (10 bp):
TACATATATA
Found at i:55866 original size:2 final size:2
Alignment explanation
Indices: 55859--55888 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
55849 ATAGATACTG
55859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55889 CATTGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68165 original size:2 final size:2
Alignment explanation
Indices: 68158--68187 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
68148 ATAACATGAA
68158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68188 CAATAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71326 original size:7 final size:7
Alignment explanation
Indices: 71310--71344 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
71300 AGCCAGCAAG
71310 AAAA-AA
1 AAAAGAA
71316 AAAAGAA
1 AAAAGAA
71323 AAAAGAA
1 AAAAGAA
71330 AAAAGAA
1 AAAAGAA
71337 AAAAGAA
1 AAAAGAA
71344 A
1 A
71345 TGCTTTGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:76884 original size:23 final size:22
Alignment explanation
Indices: 76846--76914 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
76836 AATTTAATCA
*
76846 TAAAAATATATAAATATTAAAAT
1 TAAAAAT-TATTAATATTAAAAT
* **
76869 TAAAATATTTTTAATATTTTAA-
1 TAAAA-ATTATTAATATTAAAAT
76891 TAAAAATTATTACATATTAAAAT
1 TAAAAATTATTA-ATATTAAAAT
76914 T
1 T
76915 TATATAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
21 6 0.17
22 12 0.33
23 16 0.44
24 2 0.06
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAAAATTATTAATATTAAAAT
Found at i:77896 original size:19 final size:19
Alignment explanation
Indices: 77858--77897 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
77848 GTTAAAAATT
* * *
77858 TATATTTTTATTTTATTAA
1 TATATTTTAATGTTAGTAA
77877 TATATTTTAATGTTAGTAA
1 TATATTTTAATGTTAGTAA
77896 TA
1 TA
77898 AATATGTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TATATTTTAATGTTAGTAA
Found at i:78202 original size:19 final size:21
Alignment explanation
Indices: 78173--78217 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
78163 TTGAAAATTC
78173 TTTTAAGAATTATTATT-ATT
1 TTTTAAGAATTATTATTGATT
*
78193 TTTTAA-AATTATTTTTGATT
1 TTTTAAGAATTATTATTGATT
78213 TTTTA
1 TTTTA
78218 TTAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTAAGAATTATTATTGATT
Found at i:78834 original size:19 final size:20
Alignment explanation
Indices: 78810--78847 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
78800 ATAGGTAATG
78810 TATTTGTGTAAAA-AATTAA
1 TATTTGTGTAAAACAATTAA
78829 TATTTGTGTAAAACAATTA
1 TATTTGTGTAAAACAATTA
78848 TTGAAGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (20 bp):
TATTTGTGTAAAACAATTAA
Found at i:79385 original size:21 final size:20
Alignment explanation
Indices: 79346--79385 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
79336 TGATTGAATA
*
79346 GAAAAATCTTTATAGGTAAT
1 GAAAAATCTTTATAAGTAAT
*
79366 GAAAAATCTCTTGTAAGTAA
1 GAAAAATCT-TTATAAGTAA
79386 CTTGTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (20 bp):
GAAAAATCTTTATAAGTAAT
Found at i:84414 original size:15 final size:15
Alignment explanation
Indices: 84390--84419 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84380 ATGCATATTT
84390 ACTTAATTTATTTAA
1 ACTTAATTTATTTAA
*
84405 ACTTATTTTATTTAA
1 ACTTAATTTATTTAA
84420 TTATATTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
ACTTAATTTATTTAA
Found at i:84463 original size:115 final size:114
Alignment explanation
Indices: 84323--84601 Score: 346
Period size: 115 Copynumber: 2.4 Consensus size: 114
84313 GTTATTTAAC
* * * *
84323 TATTTAATTTGTAGCCAAGTTTTATAAAAAATATATATTAGATAAAATAAGGTTCACATGCATAT
1 TATTTAATTTGAAGCAAAGCTTTATAAAAAATATATATTAGATAAAATAAGCTT-ACATGCATAT
* * * *
84388 TTACTTAATTTATTTAAACTTATTTTATTTAATTATATTAGATCATAAAT
65 TTAATTAATTAATTTAAACCTATTTGATTTAATTATATTAGATCATAAAT
* * *
84438 TATTTAATTTGAAGCAAAGCTTTATAAAAAATATACATTAGATAATATAAAGCTTATATGCATAT
1 TATTTAATTTGAAGCAAAGCTTTATAAAAAATATATATTAGATAAAAT-AAGCTTACATGCATAT
* * * *
84503 TTAATTAATTAATTTGAGCCTATTTGATTTAATTATATTAGGTTATAAAT
65 TTAATTAATTAATTTAAACCTATTTGATTTAATTATATTAGATCATAAAT
* * *
84553 TATTTAATTT-AAGATCAAA-CGTTATAAAAATTATATATTAAATAAAATA
1 TATTTAATTTGAAG--CAAAGCTTTATAAAAAATATATATTAGATAAAATA
84602 GGGAACACGT
Statistics
Matches: 141, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
114 4 0.03
115 128 0.91
116 9 0.06
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (114 bp):
TATTTAATTTGAAGCAAAGCTTTATAAAAAATATATATTAGATAAAATAAGCTTACATGCATATT
TAATTAATTAATTTAAACCTATTTGATTTAATTATATTAGATCATAAAT
Found at i:85040 original size:30 final size:25
Alignment explanation
Indices: 84981--85029 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
84971 TTTAGAATAC
*
84981 AATAAAGTCAAAATCTTTTAACCAA
1 AATAGAGTCAAAATCTTTTAACCAA
85006 AATAGAGTCAAAATCTTTTAACCA
1 AATAGAGTCAAAATCTTTTAACCA
85030 GTTAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (25 bp):
AATAGAGTCAAAATCTTTTAACCAA
Found at i:86240 original size:18 final size:18
Alignment explanation
Indices: 86217--86251 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
86207 AATATTAGGC
86217 ATATCTTTACAACCTTAA
1 ATATCTTTACAACCTTAA
86235 ATATCTTTACAACCTTA
1 ATATCTTTACAACCTTA
86252 TTGATACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATCTTTACAACCTTAA
Found at i:88277 original size:16 final size:17
Alignment explanation
Indices: 88256--88299 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
88246 TATCATAGTC
88256 ATATTTAAATT-ATTTT
1 ATATTTAAATTAATTTT
*
88272 ATATTTATATTAATTTT
1 ATATTTAAATTAATTTT
88289 -TA--TAAATTAAT
1 ATATTTAAATTAAT
88300 AATATGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 8 0.32
16 12 0.48
17 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTTAAATTAATTTT
Found at i:88514 original size:22 final size:23
Alignment explanation
Indices: 88460--88516 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
88450 TTTTTTTAAT
88460 TATAAAAAGATTGTAGCATGGGA
1 TATAAAAAGATTGTAGCATGGGA
**
88483 TATAAAAAGATTGTATTATGGGA
1 TATAAAAAGATTGTAGCATGGGA
88506 TA-AAAAAGATT
1 TATAAAAAGATT
88517 ATATATGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 9 0.28
23 23 0.72
ACGTcount: A:0.47, C:0.02, G:0.21, T:0.30
Consensus pattern (23 bp):
TATAAAAAGATTGTAGCATGGGA
Found at i:89030 original size:3 final size:3
Alignment explanation
Indices: 89022--89058 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
89012 TTAAGTGTTT
89022 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
89059 ATGATTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:92715 original size:54 final size:53
Alignment explanation
Indices: 92554--93025 Score: 211
Period size: 54 Copynumber: 8.9 Consensus size: 53
92544 ATTCCCTATT
*
92554 AATTAC-TATTTAAAAATAATAAAAAA-T-AAAA-A-A-TTTATATTAAATTCTA
1 AATTACTTA-TTAAAAATAATAAAAAATTAAAAACATATTTTATATTAAA-TCCA
* * *
92603 AATTACTTTTTAAAAATAACAAAAAATTAAAAACATATTTTATATTAAATCTCG
1 AATTACTTATTAAAAATAATAAAAAATTAAAAACATATTTTATATTAAATC-CA
*
92657 AATTACTTATTAAAAATAATAAAAAATTAAAAACATATTTTATATTAAACCACA
1 AATTACTTATTAAAAATAATAAAAAATTAAAAACATATTTTATATTAAATC-CA
* *** * ** ** **
92711 AATTA-TATTTTAAAAA-ATATTTCATATTAAATCTCGAATTACTGTTTA-AAAATAATAAA
1 AATTACT-TATTAAAAATA-ATAAAAAATTAAA-AAC--A-TA-T-TTTATATTA-AATCCA
** * *
92770 AAAAAC-TA--AAAACATATTTTTATTAAAAAATT-AAAATATATTTTATGTTAAATCCCA
1 AATTACTTATTAAAA-ATA-----A-TAAAAAATTAAAAACATATTTTATATTAAAT-CCA
* * * **
92827 AATTAC-CATTTAAAAATGATAAAAAATTAACAAC-TATTTTATA--AACCCCA
1 AATTACTTA-TTAAAAATAATAAAAAATTAAAAACATATTTTATATTAAATCCA
* ** ***
92877 AATTAC-TATTAAAACATAATAAAAAA-TGAAAACATATTTTATATTCAGTTTTG
1 AATTACTTATTAAAA-ATAATAAAAAATTAAAAACATATTTTATATT-AAATCCA
***
92930 AATTAC-TATTTAAAAATAATAAAAAA-TAAAAA-ATATTTTATATTAAATATTG
1 AATTACTTA-TTAAAAATAATAAAAAATTAAAAACATATTTTATATTAAAT-CCA
*
92982 AATTACTGT-TTAAAAATAATAAAAGA-TAAAAA-ATATTTTATATT
1 AATTACT-TATTAAAAATAATAAAAAATTAAAAACATATTTTATATT
93026 GATTATTTAG
Statistics
Matches: 325, Mismatches: 59, Indels: 75
0.71 0.13 0.16
Matches are distributed among these distances:
49 33 0.10
50 31 0.10
51 8 0.02
52 56 0.17
53 47 0.14
54 93 0.29
55 1 0.00
56 11 0.03
57 10 0.03
58 6 0.02
59 10 0.03
60 10 0.03
62 4 0.01
63 5 0.02
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (53 bp):
AATTACTTATTAAAAATAATAAAAAATTAAAAACATATTTTATATTAAATCCA
Found at i:92738 original size:90 final size:91
Alignment explanation
Indices: 92629--92796 Score: 270
Period size: 90 Copynumber: 1.8 Consensus size: 91
92619 TAACAAAAAA
* *
92629 TTAAAAACATATTTTATATTAAATCTCGAATTACT-TATTAAAAATAAT-AAAAAATTAAAAACA
1 TTAAAAACATATTTCATATTAAATCTCGAATTACTGT-TTAAAAATAATAAAAAAACTAAAAACA
92692 TATTTTATATTAAACCACAAATTATATT
65 TATTTT-TATTAAACCACAAATTATATT
92720 TTAAAAA-ATATTTCATATTAAATCTCGAATTACTGTTTAAAAATAATAAAAAAAACTAAAAACA
1 TTAAAAACATATTTCATATTAAATCTCGAATTACTGTTTAAAAATAAT-AAAAAAACTAAAAACA
92784 TATTTTTATTAAA
65 TATTTTTATTAAA
92797 AAATTAAAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
90 37 0.51
91 15 0.21
92 20 0.28
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (91 bp):
TTAAAAACATATTTCATATTAAATCTCGAATTACTGTTTAAAAATAATAAAAAAACTAAAAACAT
ATTTTTATTAAACCACAAATTATATT
Found at i:92851 original size:53 final size:53
Alignment explanation
Indices: 92793--93025 Score: 226
Period size: 52 Copynumber: 4.5 Consensus size: 53
92783 ATATTTTTAT
* * * *
92793 TAAAAAATTAAAATATATTTTATGTTAAATCCCAAATTACCATTTAAAAATGA
1 TAAAAAATTAAAAAATATTTTATATTAAATCCCAAATTACTATTTAAAAATAA
* * *
92846 TAAAAAATTAACAACTA-TTT-TA-TAAACCCCAAATTACTA-TTAAAACATAA
1 TAAAAAATTAAAAAATATTTTATATTAAATCCCAAATTACTATTTAAAA-ATAA
* * * * ****
92896 TAAAAAATGAAAACATATTTTATATTCAGTTTTGAATTACTATTTAAAAATAA
1 TAAAAAATTAAAAAATATTTTATATTAAATCCCAAATTACTATTTAAAAATAA
**** *
92949 TAAAAAA-TAAAAAATATTTTATATTAAATATTGAATTACTGTTTAAAAATAA
1 TAAAAAATTAAAAAATATTTTATATTAAATCCCAAATTACTATTTAAAAATAA
*
93001 TAAAAGA-TAAAAAATATTTTATATT
1 TAAAAAATTAAAAAATATTTTATATT
93026 GATTATTTAG
Statistics
Matches: 150, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
49 6 0.04
50 31 0.21
51 4 0.03
52 68 0.45
53 35 0.23
54 6 0.04
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.36
Consensus pattern (53 bp):
TAAAAAATTAAAAAATATTTTATATTAAATCCCAAATTACTATTTAAAAATAA
Found at i:92899 original size:50 final size:50
Alignment explanation
Indices: 92793--92919 Score: 141
Period size: 50 Copynumber: 2.5 Consensus size: 50
92783 ATATTTTTAT
* * * *
92793 TAAAAAATTAAAATATATTTTATGTTAAATCCCAAATTACCATTTAAAAATGA
1 TAAAAAATGAAAACATATTTTA---TAAACCCCAAATTACCATTTAAAAATAA
* *
92846 TAAAAAATTAACAAC-TATTTTATAAACCCCAAATTACTA-TTAAAACATAA
1 TAAAAAATGAA-AACATATTTTATAAACCCCAAATTACCATTTAAAA-ATAA
92896 TAAAAAATGAAAACATATTTTATA
1 TAAAAAATGAAAACATATTTTATA
92920 TTCAGTTTTG
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
49 9 0.14
50 37 0.56
53 18 0.27
54 2 0.03
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (50 bp):
TAAAAAATGAAAACATATTTTATAAACCCCAAATTACCATTTAAAAATAA
Found at i:95314 original size:22 final size:24
Alignment explanation
Indices: 95264--95314 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
95254 TATTAACATA
*
95264 TTATTGAATTCATACTTTTTACTT
1 TTATTAAATTCATACTTTTTACTT
* *
95288 GTATTAAATT-ATA-TTTTTATTT
1 TTATTAAATTCATACTTTTTACTT
95310 TTATT
1 TTATT
95315 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 12 0.52
23 3 0.13
24 8 0.35
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (24 bp):
TTATTAAATTCATACTTTTTACTT
Found at i:95612 original size:21 final size:20
Alignment explanation
Indices: 95575--95617 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
95565 GAATAAAATA
95575 AAAATAAAAAATATTT-ATT
1 AAAATAAAAAATATTTAATT
95594 AAAATAAATAAATTATTTAATT
1 AAAATAAA-AAA-TATTTAATT
95616 AA
1 AA
95618 CAATTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 3 0.14
21 5 0.24
22 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATAAAAAATATTTAATT
Found at i:96034 original size:41 final size:41
Alignment explanation
Indices: 95984--96106 Score: 167
Period size: 41 Copynumber: 3.0 Consensus size: 41
95974 TTGATAATTG
* * * *
95984 TCCTCCTTTC-AATAGGTGTATGGCCGGCCAATGCTATGAT
1 TCCTACTTTCAAATAGGTGTCTGGGCAGCCAATGCTATGAT
* *
96024 TCCTAACTTTCAAATAGGTGCCTGGGCAGCCACTGCTATGAT
1 TCCT-ACTTTCAAATAGGTGTCTGGGCAGCCAATGCTATGAT
*
96066 TCCTACTTTCAAATAGGTGTCTGGGCAGCCAGTGCTATGAT
1 TCCTACTTTCAAATAGGTGTCTGGGCAGCCAATGCTATGAT
96107 AATATCCTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
40 4 0.05
41 40 0.55
42 29 0.40
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (41 bp):
TCCTACTTTCAAATAGGTGTCTGGGCAGCCAATGCTATGAT
Found at i:98672 original size:29 final size:29
Alignment explanation
Indices: 98631--98694 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
98621 GTGGTTATCG
98631 TTAA-AGACTAATCGAATGAATAATTTAT
1 TTAATAGACTAATCGAATGAATAATTTAT
98659 TTAATAGACTAATCGAATGAATAATTTAT
1 TTAATAGACTAATCGAATGAATAATTTAT
98688 TTAATAG
1 TTAATAG
98695 TCTCCCCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.11
29 31 0.89
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (29 bp):
TTAATAGACTAATCGAATGAATAATTTAT
Found at i:100900 original size:11 final size:11
Alignment explanation
Indices: 100886--100926 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
100876 CTTTCTTATC
100886 AATTAATAATT
1 AATTAATAATT
100897 AATTAATAATT
1 AATTAATAATT
100908 -A--AA-AATT
1 AATTAATAATT
100915 AATTAATAATT
1 AATTAATAATT
100926 A
1 A
100927 TTGTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
7 4 0.15
8 3 0.12
10 3 0.12
11 16 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATTAATAATT
Found at i:100909 original size:18 final size:18
Alignment explanation
Indices: 100886--100926 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
100876 CTTTCTTATC
*
100886 AATTAATAATTAATTAAT
1 AATTAAAAATTAATTAAT
100904 AATTAAAAATTAATTAAT
1 AATTAAAAATTAATTAAT
100922 AATTA
1 AATTA
100927 TTGTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAAAAATTAATTAAT
Found at i:103331 original size:16 final size:16
Alignment explanation
Indices: 103310--103360 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
103300 GCTCTGCATA
103310 TATATATATATTATAT
1 TATATATATATTATAT
**
103326 TATATATATAGGCATAT
1 TATATATATA-TTATAT
*
103343 ATACATATATATTATAT
1 -TATATATATATTATAT
103360 T
1 T
103361 GTGAATATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 11 0.39
17 8 0.29
18 9 0.32
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (16 bp):
TATATATATATTATAT
Found at i:103835 original size:26 final size:26
Alignment explanation
Indices: 103806--103866 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
103796 GACTCTTGGG
103806 GTTCACATGTTTATGGGAAATGTGAA
1 GTTCACATGTTTATGGGAAATGTGAA
103832 GTTCACATGTTTATGGGAAATGTGAA
1 GTTCACATGTTTATGGGAAATGTGAA
103858 GTTCACATG
1 GTTCACATG
103867 AGAGGGAGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (26 bp):
GTTCACATGTTTATGGGAAATGTGAA
Found at i:105030 original size:66 final size:67
Alignment explanation
Indices: 104956--105100 Score: 186
Period size: 66 Copynumber: 2.2 Consensus size: 67
104946 AAATATTATT
* * *
104956 TATTTTTATTTATAGAAA-TTTAAATTTGTTTTCTAGTTTGATTATACAAGTTTAAATT-TTTTA
1 TATTTTTATTTATA-AAAGTTTAAATTTATTTTCTAGGTTGATTATACAAGTTAAAATTATTTTA
105019 AGG
65 AGG
* * **
105022 TATTTTTATTTGTAAAAGTTTAAATTTATTTTTTAGGTTGATTATAGGAGTTAAAATTATTTTAA
1 TATTTTTATTTATAAAAGTTTAAATTTATTTTCTAGGTTGATTATACAAGTTAAAATTATTTTAA
105087 GG
66 GG
*
105089 TATAATTTATTT
1 TAT-TTTTATTT
105101 TTATTTGTAG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
65 3 0.04
66 47 0.69
67 11 0.16
68 7 0.10
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.54
Consensus pattern (67 bp):
TATTTTTATTTATAAAAGTTTAAATTTATTTTCTAGGTTGATTATACAAGTTAAAATTATTTTAA
GG
Found at i:106722 original size:31 final size:31
Alignment explanation
Indices: 106684--106794 Score: 150
Period size: 31 Copynumber: 3.6 Consensus size: 31
106674 CGAGTTGGAA
*
106684 TAAAAACCACTATTCTTATCTGATGGCACGG
1 TAAAAACCACTATTCTTATCCGATGGCACGG
* *
106715 TAAAAACCACTATTTTTATCCGGTGGCACGG
1 TAAAAACCACTATTCTTATCCGATGGCACGG
* * * *
106746 CAAAAACCATTATTCTTATCCGATGACATGG
1 TAAAAACCACTATTCTTATCCGATGGCACGG
*
106777 TAAAAACCATTATTCTTA
1 TAAAAACCACTATTCTTA
106795 GGTGGCACGG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (31 bp):
TAAAAACCACTATTCTTATCCGATGGCACGG
Found at i:112581 original size:31 final size:31
Alignment explanation
Indices: 112513--112593 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
112503 CGGTAGCGCT
* * *
112513 ACAAAAACTATTATTCTTATCTGGTGGTACG
1 ACAAAAACCATTATTCTTATCTAGTGGCACG
*
112544 GCAAAAACCATTATTCTTAT-TCAGTGGCACG
1 ACAAAAACCATTATTCTTATCT-AGTGGCACG
* * *
112575 ATAAAAATCACTATTCTTA
1 ACAAAAACCATTATTCTTA
112594 GCTGACATAG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (31 bp):
ACAAAAACCATTATTCTTATCTAGTGGCACG
Found at i:112906 original size:10 final size:10
Alignment explanation
Indices: 112891--112915 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
112881 TATTATTGTT
112891 AATATTTTTA
1 AATATTTTTA
112901 AATATTTTTA
1 AATATTTTTA
112911 AATAT
1 AATAT
112916 ATTAATGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AATATTTTTA
Found at i:113900 original size:18 final size:17
Alignment explanation
Indices: 113879--113946 Score: 54
Period size: 18 Copynumber: 4.0 Consensus size: 17
113869 TTTTATTATT
113879 ATATTATATATATAAATA
1 ATATTATAT-TATAAATA
113897 ATA-TATATTAT--ATA
1 ATATTATATTATAAATA
*
113911 AGATTAT-TTGATAATATA
1 ATATTATATT-ATAA-ATA
*
113929 ATATTATAATATATAATA
1 ATATTATATTATA-AATA
113947 TTTTGATAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 7 0.17
15 5 0.12
16 3 0.08
17 5 0.12
18 18 0.45
19 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATATTATATTATAAATA
Found at i:114058 original size:17 final size:17
Alignment explanation
Indices: 114036--114079 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
114026 AATAGTATTA
114036 ATATTATATATATATAT
1 ATATTATATATATATAT
*
114053 ATATTATATA-ATGTAT
1 ATATTATATATATATAT
114069 -TATTATA-ATAT
1 ATATTATATATAT
114080 TTTGTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 9 0.36
16 5 0.20
17 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATATTATATATATATAT
Found at i:114060 original size:15 final size:16
Alignment explanation
Indices: 114037--114079 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
114027 ATAGTATTAA
114037 TATTATATATATATAT
1 TATTATATATATATAT
*
114053 ATATTATATA-ATGTAT
1 -TATTATATATATATAT
114069 TATTATA-ATAT
1 TATTATATATAT
114080 TTTGTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 9 0.38
16 5 0.21
17 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TATTATATATATATAT
Found at i:114609 original size:17 final size:17
Alignment explanation
Indices: 114587--114631 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
114577 ATCTAAAATA
* *
114587 ATTAAAATAATTATTTT
1 ATTAAAATAAATATTTG
114604 ATT-AAATAAATATTTG
1 ATTAAAATAAATATTTG
*
114620 AATAAAATAAAT
1 ATTAAAATAAAT
114632 TTGTTAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATTAAAATAAATATTTG
Found at i:114935 original size:29 final size:29
Alignment explanation
Indices: 114882--114937 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
114872 TTCATCTTCT
* *
114882 TTAATATATATAAATATTTATATAATAAA
1 TTAATATATAAAAATATATATATAATAAA
114911 TTAATAATATAAAAATATAT-TATAATA
1 TTAAT-ATATAAAAATATATATATAATA
114938 TAAGCATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAATATATAAAAATATATATATAATAAA
Found at i:115755 original size:16 final size:16
Alignment explanation
Indices: 115726--115763 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
115716 CACTCTATGG
115726 TTAAAAAATGATTTTT
1 TTAAAAAATGATTTTT
115742 TTCAAAAAAT-ATTTTT
1 TT-AAAAAATGATTTTT
115758 TTAAAA
1 TTAAAA
115764 GAAGTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 7 0.33
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TTAAAAAATGATTTTT
Found at i:120069 original size:7 final size:7
Alignment explanation
Indices: 120059--120083 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
120049 GTAAAAAATT
120059 ATTTATA
1 ATTTATA
120066 ATTTATA
1 ATTTATA
120073 ATTTATA
1 ATTTATA
120080 ATTT
1 ATTT
120084 TTTATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTATA
Found at i:120090 original size:14 final size:14
Alignment explanation
Indices: 120056--120090 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
120046 AATGTAAAAA
120056 ATTATTTATAATTT
1 ATTATTTATAATTT
*
120070 ATAATTTATAATTT
1 ATTATTTATAATTT
*
120084 TTTATTT
1 ATTATTT
120091 TTAAATTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATTTATAATTT
Found at i:121190 original size:21 final size:20
Alignment explanation
Indices: 121158--121201 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
121148 TTACAAATAA
121158 ATATTATAATTAAATAAATT
1 ATATTATAATTAAATAAATT
* *
121178 ATATTATTTATTACATAAATT
1 ATATTA-TAATTAAATAAATT
121199 ATA
1 ATA
121202 ATGATTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATATTATAATTAAATAAATT
Found at i:124456 original size:31 final size:30
Alignment explanation
Indices: 124381--124617 Score: 269
Period size: 31 Copynumber: 7.7 Consensus size: 30
124371 ATTTAATTGT
*
124381 ATAAGATT-AAATTGCAAGGAAATAAATTAC
1 ATAA-ATTAAAATTGCAAGAAAATAAATTAC
*
124411 ATAAATTAAAATTGCAAGAAAATAAATTAA
1 ATAAATTAAAATTGCAAGAAAATAAATTAC
* *
124441 ATAAATTAAAAATTGCAAGAAACAAAAATTGC
1 ATAAATT-AAAATTGCAAGAAA-ATAAATTAC
* *
124473 ATAAATTTAAGTTGCAAGAAAATAAATTAC
1 ATAAATTAAAATTGCAAGAAAATAAATTAC
* *
124503 ATAAATTAAAAATTGCAAGAAAGTAAAATTGC
1 ATAAATT-AAAATTGCAAGAAAAT-AAATTAC
* **
124535 ATAAATTTAAATTGCAAGAAAATAAAATTTG
1 ATAAATTAAAATTGCAAGAAAAT-AAATTAC
* * *
124566 ATAAATTTAAATTGCAAGAGAATAAATTGC
1 ATAAATTAAAATTGCAAGAAAATAAATTAC
*
124596 ATAAATTAAAACATGCAAGAAA
1 ATAAATTAAAA-TTGCAAGAAA
124618 GCAAAATTGC
Statistics
Matches: 178, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.02
30 60 0.34
31 89 0.50
32 26 0.15
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.27
Consensus pattern (30 bp):
ATAAATTAAAATTGCAAGAAAATAAATTAC
Found at i:124467 original size:16 final size:15
Alignment explanation
Indices: 124418--124563 Score: 57
Period size: 16 Copynumber: 9.4 Consensus size: 15
124408 TACATAAATT
124418 AAAATTGCAAGAAAA
1 AAAATTGCAAGAAAA
* * *
124433 TAAATT-AAATAAATTA
1 AAAATTGCAAGAAA--A
124449 AAAATTGCAAGAAACA
1 AAAATTGCAAGAAA-A
**
124465 AAAATTGCATA-AATT
1 AAAATTGCA-AGAAAA
* *
124480 TAAGTTGCAAGAAAA
1 AAAATTGCAAGAAAA
* * *
124495 TAAATTACATA-AATTA
1 AAAATTGCA-AGAA-AA
*
124511 AAAATTGCAAGAAAGT
1 AAAATTGCAAGAAA-A
**
124527 AAAATTGCATA-AATT
1 AAAATTGCA-AGAAAA
*
124542 TAAATTGCAAGAAAA
1 AAAATTGCAAGAAAA
124557 TAAAATT
1 -AAAATT
124564 TGATAAATTT
Statistics
Matches: 94, Mismatches: 25, Indels: 23
0.66 0.18 0.16
Matches are distributed among these distances:
14 7 0.07
15 35 0.37
16 45 0.48
17 7 0.07
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.26
Consensus pattern (15 bp):
AAAATTGCAAGAAAA
Found at i:124563 original size:93 final size:94
Alignment explanation
Indices: 124387--124628 Score: 334
Period size: 93 Copynumber: 2.6 Consensus size: 94
124377 TTGTATAAGA
* * **
124387 TTAAATTGCAAGGAAATAAATTACATAAATT-AAAATTGCAAGAAAAT-AAATTAAATAAATTAA
1 TTAAATTGCAAGAAAATAAATTACATAAATTAAAAATTGCAAGAAAGTAAAATTGCATAAATTAA
124450 AAATTGCAAGAAACAAAAA-TTGCATAAAT
66 AAATTGCAAGAAACAAAAATTTG-ATAAAT
* *
124479 TTAAGTTGCAAGAAAATAAATTACATAAATTAAAAATTGCAAGAAAGTAAAATTGCATAAATT-T
1 TTAAATTGCAAGAAAATAAATTACATAAATTAAAAATTGCAAGAAAGTAAAATTGCATAAATTAA
124543 AAATTGCAAGAAA-ATAAAATTTGATAAAT
66 AAATTGCAAGAAACA-AAAATTTGATAAAT
* * *
124572 TTAAATTGCAAGAGAATAAATTGCATAAATTAAAACA-TGCAAGAAAGCAAAATTGCA
1 TTAAATTGCAAGAAAATAAATTACATAAATTAAAA-ATTGCAAGAAAGTAAAATTGCA
124629 AGAAAATAAA
Statistics
Matches: 135, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
92 30 0.22
93 89 0.66
94 16 0.12
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.26
Consensus pattern (94 bp):
TTAAATTGCAAGAAAATAAATTACATAAATTAAAAATTGCAAGAAAGTAAAATTGCATAAATTAA
AAATTGCAAGAAACAAAAATTTGATAAAT
Found at i:125004 original size:20 final size:21
Alignment explanation
Indices: 124981--125029 Score: 82
Period size: 20 Copynumber: 2.4 Consensus size: 21
124971 TTTTTAACTC
*
124981 TTTTTGAACTTTTTC-AATTT
1 TTTTTGAACTTTTTCAAATCT
125001 TTTTTGAACTTTTTCAAATCT
1 TTTTTGAACTTTTTCAAATCT
125022 TTTTTGAA
1 TTTTTGAA
125030 TCCTTCCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.61
Consensus pattern (21 bp):
TTTTTGAACTTTTTCAAATCT
Found at i:125031 original size:11 final size:11
Alignment explanation
Indices: 124965--125031 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
124955 AAATTTTCAA
*
124965 AATCTTTTTTT
1 AATCTTTTTTG
124976 AA-CTCTTTTTG
1 AATCT-TTTTTG
*
124987 AA-C-TTTTTC
1 AATCTTTTTTG
*
124996 AATTTTTTTTG
1 AATCTTTTTTG
**
125007 AA-CTTTTTCA
1 AATCTTTTTTG
125017 AATCTTTTTTG
1 AATCTTTTTTG
125028 AATC
1 AATC
125032 CTTCCTTATG
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
9 7 0.16
10 9 0.21
11 27 0.63
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.60
Consensus pattern (11 bp):
AATCTTTTTTG
Found at i:128985 original size:71 final size:72
Alignment explanation
Indices: 128859--129677 Score: 690
Period size: 73 Copynumber: 11.3 Consensus size: 72
128849 TATACCGTAA
* * *
128859 AAAAATTTTAACTCCTATAATC-AATCTAAAAAAAGACAAATTTAAACTTTTACAAATAAAAATA
1 AAAAATTTAAACTCGTATAATCAAAT-T--AAAAA-ACAAATTTAAACTTCTACAAATAAAAATA
* *
128923 AA-AACACCTT
62 AATAATATCTT
* * *
128933 AAAAATTTAAACTTGTATAATCAAATTAGAAAACAAATTTAAAGTTCTACAAATAAAAATAAATC
1 AAAAATTTAAACTCGTATAATCAAATTAAAAAACAAATTTAAACTTCTACAAATAAAAATAAAT-
*
128998 AA-AACTT
65 AATATCTT
** * * *** * *
129005 AAAAAATTTAAACTTATACAATCATACCCAAAAATAAATTTAAATTTCTACAAATAAAAAT-AA-
1 -AAAAATTTAAACTCGTATAATCAAATTAAAAAACAAATTTAAACTTCTACAAATAAAAATAAAT
129068 AATATCTT
65 AATATCTT
* * * * * *
129076 AAAAAATTTAAACTCGTATAATTAAACTAGAAAACTAATTTAAAATTCTACAAATAAAAATACAT
1 -AAAAATTTAAACTCGTATAATCAAATTAAAAAACAAATTTAAACTTCTACAAATAAAAATAAAT
**
129141 CCTATCTT
65 AATATCTT
* * * * * * *
129149 AAAAATTT-AACTCGTATAATCATACTCAAAAACAAATTTAAATTTTTACAAATAGAAATAAATT
1 AAAAATTTAAACTCGTATAATCAAATTAAAAAACAAATTTAAACTTCTACAAATAAAAATAAATA
129213 ATA-CATT
66 ATATC-TT
* * * * * * *
129220 AAAAAATTTAAACTCGTCTAATCATATCTAGAAAATAAATTTAAACTTTTATAAATAAAGATAAA
1 -AAAAATTTAAACTCGTATAATCAAAT-TAAAAAACAAATTTAAACTTCTACAAATAAAAATAAA
*
129285 TAATATCTA
64 TAATATCTT
* * ** * * *
129294 AAAAATATAAACTCGTATAATCAGACCAAAAAATAAATTTAAACTTCTACATATAAAAATAAATT
1 AAAAATTTAAACTCGTATAATCAAATTAAAAAACAAATTTAAACTTCTACAAATAAAAATAAATA
*
129359 ATACCTTT
66 ATATC-TT
* * * * *
129367 AAAAATTTAAACTCCTATGATCACA-CAAAAAACAAATTTAAACTTTTACAAAT-AAAATAAATT
1 AAAAATTTAAACTCGTATAATCAAATTAAAAAACAAATTTAAACTTCTACAAATAAAAATAAA-T
*
129430 AA-ATATT
65 AATATCTT
* * * * * *
129437 AAGAAATTTAAACTCATAAAATTATACTTAGAAAATAAATTTAAACTTCTACAAATAAAAATAAA
1 AA-AAATTTAAACTCGTATAATCA-AATTAAAAAACAAATTTAAACTTCTACAAATAAAAATAAA
*
129502 TTATATCTT
64 TAATATCTT
* * * * * **
129511 AAAAAATATAAACTTGTATAATCATACTTAAAAAACAAACTTAAACTTTTATGAATAAAAATAAA
1 -AAAAATTTAAACTCGTATAATCA-AATTAAAAAACAAATTTAAACTTCTACAAATAAAAATAAA
*
129576 TAATAACTT
64 TAATATCTT
* * ** * * *
129585 AAATATTTAAACTTGTATAATCAAACAAAAAAATAAATTTAAATTTCTACAAATAAAGATAAAT-
1 AAAAATTTAAACTCGTATAATCAAATTAAAAAACAAATTTAAACTTCTACAAATAAAAATAAATA
129649 -TATGCATT
66 ATAT-C-TT
*
129657 AAAAATTTAAACTCATATAAT
1 AAAAATTTAAACTCGTATAAT
129678 TACACCAAAA
Statistics
Matches: 606, Mismatches: 117, Indels: 46
0.79 0.15 0.06
Matches are distributed among these distances:
70 9 0.01
71 160 0.26
72 141 0.23
73 165 0.27
74 125 0.21
75 6 0.01
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (72 bp):
AAAAATTTAAACTCGTATAATCAAATTAAAAAACAAATTTAAACTTCTACAAATAAAAATAAATA
ATATCTT
Found at i:129082 original size:144 final size:143
Alignment explanation
Indices: 128896--129677 Score: 767
Period size: 144 Copynumber: 5.4 Consensus size: 143
128886 AAAAAAAGAC
* * *
128896 AAATTTAAACTTT-TACAAATAAAAATAAAAACACCTT-AAAAATTTAAACTTGTATAATCAAAT
1 AAATTTAAA-TTTCTACAAATAAAAAT-AAAATATCTTAAAAAATTTAAACTCGTATAATCAAAT
* * ** *
128959 TAGAAAACAAATTTAAAGTTCTACAAATAAAAATAAATCAAAACTTAAAAAATTTAAACTTATAC
64 TAGAAAACAAATTTAAACTTTTACAAATAAAAATAAAT-AAAACTTAAAAAATTTAAACTCGTAT
*
129024 AATCATACCCAAAAAT
128 AATCATACCAAAAAAT
* *
129040 AAATTTAAATTTCTACAAATAAAAATAAAATATCTTAAAAAATTTAAACTCGTATAATTAAACTA
1 AAATTTAAATTTCTACAAATAAAAATAAAATATCTTAAAAAATTTAAACTCGTATAATCAAATTA
* * * * ** *
129105 GAAAACTAATTTAAAATTCTACAAATAAAAATACATCCTATCTT-AAAAATTT-AACTCGTATAA
66 GAAAACAAATTTAAACTTTTACAAATAAAAATAAAT-AAAACTTAAAAAATTTAAACTCGTATAA
*
129168 TCATACTC-AAAAAC
130 TCATAC-CAAAAAAT
* * * * *
129182 AAATTTAAATTTTTACAAATAGAAATAAATTATACATTAAAAAATTTAAACTCGTCTAATCATAT
1 AAATTTAAATTTCTACAAATAAAAATAAAATAT-C-TTAAAAAATTTAAACTCGTATAATCAAAT
* * * * *
129247 CTAGAAAATAAATTTAAACTTTTATAAATAAAGATAAATAATA-TCTAAAAAATATAAACTCGTA
64 -TAGAAAACAAATTTAAACTTTTACAAATAAAAATAAATAAAACT-TAAAAAATTTAAACTCGTA
*
129311 TAATCAGACCAAAAAAT
127 TAATCATACCAAAAAAT
* * * * * * *
129328 AAATTTAAACTTCTACATATAAAAATAAATTATACCTTTAAAAATTTAAACTCCTATGATCACA-
1 AAATTTAAATTTCTACAAATAAAAATAAA--ATATCTTAAAAAATTTAAACTCGTATAATCAAAT
* * * *
129392 CAAAAAACAAATTTAAACTTTTACAAAT-AAAATAAATTAAATA-TTAAGAAATTTAAACTCATA
64 TAGAAAACAAATTTAAACTTTTACAAATAAAAATAAA-TAAA-ACTTAAAAAATTTAAACTCGTA
* * * *
129455 AAATTATACTTAGAAAAT
127 TAATCATAC-CAAAAAAT
* * * *
129473 AAATTTAAACTTCTACAAATAAAAATAAATTATATCTTAAAAAATATAAACTTGTATAATCATAC
1 AAATTTAAATTTCTACAAATAAAAATAAA--ATATCTTAAAAAATTTAAACTCGTATAATCA-AA
* * ** * *
129538 TTAAAAAACAAACTTAAACTTTTATGAATAAAAATAAATAATAACTT-AAATATTTAAACTTGTA
63 TTAGAAAACAAATTTAAACTTTTACAAATAAAAATAAATAA-AACTTAAAAAATTTAAACTCGTA
* *
129602 TAATCAAACAAAAAAAT
127 TAATCATACCAAAAAAT
* * *
129619 AAATTTAAATTTCTACAAATAAAGATAAATTATGCATT-AAAAATTTAAACTCATATAAT
1 AAATTTAAATTTCTACAAATAAAAATAAAATAT-C-TTAAAAAATTTAAACTCGTATAAT
129678 TACACCAAAA
Statistics
Matches: 527, Mismatches: 89, Indels: 43
0.80 0.14 0.07
Matches are distributed among these distances:
142 49 0.09
143 29 0.06
144 163 0.31
145 121 0.23
146 104 0.20
147 48 0.09
148 13 0.02
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (143 bp):
AAATTTAAATTTCTACAAATAAAAATAAAATATCTTAAAAAATTTAAACTCGTATAATCAAATTA
GAAAACAAATTTAAACTTTTACAAATAAAAATAAATAAAACTTAAAAAATTTAAACTCGTATAAT
CATACCAAAAAAT
Found at i:129846 original size:22 final size:24
Alignment explanation
Indices: 129810--129854 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
129800 AAGAATCAAA
129810 ATAATCTTACAAATAAAATAAATC
1 ATAATCTTACAAATAAAATAAATC
129834 ATAAT-TTA-AAATAAAATAAAT
1 ATAATCTTACAAATAAAATAAAT
129855 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.62
23 3 0.14
24 5 0.24
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (24 bp):
ATAATCTTACAAATAAAATAAATC
Found at i:129869 original size:26 final size:27
Alignment explanation
Indices: 129840--129894 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
129830 AATCATAATT
* *
129840 TAAAATAAA-ATAAATTTAAATTTTTA
1 TAAAATAAACATAAATTTAAACTTATA
129866 T-AAATAAACATAAATTTAAACTTATA
1 TAAAATAAACATAAATTTAAACTTATA
129892 TAA
1 TAA
129895 TCATATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 17 0.68
27 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAAATAAACATAAATTTAAACTTATA
Found at i:130670 original size:32 final size:31
Alignment explanation
Indices: 130631--130741 Score: 87
Period size: 32 Copynumber: 3.3 Consensus size: 31
130621 AATATCTTAA
130631 AAATTTAAACTTGTATAATCAAACCAAAAAAT
1 AAATTTAAACTT-TATAATCAAACCAAAAAAT
* **
130663 AAATTTAAACTTTCATAAATAAAAATAAAAATATTT
1 AAATTTAAACTTT-AT-AATCAAACCAAAAA-A--T
* *
130699 AAAAAATTTAAACTCATATAATCAAACCAGAAAAT
1 ---AAATTTAAACT-TTATAATCAAACCAAAAAAT
130734 AAATTTAA
1 AAATTTAA
130742 GGTTCTACAA
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
31 1 0.02
32 22 0.35
33 11 0.18
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 10 0.16
39 13 0.21
40 1 0.02
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.30
Consensus pattern (31 bp):
AAATTTAAACTTTATAATCAAACCAAAAAAT
Found at i:130760 original size:216 final size:217
Alignment explanation
Indices: 130364--130824 Score: 589
Period size: 216 Copynumber: 2.1 Consensus size: 217
130354 AATGCAATCT
* * * *
130364 AAAAAAAAAATC-AAACTAATCTACAAATAAAAGTAAATTATACATTAAAATAATTTTAACTCTT
1 AAAAAACAAATCTAAACT--TCTACAAATAAAAATAAAATATACATTAAAATAATTTAAACTCTT
*
130428 ATAATCAACCTAAAAAATAAATTTAAACTTTTACAAATAAAAATAAAAATACCTTAAAAAATTTA
64 ATAATCAACCTAAAAAATAAATTTAAACTTTCACAAATAAAAATAAAAATACCTTAAAAAATTTA
** * * *
130493 AACTTGTATAATCAAATCAAAAAATAAATTTAAATTTTTACAAATAAAAATAAATAATATCTTAA
129 AACTCATATAATCAAACCAAAAAATAAATTTAAAGTTCTACAAATAAAAATAAATAATAT-TTAA
130558 AAAATTTAAACT-TGTATAATCATACCC
193 AAAATTT-AACTCT-TATAATCATA-CC
* *
130585 AAAAAATAAATTTAAACTTCTACAAATAAAAATAAAA-ATATC-TT-AAA-AATTTAAACT-TGT
1 AAAAAACAAATCTAAACTTCTACAAATAAAAATAAAATATA-CATTAAAATAATTTAAACTCT-T
* *
130645 ATAATCAAACC-AAAAAATAAATTTAAACTTTCATAAATAAAAATAAAAATA-TTTAAAAAATTT
64 ATAATC-AACCTAAAAAATAAATTTAAACTTTCACAAATAAAAATAAAAATACCTTAAAAAATTT
* * ** *
130708 AAACTCATATAATCAAACCAGAAAATAAATTTAAGGTTCTACAAATAAAAATAAATCCTATTTTA
128 AAACTCATATAATCAAACCAAAAAATAAATTTAAAGTTCTACAAATAAAAATAAATAATATTTAA
**
130773 AAAATTTAACTCTTATAATCATATT
193 AAAATTTAACTCTTATAATCATACC
130798 AAAAAACAAATCTAAACTTCTACAAAT
1 AAAAAACAAATCTAAACTTCTACAAAT
130825 TTAAACTCGT
Statistics
Matches: 213, Mismatches: 22, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
213 25 0.12
214 14 0.07
215 11 0.05
216 64 0.30
217 54 0.25
218 7 0.03
219 5 0.02
220 18 0.08
221 10 0.05
222 5 0.02
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (217 bp):
AAAAAACAAATCTAAACTTCTACAAATAAAAATAAAATATACATTAAAATAATTTAAACTCTTAT
AATCAACCTAAAAAATAAATTTAAACTTTCACAAATAAAAATAAAAATACCTTAAAAAATTTAAA
CTCATATAATCAAACCAAAAAATAAATTTAAAGTTCTACAAATAAAAATAAATAATATTTAAAAA
ATTTAACTCTTATAATCATACC
Found at i:130784 original size:71 final size:71
Alignment explanation
Indices: 130383--130824 Score: 505
Period size: 71 Copynumber: 6.1 Consensus size: 71
130373 ATCAAACTAA
* * * * *
130383 TCTACAAATAAAAGTAAATTATACATTAAAATAATTTTAACTCTTATAATC-AACCTAAAAAATA
1 TCTACAAATAAAAATAAA-AATA-TTTAAAA-AATTTAAACTCGTATAATCAAACC-AAAAAATA
130447 AATTTAAACT
62 AATTTAAACT
* * * *
130457 TTTACAAATAAAAATAAAAATACCTTAAAAAATTTAAACTTGTATAATCAAATCAAAAAATAAAT
1 TCTACAAATAAAAATAAAAATA-TTTAAAAAATTTAAACTCGTATAATCAAACCAAAAAATAAAT
*
130522 TTAAATT
65 TTAAACT
* * *
130529 TTTACAAATAAAAATAAATAATATCTTAAAAAATTTAAACTTGTATAATCATACCCAAAAAATAA
1 TCTACAAATAAAAATAAA-AATAT-TTAAAAAATTTAAACTCGTATAATCA-AACCAAAAAATAA
130594 ATTTAAACT
63 ATTTAAACT
*
130603 TCTACAAATAAAAATAAAAATATCTT-AAAAATTTAAACTTGTATAATCAAACCAAAAAATAAAT
1 TCTACAAATAAAAATAAAAATAT-TTAAAAAATTTAAACTCGTATAATCAAACCAAAAAATAAAT
130667 TTAAACT
65 TTAAACT
* * *
130674 T-TCATAAATAAAAATAAAAATATTTAAAAAATTTAAACTCATATAATCAAACCAGAAAATAAAT
1 TCT-ACAAATAAAAATAAAAATATTTAAAAAATTTAAACTCGTATAATCAAACCAAAAAATAAAT
**
130738 TTAAGGT
65 TTAAACT
** * * * ** *
130745 TCTACAAATAAAAATAAATCCTATTTTAAAAATTT-AACTCTTATAATCATATTAAAAAACAAAT
1 TCTACAAATAAAAATAAA-AATATTTAAAAAATTTAAACTCGTATAATCAAACCAAAAAATAAAT
*
130809 CTAAACT
65 TTAAACT
130816 TCTACAAAT
1 TCTACAAAT
130825 TTAAACTCGT
Statistics
Matches: 326, Mismatches: 34, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
70 3 0.01
71 132 0.40
72 88 0.27
73 51 0.16
74 52 0.16
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (71 bp):
TCTACAAATAAAAATAAAAATATTTAAAAAATTTAAACTCGTATAATCAAACCAAAAAATAAATT
TAAACT
Found at i:130874 original size:120 final size:121
Alignment explanation
Indices: 130727--130943 Score: 285
Period size: 120 Copynumber: 1.8 Consensus size: 121
130717 TAATCAAACC
* * ** * *
130727 AGAAAATAAATTTAAGGTTCTACAAATAAAAATAAATCCTAT-TTTAAAAATTT-AACTCTTATA
1 AGAAAATAAATTAAAAGTTCTACAAATAAAAATAAATAATATCTAT-AAAATTTAAACTCGTATA
* *
130790 ATCATATTAAAAAACAAATCTAAACTTCTACAAATTTAAACTCGTATAATTATATTT
65 ATCAAAGTAAAAAACAAATCTAAACTTCTACAAATTTAAACTCGTATAATTATATTT
* * *
130847 AGAAAATAAATTAAAATTTCTATAAATAAAGATAAATAATATCTATAAAATTTAAACTCGTATAA
1 AGAAAATAAATTAAAAGTTCTACAAATAAAAATAAATAATATCTATAAAATTTAAACTCGTATAA
* * *
130912 TCAAAGTAAAAAATAAATTTAAATTTCTACAA
66 TCAAAGTAAAAAACAAATCTAAACTTCTACAA
130944 GTAAAAATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
120 42 0.52
121 39 0.48
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.34
Consensus pattern (121 bp):
AGAAAATAAATTAAAAGTTCTACAAATAAAAATAAATAATATCTATAAAATTTAAACTCGTATAA
TCAAAGTAAAAAACAAATCTAAACTTCTACAAATTTAAACTCGTATAATTATATTT
Found at i:130908 original size:73 final size:71
Alignment explanation
Indices: 130821--131417 Score: 293
Period size: 73 Copynumber: 8.3 Consensus size: 71
130811 AAACTTCTAC
* * *
130821 AAATTTAAACTCGTATAATTATATTTAGAAAATAAATTAAAATTTCTATAAATAAAGATAAATAA
1 AAATTTAAACTCGTATAATTATATCTA-AAAATAAATTTAAATTTCTACAAATAAA-ATAAATAA
130886 TATCTATA
64 TATCTATA
* * * * *
130894 AAATTTAAACTCGTATAATCAAAGT-AAAAAATAAATTTAAATTTCTACAAGTAAAAATAAATTA
1 AAATTTAAACTCGTATAATTATA-TCTAAAAATAAATTTAAATTTCTACAAAT-AAAATAAATAA
*
130958 TATCTCAAAA
64 TATCT--ATA
* * *
130968 AAATTTAAACTCGTATAACTATATCCAAGAAATAAATTTAAA-CTCTACAAATAAAATAAATAAT
1 AAATTTAAACTCGTATAATTATATCTAA-AAATAAATTTAAATTTCTACAAATAAAATAAATAAT
*
131032 ACCT-TA
65 ATCTATA
* ** * * * * * * *
131038 AAGATTTAAACCCAAATAGTCA-AACAAAAAACAAATTTAAACTTCTACAAATAAAAATAAATTA
1 AA-ATTTAAACTCGTATAATTATATCTAAAAATAAATTTAAATTTCTACAAAT-AAAATAAATAA
* *
131102 CATCTTAAAA
64 TATC-T-ATA
* * * *
131112 AAATTTAAACTCATATAATCATA-CTTAGTAAACAAATTTAAA---CATACAAATAAAAATAAAT
1 AAATTTAAACTCGTATAATTATATC-TA-AAAATAAATTTAAATTTC-TACAAAT-AAAATAAAT
*
131173 AATAACT-TA
62 AATATCTATA
* * * * * *
131182 AATATTTCAACTTGTACAATTAAAAC-AAAAA-ACATTCTTAAACTTT-TACAAA-AAAATAAAT
1 AA-ATTTAAACTCGTATAATTATATCTAAAAATA-AAT-TTAAA-TTTCTACAAATAAAATAAAT
* *
131243 TATAACT-TAA
62 AATATCTAT-A
* * * **
131253 AAATTATAAACTTGTATAATCATA-CTTAAAAA-ACCAACTTAAACTTT-TATGAATAAAAATAA
1 AAATT-TAAACTCGTATAATTATATC-TAAAAATA--AATTTAAA-TTTCTACAAAT-AAAATAA
*
131315 ATAATAACT-TA
60 ATAATATCTATA
* * * * * * *
131326 AATATTTAAACTTGTATAATCA-AACTAAACATAAATATAAACTTT-TACAAATAAAAAAAATTA
1 AA-ATTTAAACTCGTATAATTATATCTAAAAATAAATTTAAA-TTTCTACAAATAAAATAAATAA
131389 TA-C-ATTAA
64 TATCTA-T-A
**
131397 AAATTTAAACTTTTATAATTA
1 AAATTTAAACTCGTATAATTA
131418 CACCAAAGCA
Statistics
Matches: 420, Mismatches: 67, Indels: 77
0.74 0.12 0.14
Matches are distributed among these distances:
68 1 0.00
69 18 0.04
70 74 0.18
71 75 0.18
72 69 0.16
73 100 0.24
74 57 0.14
75 26 0.06
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (71 bp):
AAATTTAAACTCGTATAATTATATCTAAAAATAAATTTAAATTTCTACAAATAAAATAAATAATA
TCTATA
Found at i:131095 original size:71 final size:71
Alignment explanation
Indices: 130849--131415 Score: 382
Period size: 71 Copynumber: 7.9 Consensus size: 71
130839 TTATATTTAG
* * * * * * **
130849 AAAATAAATTAAAATTTCTATAAATAAAGATAAATAATATC-TATAAAATTTAAACTCGTATAAT
1 AAAACAAATTTAAACTTCTACAAATAAAAATAAATAATAACTTA-AAAATTTAAACTTATATAAT
*
130913 CAAAGTAA
65 CAAA-CAA
* * * * * * **
130921 AAAATAAATTTAAATTTCTACAAGTAAAAATAAATTATATCTCAAAAAAATTTAAACTCGTATAA
1 AAAACAAATTTAAACTTCTACAAATAAAAATAAATAATAACT--TAAAAATTTAAACTTATATAA
*
130986 -CTATATCCAA
64 TC-A-A-ACAA
* * * * ** * *
130996 GAAATAAATTTAAAC-TCTACAAAT-AAAATAAATAATACCTTAAAGATTTAAACCCAAATAGTC
1 AAAACAAATTTAAACTTCTACAAATAAAAATAAATAATAACTTAAAAATTTAAACTTATATAATC
131059 AAACAA
66 AAACAA
* * * *
131065 AAAACAAATTTAAACTTCTACAAATAAAAATAAATTACATCTTAAAAAAATTTAAACTCATATAA
1 AAAACAAATTTAAACTTCTACAAATAAAAATAAATAATAACTT--AAAAATTTAAACTTATATAA
* *
131130 TCATACTTAG
64 TCAAAC--AA
* * * * * *
131140 TAAACAAATTTAAAC--ATACAAATAAAAATAAATAATAACTTAAATATTTCAACTTGTACAATT
1 AAAACAAATTTAAACTTCTACAAATAAAAATAAATAATAACTTAAAAATTTAAACTTATATAA-T
*
131203 AAAACAA
65 CAAACAA
* * * *
131210 AAAAC-ATTCTTAAACTTTTAC-AA-AAAAATAAATTATAACTTAAAAATTATAAACTTGTATAA
1 AAAACAAAT-TTAAACTTCTACAAATAAAAATAAATAATAACTTAAAAATT-TAAACTTATATAA
*
131272 TCATACTTAA
64 TCAAAC--AA
* * * ** * *
131282 AAAACCAACTTAAACTTTTATGAATAAAAATAAATAATAACTTAAATATTTAAACTTGTATAATC
1 AAAACAAATTTAAACTTCTACAAATAAAAATAAATAATAACTTAAAAATTTAAACTTATATAATC
*
131347 AAACTA
66 AAACAA
* * * * * *
131353 AACATAAATATAAACTTTTACAAATAAAAA-AAATTAT-ACATTAAAAATTTAAACTTTTATAAT
1 AAAACAAATTTAAACTTCTACAAATAAAAATAAATAATAAC-TTAAAAATTTAAACTTATATAAT
131416 TACACCAAAG
Statistics
Matches: 401, Mismatches: 70, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
69 20 0.05
70 75 0.19
71 82 0.20
72 62 0.15
73 79 0.20
74 51 0.13
75 32 0.08
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.31
Consensus pattern (71 bp):
AAAACAAATTTAAACTTCTACAAATAAAAATAAATAATAACTTAAAAATTTAAACTTATATAATC
AAACAA
Found at i:131389 original size:144 final size:143
Alignment explanation
Indices: 130821--131407 Score: 541
Period size: 144 Copynumber: 4.1 Consensus size: 143
130811 AAACTTCTAC
* * * * * * * *
130821 AAATTTAAACTCGTATAATTATATTTAGAAAATAAATTAAAATTTCTATAAATAAAGATAAATAA
1 AAATTTAAACTCGTATAATCATACTTAAAAAACAAATTTAAACTT-TACAAATAAAAATAAATAA
* * *
130886 TATCTATAAA-ATTTAAACTCGTATAATCAAAGTAAAAAATAAATTTAAA-TTTCTACAAGTAAA
65 TAACT-TAAATATTTAAACTCGTATAATCAAACT-AAAAATAAATTTAAACTTT-TACAAATAAA
* *
130949 AATAAATTATATCTCAAAA
127 AATAAATTATAACT--TAA
* * * *
130968 AAATTTAAACTCGTATAA-CTATA-TCCAAGAAATAAATTTAAACTCTACAAAT-AAAATAAATA
1 AAATTTAAACTCGTATAATC-ATACT-TAAAAAACAAATTTAAACTTTACAAATAAAAATAAATA
* * * ** * * * *
131030 ATACCTTAAAGATTTAAACCCAAATAGTCAAACAAAAAACAAATTTAAACTTCTACAAATAAAAA
64 ATAACTTAAATATTTAAACTCGTATAATCAAACTAAAAATAAATTTAAACTTTTACAAATAAAAA
* *
131095 TAAATTACATCTTAAAA
129 TAAATTATAACTT--AA
* ** *
131112 AAATTTAAACTCATATAATCATACTTAGTAAACAAATTTAAAC-ATACAAATAAAAATAAATAAT
1 AAATTTAAACTCGTATAATCATACTTAAAAAACAAATTTAAACTTTACAAATAAAAATAAATAAT
* * * * *
131176 AACTTAAATATTTCAACTTGTACAATTAAAAC-AAAAA-ACATTCTTAAACTTTTAC-AA-AAAA
66 AACTTAAATATTTAAACTCGTATAA-TCAAACTAAAAATA-AAT-TTAAACTTTTACAAATAAAA
131237 ATAAATTATAACTTAA
128 ATAAATTATAACTTAA
* * * **
131253 AAATTATAAACTTGTATAATCATACTTAAAAAACCAACTTAAACTTTTATGAATAAAAATAAATA
1 AAATT-TAAACTCGTATAATCATACTTAAAAAACAAATTTAAAC-TTTACAAATAAAAATAAATA
* * *
131318 ATAACTTAAATATTTAAACTTGTATAATCAAACTAAACATAAATATAAACTTTTACAAATAAAAA
64 ATAACTTAAATATTTAAACTCGTATAATCAAACTAAAAATAAATTTAAACTTTTACAAATAAAAA
131383 -AAATTAT-ACATTAA
129 TAAATTATAAC-TTAA
131397 AAATTTAAACT
1 AAATTTAAACT
131408 TTTATAATTA
Statistics
Matches: 364, Mismatches: 56, Indels: 44
0.78 0.12 0.09
Matches are distributed among these distances:
141 7 0.02
142 32 0.09
143 48 0.13
144 178 0.49
145 57 0.16
146 7 0.02
147 35 0.10
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (143 bp):
AAATTTAAACTCGTATAATCATACTTAAAAAACAAATTTAAACTTTACAAATAAAAATAAATAAT
AACTTAAATATTTAAACTCGTATAATCAAACTAAAAATAAATTTAAACTTTTACAAATAAAAATA
AATTATAACTTAA
Found at i:132066 original size:20 final size:19
Alignment explanation
Indices: 132020--132096 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 19
132010 TCATACCCTG
* *
132020 ATGTATCGATGCATTTTTCA
1 ATGTATCGATACA-TTATCA
* *
132040 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TATCA
* *
132060 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTAT-CA
132080 ATGTATCGATACATTAT
1 ATGTATCGATACATTAT
132097 GTCTTTTTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.07
20 42 0.93
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTATCA
Found at i:132087 original size:40 final size:39
Alignment explanation
Indices: 132020--132097 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
132010 TCATACCCTG
* * *
132020 ATGTATCGATGCATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
132060 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
132098 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:136141 original size:2 final size:2
Alignment explanation
Indices: 136129--136182 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
136119 TCGCAAGTTG
* *
136129 TA TA CA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
136171 TA TA TA TA TA TA
1 TA TA TA TA TA TA
136183 CATCTACATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:138762 original size:21 final size:23
Alignment explanation
Indices: 138738--138788 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
138728 AATTTTCTAC
138738 ATATATAATA-TATTTACTAA-A
1 ATATATAATATTATTTACTAAGA
*
138759 ATATCA-AATATTATTTTCTAAGA
1 ATAT-ATAATATTATTTACTAAGA
138782 ATTATAT
1 A-TATAT
138789 TTTGAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
21 8 0.33
22 10 0.42
23 3 0.12
24 3 0.12
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (23 bp):
ATATATAATATTATTTACTAAGA
Found at i:140366 original size:32 final size:32
Alignment explanation
Indices: 140330--140394 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
140320 AGATCAAAAT
*
140330 TTGCAAGCTCCCTACTTTTCTT-AATAATTTTG
1 TTGCAAGCTCCCTACTTTT-TTCAATAAATTTG
* **
140362 TTGCAGGCTCTTTACTTTTTTCAATAAATTTG
1 TTGCAAGCTCCCTACTTTTTTCAATAAATTTG
140394 T
1 T
140395 GGACTTCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 2 0.07
32 26 0.93
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (32 bp):
TTGCAAGCTCCCTACTTTTTTCAATAAATTTG
Found at i:141779 original size:73 final size:73
Alignment explanation
Indices: 141607--142506 Score: 708
Period size: 72 Copynumber: 12.5 Consensus size: 73
141597 TATTTATATG
* * * *
141607 AGTTTAAAGTTTTAATG-TATAATTTAGTTTTATTTGTAGAAGTTTAAATTTATTTTTT-AATTT
1 AGTTTAAATTTTTAA-GATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTAT
141670 GATTATACGA
65 GATTATAC-A
* * * * * * *
141680 A-TTTAAATATTTAAGTTATTATTTATTTTTATTTATAGAAGTTTAAGTTTGTTTTTTAAGTATG
1 AGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTATG
*
141744 ATAATACA
66 ATTATACA
* **
141752 AGTTTAAATTTTTAAGGTATAATTTATTTTTATTCATAGAAGTTTAAATTTATTTTTTTGAGTAT
1 AGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTTTTGAGTAT
**
141817 GATTATATG
65 GATTATACA
* * *
141826 AGTTTAAATTTCTTAAGATATAATTTATTTTTATTTGTAGAA--TT-CATTT-TTTTTTCA-TTT
1 AGTTTAAATTT-TTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTAT
*
141886 GACTATATGC-
65 GA-T-TATACA
* ** ** * * *
141896 A-TTTAATTTTTTGTGGA-ATTTTTTA-TTTTATTTATTGAAGTTTAAA-TT-TTTTTT-AATAT
1 AGTTTAAATTTTT-AAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTAT
*
141955 -AGTTATATA
65 GA-TTATACA
* * * *
141964 AGTTTAAATTTTGTAAGGTATAATTTATTTTTATTTGTATAAGTTT-AATTTGTTTTTTG-GTTT
1 AGTTTAAATTTT-TAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTAT
*
142027 AATTATACA
65 GATTATACA
* * * * *
142036 AGCTTAAATTTTTTAGATATTATTTATCTTTATTTGTAGATGTTTAAATTTATTTTTTTCGA-TA
1 AGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTTTT-GAGTA
*
142100 TAATTATACA
64 TGATTATACA
* * * *
142110 AGCTTAAAATTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTT-GTGTTTGAGTAT
1 AG-TTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTAT
142174 GATTATACA
65 GATTATACA
* * ** * * * * *
142183 AG-TTCAA-TTTTATGATAGGATTCATTCTTATTTGTAAAACTTTAAATTTATTTTTTG-GTTTG
1 AGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTATG
*
142245 ATTATACG
66 ATTATACA
* * * * * *
142253 AGTTTAAATTTTTAAAATAT-TTTTATTTTTATTTGTAGAAATTTTAATTTA-TTGTTGGGTATG
1 AGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTATG
* **
142316 ACTACCCA
66 ATTATACA
* * * * * * *
142324 AATTTAAATTTTTTAAGAAATGATTTATTTTTATTTGTAAAACTTTAAATTTGTTTTTTGA-TTT
1 AGTTTAAA-TTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTAT
142388 GATTATACA
65 GATTATACA
* * *
142397 AGTTTAAATTTTTTTAAGGTAT-TTTTATTTTTATTT-TAAAAGTTTAAATTTATTTTTTGAGT-
1 AGTTTAAA--TTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTA
* **
142459 TAATTATAGG
64 TGATTATACA
* ** * *
142469 GGTGAAAATTTTTAAGGTATCATTT-TCTTTTATTTGTA
1 AGTTTAAATTTTTAAGATATAATTTAT-TTTTATTTGTA
142507 AATTAGTTTG
Statistics
Matches: 662, Mismatches: 126, Indels: 79
0.76 0.15 0.09
Matches are distributed among these distances:
67 15 0.02
68 12 0.02
69 36 0.05
70 86 0.13
71 111 0.17
72 139 0.21
73 136 0.21
74 58 0.09
75 69 0.10
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.55
Consensus pattern (73 bp):
AGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGAGTATG
ATTATACA
Found at i:142085 original size:284 final size:288
Alignment explanation
Indices: 141629--142148 Score: 707
Period size: 284 Copynumber: 1.8 Consensus size: 288
141619 TAATGTATAA
* *
141629 TTTAGTTTTATTTGTAGAAGTTTAAATTTATTTTTTAATTTGATTATACGAATTTAAATATTTAA
1 TTTAGTTTTATTTATAGAAGTTTAAATTTATTTTTTAATTAGATTATACGAATTTAAATATTTAA
* * * *
141694 GTTATTATTTATTTTTATTTATAGAAGTTTAAGTTTGTTTTTTAAGTATGATAATACAAGTTTAA
66 GGTATAATTTATTTTTATTTATAGAAGTTTAAGTTTGTTTTTTAAGTATAATAATACAAGCTTAA
* * *
141759 ATTTTTAAGGTATAATTTATTTTTATTCATAGAAGTTTAAATTTATTTTTTT-GAGTATGATTAT
131 ATTTTTAAGATATAATTTATCTTTATTCATAGAAGTTTAAATTTATTTTTTTCGA-TATAATTAT
** *
141823 ATGAG-TTTAAATTTCTTAAGATATAATTTATTTTTATTTGTAGAATTCATTTTTTTTTCATTTG
195 ACAAGCTTAAAATTT-TTAAGATATAATTTATTTTTATTTGTAGAATTCATTTTTTTTTCATTTG
141887 ACTATATGCATTTAATTTTTTGTGGAATTT
259 ACTATATGCATTTAATTTTTTGTGGAATTT
* * *
141917 TTTA-TTTTATTTATTGAAGTTTAAA-TT-TTTTTTAATATAG-TTATA-TAAGTTTAAATTTTG
1 TTTAGTTTTATTTATAGAAGTTTAAATTTATTTTTTAAT-TAGATTATACGAA-TTTAAATATT-
* * * * *
141977 TAAGGTATAATTTATTTTTATTTGTATAAGTTTAA-TTTGTTTTTT-GGTTTAATTATACAAGCT
63 TAAGGTATAATTTATTTTTATTTATAGAAGTTTAAGTTTGTTTTTTAAGTATAATAATACAAGCT
* * ** *
142040 TAAATTTTTTAGATATTATTTATCTTTATTTGTAGATGTTTAAATTTATTTTTTTCGATATAATT
128 TAAATTTTTAAGATATAATTTATCTTTATTCATAGAAGTTTAAATTTATTTTTTTCGATATAATT
142105 ATACAAGCTTAAAATTTTTAAGATATAATTTATTTTTATTTGTA
193 ATACAAGCTTAAAATTTTTAAGATATAATTTATTTTTATTTGTA
142149 AAAGTTTAAA
Statistics
Matches: 202, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
284 101 0.50
285 43 0.21
286 35 0.17
287 19 0.09
288 4 0.02
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (288 bp):
TTTAGTTTTATTTATAGAAGTTTAAATTTATTTTTTAATTAGATTATACGAATTTAAATATTTAA
GGTATAATTTATTTTTATTTATAGAAGTTTAAGTTTGTTTTTTAAGTATAATAATACAAGCTTAA
ATTTTTAAGATATAATTTATCTTTATTCATAGAAGTTTAAATTTATTTTTTTCGATATAATTATA
CAAGCTTAAAATTTTTAAGATATAATTTATTTTTATTTGTAGAATTCATTTTTTTTTCATTTGAC
TATATGCATTTAATTTTTTGTGGAATTT
Found at i:142455 original size:72 final size:72
Alignment explanation
Indices: 141607--142456 Score: 661
Period size: 73 Copynumber: 11.8 Consensus size: 72
141597 TATTTATATG
* * * *
141607 AGTTTAAA-GTTTTAATG-TATAATTTAGTTTTATTTGTAGAAGTTTAAATTTATTTTTTAATTT
1 AGTTTAAATTTTTTAA-GATAT-ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGATAT
141670 GATTATACGA
64 GATTATAC-A
* * * * * *
141680 A-TTTAAA-TATTTAAGTTATTATTTATTTTTATTTATAGAAGTTTAAGTTTGTTTTTTAAGTAT
1 AGTTTAAATTTTTTAAGATA-TATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGA-TAT
*
141743 GATAATACA
64 GATTATACA
* **
141752 AGTTTAAA-TTTTTAAGGTATAATTTATTTTTATTCATAGAAGTTTAAATTTATTTTTTTGAGTA
1 AGTTTAAATTTTTTAAGATAT-ATTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTTTTGA-TA
**
141816 TGATTATATG
63 TGATTATACA
* * * *
141826 AGTTTAAATTTCTTAAGATATAATTTATTTTTATTTGTAGAA--TT-CATTT-TTTTTTCATTTG
1 AGTTTAAATTTTTTAAGATAT-ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGATATG
*
141887 ACTATATGC-
65 A-T-TATACA
** * * * *
141896 A-TTT-AATTTTTTGTGGA-AT-TTTTTATTTTATTTATTGAAGTTTAAA-TT-TTTTTTAATAT
1 AGTTTAAATTTTTT-AAGATATATTTAT-TTTTATTTGTAGAAGTTTAAATTTATTTTTTGATAT
*
141955 -AGTTATATA
64 GA-TTATACA
* * * * * * *
141964 AGTTTAAATTTTGTAAGGTATAATTTATTTTTATTTGTATAAGTTT-AATTTGTTTTTTGGTTTA
1 AGTTTAAATTTTTTAAGATAT-ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGATATG
142028 ATTATACA
65 ATTATACA
* * *
142036 AGCTTAAATTTTTT-AGATATTATTTATCTTTATTTGTAGATGTTTAAATTTATTTTTTTCGATA
1 AGTTTAAATTTTTTAAGATA-TATTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTTTT-GATA
*
142100 TAATTATACA
63 TGATTATACA
* * * * *
142110 AGCTTAAAATTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTT-GTGTTTGAGTAT
1 AGTTTAAATTTTTTAAGATAT-ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGA-TAT
142174 GATTATACA
64 GATTATACA
* * * * * * * * *
142183 AG-TTCAA--TTTTATGATAGGATTCATTCTTATTTGTAAAACTTTAAATTTATTTTTTGGTTTG
1 AGTTTAAATTTTTTAAGATA-TATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGATATG
*
142245 ATTATACG
65 ATTATACA
* * * * * * *
142253 AGTTTAAA-TTTTTAAAATATTTTTATTTTTATTTGTAGAAATTTTAATTTATTGTTGGGTATGA
1 AGTTTAAATTTTTTAAGATATATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGATATGA
* **
142317 CTACCCA
66 TTATACA
* * * * * *
142324 AATTTAAATTTTTTAAGAAATGATTTATTTTTATTTGTAAAACTTTAAATTTGTTTTTTGATTTG
1 AGTTTAAATTTTTTAAGATAT-ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGATATG
142389 ATTATACA
65 ATTATACA
* * *
142397 AGTTTAAATTTTTTTAAGGTATTTTTATTTTTATTT-TAAAAGTTTAAATTTATTTTTTGA
1 AGTTTAAA-TTTTTTAAGATATATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGA
142457 GTTAATTATA
Statistics
Matches: 625, Mismatches: 115, Indels: 75
0.77 0.14 0.09
Matches are distributed among these distances:
66 4 0.01
67 15 0.02
68 12 0.02
69 26 0.04
70 69 0.11
71 100 0.16
72 137 0.22
73 139 0.22
74 62 0.10
75 61 0.10
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (72 bp):
AGTTTAAATTTTTTAAGATATATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGATATGA
TTATACA
Found at i:145713 original size:191 final size:191
Alignment explanation
Indices: 145385--145755 Score: 616
Period size: 191 Copynumber: 1.9 Consensus size: 191
145375 AAGAAATTGC
** * * * *
145385 TGATAAGCATGAAACTTGGGTGTTATATCATTATCATCTTTAAGTGGAAAAGTCTTATATCGGAC
1 TGATAAGCATGAAACTTGCATGTTACATCATCATCATCTTTAAGTGGAAAAGTCCTATATCAGAC
*
145450 ACACCCTTCTTCCATAAAAATAGGAAACCTAGACTTGATCTCCTATACTTTTTTTCTATCCTTAG
66 ACACCCTTCTTCCATAAAAATAGGAAACCTAGACTTAATCTCCTATACTTTTTTTCTATCCTTAG
* *
145515 ATTTGATTTTTATATTATTTTTGACCTTTAATTCCTTTAATATGATGTCTATCCTTAGTTT
131 ATTTGATTTTTATATTAATTTTGAACTTTAATTCCTTTAATATGATGTCTATCCTTAGTTT
* *
145576 TGATAAGCATGAAACTTGCATGTTACATTATCATCATCTTTAAGTGGAGAAGTCCTATATCAGAC
1 TGATAAGCATGAAACTTGCATGTTACATCATCATCATCTTTAAGTGGAAAAGTCCTATATCAGAC
* *
145641 ACATCCTTCTTCCATAAAAATAGGAAACCTATACTTAATCTCCTATACTTTTTTTCTATCCTTAG
66 ACACCCTTCTTCCATAAAAATAGGAAACCTAGACTTAATCTCCTATACTTTTTTTCTATCCTTAG
*
145706 TTTTGATTTTTATATTAATTTTGAACTTTAATTCCTTTAATATGATGTCT
131 ATTTGATTTTTATATTAATTTTGAACTTTAATTCCTTTAATATGATGTCT
145756 TCATGCACTA
Statistics
Matches: 166, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
191 166 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (191 bp):
TGATAAGCATGAAACTTGCATGTTACATCATCATCATCTTTAAGTGGAAAAGTCCTATATCAGAC
ACACCCTTCTTCCATAAAAATAGGAAACCTAGACTTAATCTCCTATACTTTTTTTCTATCCTTAG
ATTTGATTTTTATATTAATTTTGAACTTTAATTCCTTTAATATGATGTCTATCCTTAGTTT
Found at i:147091 original size:193 final size:193
Alignment explanation
Indices: 146697--147129 Score: 733
Period size: 193 Copynumber: 2.2 Consensus size: 193
146687 TTGAAAAACG
*
146697 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGGCAATTTAAGTGAGA
1 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGA
*
146762 ATAAAATTTAAACTTTGATGCATTTAAAAGCGGAGTTGGAGTATCCCCTCGGAGGAATATGGTTG
66 ATAAAATTTAAACTTTGATGCATTTAAAAGCGGAGTTGGAGTATCCCCTCGGAGGAATAGGGTTG
* *
146827 AAGTATCCCCGTTGGTGACAATTTAAGTGAGAATAAGATTTAAATTTTGATGTGTTTAAAAGC
131 AAGTATCCCCGATGGTGACAATTTAAGTGAGAATAAGATTTAAACTTTGATGTGTTTAAAAGC
*
146890 GAGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCTGATGATGACAATTTAAGTGAG
1 G-GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAG
* * * *
146955 AATAAAATTTAAACTTTGTTGCGTTTAAAAG-GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTT
65 AATAAAATTTAAACTTTGATGCATTTAAAAGCGGAGTTGGAGTATCCCCTCGGAGGAATAGGGTT
*
147019 GAAGTGTCCCCGATGGTGACAATTTAAGTGAGAATAAGATTTAAACTTTGATGTGTTTAAAAGC
130 GAAGTATCCCCGATGGTGACAATTTAAGTGAGAATAAGATTTAAACTTTGATGTGTTTAAAAGC
* *
147083 AGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
1 -GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGAT
147130 AAATAAAATT
Statistics
Matches: 225, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
193 134 0.60
194 91 0.40
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (193 bp):
GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGA
ATAAAATTTAAACTTTGATGCATTTAAAAGCGGAGTTGGAGTATCCCCTCGGAGGAATAGGGTTG
AAGTATCCCCGATGGTGACAATTTAAGTGAGAATAAGATTTAAACTTTGATGTGTTTAAAAGC
Found at i:147140 original size:97 final size:96
Alignment explanation
Indices: 146697--147129 Score: 659
Period size: 97 Copynumber: 4.5 Consensus size: 96
146687 TTGAAAAACG
*
146697 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGGCAATTTAAGTGAGA
1 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGA
*
146762 ATAAAATTTAAACTTTGATGCATTTAAAAGC
66 ATAAAATTTAAACTTTGATGCGTTTAAAAGC
** * * * *
146793 GGAGTTGGAGTATCCCCTCGGAGGAATATGGTTGAAGTATCCCCGTTGGTGACAATTTAAGTGAG
1 GG-GTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAG
* * *
146858 AATAAGATTTAAATTTTGATGTGTTTAAAAGC
65 AATAAAATTTAAACTTTGATGCGTTTAAAAGC
*
146890 GAGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCTGATGATGACAATTTAAGTGAG
1 G-GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAG
* *
146955 AATAAAATTTAAACTTTGTTGCGTTTAAAAGG
65 AATAAAATTTAAACTTTGATGCGTTTAAAAGC
* *
146987 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATTTAAGTGAGA
1 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGA
* *
147052 ATAAGATTTAAACTTTGATGTGTTTAAAAGC
66 ATAAAATTTAAACTTTGATGCGTTTAAAAGC
* *
147083 AGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
1 -GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGAT
147130 AAATAAAATT
Statistics
Matches: 301, Mismatches: 33, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
96 90 0.30
97 210 0.70
98 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (96 bp):
GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGA
ATAAAATTTAAACTTTGATGCGTTTAAAAGC
Found at i:150291 original size:34 final size:34
Alignment explanation
Indices: 150253--150318 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
150243 TATAGCCATA
* *
150253 AATAAATTTTAAAGAATATTATATTTGATTCTTC
1 AATAAATTATAAAGAATATTATATTTCATTCTTC
* * *
150287 AATAAATTATAAAGCATTTTATGTTTCATTCT
1 AATAAATTATAAAGAATATTATATTTCATTCT
150319 AATAAAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (34 bp):
AATAAATTATAAAGAATATTATATTTCATTCTTC
Found at i:151853 original size:15 final size:14
Alignment explanation
Indices: 151834--151861 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
151824 TAATAACAAA
151834 AAAAAAAAAACATG
1 AAAAAAAAAACATG
151848 AAAAAAAAAACATG
1 AAAAAAAAAACATG
151862 CTACACAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAAAAAAACATG
Found at i:152480 original size:2 final size:2
Alignment explanation
Indices: 152468--152520 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
152458 TTTTTGTAGT
*
152468 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
152510 TA TA TA TA TA T
1 TA TA TA TA TA T
152521 GCTTAAGTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:154061 original size:6 final size:6
Alignment explanation
Indices: 154050--154077 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
154040 ATGTATGTAG
154050 TGATAA TGATAA TGATAA TGATAA TGAT
1 TGATAA TGATAA TGATAA TGATAA TGAT
154078 CATTTGATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (6 bp):
TGATAA
Found at i:155326 original size:340 final size:341
Alignment explanation
Indices: 154705--155390 Score: 1203
Period size: 340 Copynumber: 2.0 Consensus size: 341
154695 TACAAAGCTC
*
154705 ATTTATGAAAACTGAACTCTGATGTGAAAGGTTGCCCACTACACTATTAACTAAGTTGAAATGCT
1 ATTTATGAAAACTGAACTCTGATGTAAAAGGTTGCCCACTACACTATTAACTAAGTTGAAATGCT
154770 TCTATTCGATTTGATTTTTTTAATAAAAAATATAATTAATATTTAAATTTTTTAAAATTACTCAA
66 TCTATTCGATTTGATTTTTTTAATAAAAAATATAATTAATATTTAAATTTTTTAAAATTACTCAA
* **
154835 AATTGAATCAAATTTTAAATAAATCAAATTCAAATATTTTATATGATTTAAATTAATTTACAATT
131 AATTGAATCAAAGTTTAAATAAATCAAACCCAAATATTTTATATGATTTAAATTAATTTACAATT
* * *
154900 TTCTCAGTTGTTCCCAACCTTAATATTAGAAACTTATCAATTTATGAAAATGAAAGCACGCTAGA
196 TTCTCAGTTGTTCCCAACCTTAATAATAGAAACATATCAATTGATGAAAATGAAAGCACGCTAGA
*
154965 ATAATACTATGCCATTGTCCCATCCTAACACTAACACTAATGCTAAAACTAAATGCAAACTTTAA
261 ATAATACTATGCCATTGTCCCACCCTAACACTAACACTAATGCTAAAACTAAATGCAAACTTTAA
*
155030 TTTGTTTAAGTCTTAA
326 TTGGTTTAAGTCTTAA
* * *
155046 ATTTATGGAAACTGAACTCTGATGTAAAAGGTTGCTCGCTACACTATTAACTAAGTTGAAATGCT
1 ATTTATGAAAACTGAACTCTGATGTAAAAGGTTGCCCACTACACTATTAACTAAGTTGAAATGCT
* *
155111 TCTATTTGATTTGA-TTTTTTAATAAAAAATATAATTAATATTTAAATTTTTTAAAATTACTTAA
66 TCTATTCGATTTGATTTTTTTAATAAAAAATATAATTAATATTTAAATTTTTTAAAATTACTCAA
155175 AATTGAATCAAAGTTTAAATAAATCAAACCCAAATATTTTATATGATTTAAATTAATTTACAATT
131 AATTGAATCAAAGTTTAAATAAATCAAACCCAAATATTTTATATGATTTAAATTAATTTACAATT
* *
155240 TTCTCAGTTGTTCCCAACTTTAATAATATAAACATATCAATTGATGAAAATGAAAGCACGCTAGA
196 TTCTCAGTTGTTCCCAACCTTAATAATAGAAACATATCAATTGATGAAAATGAAAGCACGCTAGA
*
155305 ATAATACTATGCCATTGTCCCACCCTAACACTAACACTAATGCTAAAACTAATTGCAAACTTTAA
261 ATAATACTATGCCATTGTCCCACCCTAACACTAACACTAATGCTAAAACTAAATGCAAACTTTAA
*
155370 TTGGTTTGAGTCTTAA
326 TTGGTTTAAGTCTTAA
155386 ATTTA
1 ATTTA
155391 AGTTCTCAAA
Statistics
Matches: 327, Mismatches: 18, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
340 253 0.77
341 74 0.23
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (341 bp):
ATTTATGAAAACTGAACTCTGATGTAAAAGGTTGCCCACTACACTATTAACTAAGTTGAAATGCT
TCTATTCGATTTGATTTTTTTAATAAAAAATATAATTAATATTTAAATTTTTTAAAATTACTCAA
AATTGAATCAAAGTTTAAATAAATCAAACCCAAATATTTTATATGATTTAAATTAATTTACAATT
TTCTCAGTTGTTCCCAACCTTAATAATAGAAACATATCAATTGATGAAAATGAAAGCACGCTAGA
ATAATACTATGCCATTGTCCCACCCTAACACTAACACTAATGCTAAAACTAAATGCAAACTTTAA
TTGGTTTAAGTCTTAA
Found at i:159010 original size:2 final size:2
Alignment explanation
Indices: 159003--159033 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
158993 AGAAGCGGTT
159003 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
159034 CTTGCTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:159748 original size:20 final size:20
Alignment explanation
Indices: 159723--159771 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
159713 TAGAGTCTTG
159723 ATCTAGAGTTTATTTATGCA
1 ATCTAGAGTTTATTTATGCA
159743 ATCTAGAGTTTATTTATGCA
1 ATCTAGAGTTTATTTATGCA
159763 ATCTAGAGT
1 ATCTAGAGT
159772 CGAATCCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (20 bp):
ATCTAGAGTTTATTTATGCA
Found at i:159942 original size:13 final size:13
Alignment explanation
Indices: 159924--159949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
159914 GCCAAGGAAA
159924 TGTATCGATACAT
1 TGTATCGATACAT
159937 TGTATCGATACAT
1 TGTATCGATACAT
159950 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:162444 original size:31 final size:28
Alignment explanation
Indices: 162416--162492 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
162406 TTTTTTCACA
*
162416 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
162444 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
162472 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
162493 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:163792 original size:15 final size:15
Alignment explanation
Indices: 163772--163804 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
163762 CATTGTTATA
163772 AAATCTATGAAAACT
1 AAATCTATGAAAACT
163787 AAATCTATGAAAACT
1 AAATCTATGAAAACT
163802 AAA
1 AAA
163805 GTTAGTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.24
Consensus pattern (15 bp):
AAATCTATGAAAACT
Found at i:166481 original size:28 final size:28
Alignment explanation
Indices: 166441--166512 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
166431 GGAATAAAGC
** *
166441 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
166469 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
166497 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
166513 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:166590 original size:52 final size:51
Alignment explanation
Indices: 166534--166670 Score: 150
Period size: 52 Copynumber: 2.6 Consensus size: 51
166524 AAATTGGTAT
*
166534 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCG
1 TTTTGGAAATAAAATCGG-GTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
* * * * *
166586 TTTTGAAAATAAAACCGGGATTAGAGTATCCCCGATTATGGAAAAATTAGTG
1 TTTTGGAAATAAAATCGGG-TTGGAGTATCCCCGATTAAGGAAAAATTAGCG
* **
166638 TTTTAGCGATAAAATCGGGGTTGGAGTATCCCC
1 TTTTGGAAATAAAATC-GGGTTGGAGTATCCCC
166671 TCGGAAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
51 4 0.06
52 63 0.90
53 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (51 bp):
TTTTGGAAATAAAATCGGGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:166684 original size:212 final size:213
Alignment explanation
Indices: 166441--166840 Score: 601
Period size: 212 Copynumber: 1.9 Consensus size: 213
166431 GGAATAAAGC
*
166441 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGG
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGG
* *
166506 AGTATCCTCGACTGTGAA-AAATT-G-GTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCG
65 AGTATCCCCGACTGTGAAGAAATTGGTGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCG
* * *
166568 ATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGG-GATTAGAGTATCCCCGATTATGGAAAAA
130 ATTAAA-GAAAATTAGCGCTTTGAAAATAAAACCGGAG-TTAGAATATCCCCGATTATGGAAAAA
166632 TTAGTGTTTTAGCGATAAAAT
193 TTAGTGTTTTAGCGATAAAAT
* *
166653 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGA
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGA
* * *
166718 GTATCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCTCGA
66 GTATCCCCGACTGTGAAGAAATTGGTGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGA
* * * * *
166783 TTATAGAAAATTAGTGCTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
131 TTAAAGAAAATTAGCGCTTTGAAAATAAAACCGGAGTTAGAATATCCCCGATTATGGA
166841 GAATTGAGAA
Statistics
Matches: 168, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
211 28 0.17
212 54 0.32
213 45 0.27
214 41 0.24
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (213 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGA
GTATCCCCGACTGTGAAGAAATTGGTGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGA
TTAAAGAAAATTAGCGCTTTGAAAATAAAACCGGAGTTAGAATATCCCCGATTATGGAAAAATTA
GTGTTTTAGCGATAAAAT
Found at i:166716 original size:27 final size:28
Alignment explanation
Indices: 166653--166728 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
166643 GCGATAAAAT
***
166653 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
166681 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
166708 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
166729 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Done.