Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010313.1 Corchorus capsularis cultivar CVL-1 contig10334, whole genome shotgun sequence
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: 114502
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:485 original size:184 final size:185
Alignment explanation
Indices: 1--702 Score: 1381
Period size: 185 Copynumber: 3.8 Consensus size: 185
1 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
1 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
66 GAAAGTGAAATTCACTCATCAAATCATTACTTCA-TTTTTCAATATTCATATATCTTTCTTTCTA
66 GAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTA
130 TATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACA
131 TATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACA
185 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGTATTGTGCTTGACCTTTTAATCTT
1 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTG-ATTGTGCTTGACCTTTTAATCTT
250 TGAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCT
65 TGAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCT
315 ATATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCA-TTTTTTCATCAAACA
130 ATATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACA
370 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
1 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
435 GAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTA
66 GAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTA
500 TATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACA
131 TATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACA
555 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
1 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
620 GAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTA
66 GAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTA
685 TATCCTTGCTATAGACTA
131 TATCCTTGCTATAGACTA
703 TTGGCTTTTT
Statistics
Matches: 515, Mismatches: 0, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
184 169 0.33
185 277 0.54
186 69 0.13
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (185 bp):
CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
GAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTA
TATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACA
Found at i:680 original size:369 final size:369
Alignment explanation
Indices: 1--702 Score: 1388
Period size: 369 Copynumber: 1.9 Consensus size: 369
1 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
1 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
66 GAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTCAATATTCATATATCTTTCTTTCTAT
66 GAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTCAATATTCATATATCTTTCTTTCTAT
131 ATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACACATAACATAGA
131 ATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACACATAACATAGA
196 AAACTATAAGCTTTAGACAAATCTTGGTTGTATTGTGCTTGACCTTTTAATCTTTGAAAGTGAAA
196 AAACTATAAGCTTTAGACAAATCTTGGTTGTATTGTGCTTGACCTTTTAATCTTTGAAAGTGAAA
261 TTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTATATCCTTGCT
261 TTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTATATCCTTGCT
326 ATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTCATCAAACA
326 ATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTCATCAAACA
370 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
1 CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
435 GAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTA
66 GAAAGTGAAATTCACTCATCAAATCATTACTTCA-TTTTTCAATATTCATATATCTTTCTTTCTA
500 TATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACACATAACATAG
130 TATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACACATAACATAG
565 AAAACTATAAGCTTTAGACAAATCTTGGTTG-ATTGTGCTTGACCTTTTAATCTTTGAAAGTGAA
195 AAAACTATAAGCTTTAGACAAATCTTGGTTGTATTGTGCTTGACCTTTTAATCTTTGAAAGTGAA
629 ATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTATATCCTTGC
260 ATTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTATATCCTTGC
694 TATAGACTA
325 TATAGACTA
703 TTGGCTTTTT
Statistics
Matches: 332, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
369 206 0.62
370 126 0.38
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (369 bp):
CATAACATAGAAAACTATAAGCTTTAGACAAATCTTGGTTGATTGTGCTTGACCTTTTAATCTTT
GAAAGTGAAATTCACTCATCAAATCATTACTTCATTTTTCAATATTCATATATCTTTCTTTCTAT
ATCCTTGCTATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTTCATCAAACACATAACATAGA
AAACTATAAGCTTTAGACAAATCTTGGTTGTATTGTGCTTGACCTTTTAATCTTTGAAAGTGAAA
TTCACTCATCAAATCATTACTTCATTTTTTCAATATTCATATATCTTTCTTTCTATATCCTTGCT
ATAGACTAAAAGTGCAGATTTTGTAGCCATTTTTTCATCAAACA
Found at i:2543 original size:30 final size:30
Alignment explanation
Indices: 2507--2569 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
2497 GCATTTTGCT
2507 GCAATTGCACCACATGGATTTTGCAGAGTG
1 GCAATTGCACCACATGGATTTTGCAGAGTG
2537 GCAATTGCACCACATGGATTTTGCAGAGTG
1 GCAATTGCACCACATGGATTTTGCAGAGTG
2567 GCA
1 GCA
2570 TTGGCATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (30 bp):
GCAATTGCACCACATGGATTTTGCAGAGTG
Found at i:3726 original size:15 final size:15
Alignment explanation
Indices: 3703--3732 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3693 CCTAAATTTG
3703 TAAAAAAAAAAAAGA
1 TAAAAAAAAAAAAGA
*
3718 TAAAGAAAAAAAAGA
1 TAAAAAAAAAAAAGA
3733 CAAATTAGCC
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:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (15 bp):
TAAAAAAAAAAAAGA
Found at i:3907 original size:14 final size:14
Alignment explanation
Indices: 3878--3914 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3868 AAAATACCAT
3878 TAATTATAATTAATA
1 TAATTA-AATTAATA
*
3893 TAATTAAATTTATA
1 TAATTAAATTAATA
3907 TAATTAAA
1 TAATTAAA
3915 AAAAACTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAATTAAATTAATA
Found at i:14707 original size:60 final size:57
Alignment explanation
Indices: 14585--14718 Score: 162
Period size: 60 Copynumber: 2.3 Consensus size: 57
14575 TAACGTACGT
* *
14585 GAAAATGCTCAAATAAGGGCATTTTTTTATTTGGTCAAATAGTGCCATAATGCATGC
1 GAAAATGCTCAAATAAGGGCATCTTTTAATTTGGTCAAATAGTGCCATAATGCATGC
* * * **
14642 AAAAATGCTCAAATAAGGGCCCATGCTTTTAATTTGGTCAAATAG-GACCCTAGTGTTTGC
1 GAAAATGCTCAAATAAGGG--CAT-CTTTTAATTTGGTCAAATAGTG-CCATAATGCATGC
14702 GAAAATGCTCAAATAAG
1 GAAAATGCTCAAATAAG
14719 ACCCAATGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
57 18 0.28
59 4 0.06
60 43 0.66
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (57 bp):
GAAAATGCTCAAATAAGGGCATCTTTTAATTTGGTCAAATAGTGCCATAATGCATGC
Found at i:14861 original size:60 final size:60
Alignment explanation
Indices: 14763--14932 Score: 207
Period size: 60 Copynumber: 2.9 Consensus size: 60
14753 AAACACCAGA
* * * * *
14763 ATCTTATTTGACCATTTTCGCAAACGTTAGGATTCTATTTGACCAAATTAAAATAATGGG
1 ATCTTATTTGAGCATTTTCGCATACGTTAGGATCCTATTTGACCAAATTAAAAGAATGAG
* * * *
14823 ATCTTATTAGAGCATTTTCACATACGTTGGGGTCCTATTTGACCAAATTAAAAGAATGAG
1 ATCTTATTTGAGCATTTTCGCATACGTTAGGATCCTATTTGACCAAATTAAAAGAATGAG
** * * *
14883 CCCTTATTTGAGCATTTTTGCATACATTAGGATCCTATTTGAGC-AATTAA
1 ATCTTATTTGAGCATTTTCGCATACGTTAGGATCCTATTTGACCAAATTAA
14933 CCTAATAATA
Statistics
Matches: 92, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
59 6 0.07
60 86 0.93
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (60 bp):
ATCTTATTTGAGCATTTTCGCATACGTTAGGATCCTATTTGACCAAATTAAAAGAATGAG
Found at i:33481 original size:14 final size:14
Alignment explanation
Indices: 33459--33495 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
33449 TCCATTGAGT
33459 TAAACTAACCTAAC
1 TAAACTAACCTAAC
*
33473 TAAATTAACCTAAC
1 TAAACTAACCTAAC
*
33487 TAACCTAAC
1 TAAACTAAC
33496 TTACTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACTAACCTAAC
Found at i:35677 original size:27 final size:24
Alignment explanation
Indices: 35647--35707 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 24
35637 TCCAGATAAT
*
35647 GATGAGGATGGTGAAGATGATGATGAG
1 GATGAGGATGGTCAAGATG-T--TGAG
35674 GATGAGGATGGTCAAGATGTTGAG
1 GATGAGGATGGTCAAGATGTTGAG
*
35698 GAAGAGGATG
1 GATGAGGATG
35708 TAGATGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 13 0.41
26 1 0.03
27 18 0.56
ACGTcount: A:0.33, C:0.02, G:0.44, T:0.21
Consensus pattern (24 bp):
GATGAGGATGGTCAAGATGTTGAG
Found at i:35692 original size:21 final size:21
Alignment explanation
Indices: 35584--35677 Score: 127
Period size: 21 Copynumber: 4.5 Consensus size: 21
35574 GGAAGGTGTG
35584 GATGAGGATGGTGGAGATG-T
1 GATGAGGATGGTGGAGATGAT
35604 CGATGAGGATGGTGGAGATGAT
1 -GATGAGGATGGTGGAGATGAT
* ** *
35626 GATGAAGATGGTCCAGATAAT
1 GATGAGGATGGTGGAGATGAT
*
35647 GATGAGGATGGTGAAGATGAT
1 GATGAGGATGGTGGAGATGAT
35668 GATGAGGATG
1 GATGAGGATG
35678 AGGATGGTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
21 63 0.98
22 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.43, T:0.23
Consensus pattern (21 bp):
GATGAGGATGGTGGAGATGAT
Found at i:37548 original size:59 final size:60
Alignment explanation
Indices: 37417--37586 Score: 265
Period size: 58 Copynumber: 2.9 Consensus size: 60
37407 GATGTTTAGG
* * *
37417 TTAA-TTGCTCAAATAAGGGCCTAACATTTGCCAAAATGCTCAAATAAGGGCCCGATCTT
1 TTAATTTGGTCAAATAAGGGCCTAACGTTTGCCAAAATGCTCAAATAAGGGCCAGATCTT
* * *
37476 TT-ATTTGGCCAAATAAGGG-CTAATGTTTGCCAAAATGCTCAAATAAGGGTCAGATCTT
1 TTAATTTGGTCAAATAAGGGCCTAACGTTTGCCAAAATGCTCAAATAAGGGCCAGATCTT
37534 TTAATTTGGTCAAATAAGGGCCTAACGTTTGCCAAAATGCTCAAATAAGGGCC
1 TTAATTTGGTCAAATAAGGGCCTAACGTTTGCCAAAATGCTCAAATAAGGGCC
37587 TGGCATTGAA
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
58 38 0.38
59 31 0.31
60 30 0.30
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (60 bp):
TTAATTTGGTCAAATAAGGGCCTAACGTTTGCCAAAATGCTCAAATAAGGGCCAGATCTT
Found at i:37725 original size:31 final size:31
Alignment explanation
Indices: 37630--37729 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
37620 GACGCCAGGT
* * *
37630 CCTTATTTGAGCATTTTCGATAACGTTAAGT
1 CCTTATTTGAGCATTTTCGATAACATTAGGC
** * * *
37661 CCTTATTTG-GCCAAATT--AAAAAATTGGGC
1 CCTTATTTGAG-CATTTTCGATAACATTAGGC
37690 CCTTATTTGAGCATTTTCGATAACATTAGGC
1 CCTTATTTGAGCATTTTCGATAACATTAGGC
37721 CCTTATTTG
1 CCTTATTTG
37730 GGCAAATTAA
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
29 19 0.37
30 2 0.04
31 31 0.60
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (31 bp):
CCTTATTTGAGCATTTTCGATAACATTAGGC
Found at i:37779 original size:60 final size:60
Alignment explanation
Indices: 37630--37789 Score: 205
Period size: 60 Copynumber: 2.7 Consensus size: 60
37620 GACGCCAGGT
* * ***
37630 CCTTATTTGAGCATTTTCGATAACGTTAAGTCCTTATTTGGCCAAATTAAAAAATTGGGC
1 CCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAAATCAAGC
* * *
37690 CCTTATTTGAGCATTTTCGATAACATTAGGCCCTTATTTGGGCAAATTAAAAGATCAAGC
1 CCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAAATCAAGC
* * *
37750 CCTTATTTGAGTATTTTAGCA-AATGTTAGGCCCTTATTTG
1 CCTTATTTGAGCATTTTCG-ATAACGTTAGGCCCTTATTTG
37790 AGTAATTAGC
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 86 0.99
61 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (60 bp):
CCTTATTTGAGCATTTTCGATAACGTTAGGCCCTTATTTGGCCAAATTAAAAAATCAAGC
Found at i:43322 original size:1 final size:1
Alignment explanation
Indices: 43318--43348 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
43308 TTTTGTCGGG
43318 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
43349 AATGTAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:46554 original size:2 final size:2
Alignment explanation
Indices: 46539--46586 Score: 57
Period size: 2 Copynumber: 24.5 Consensus size: 2
46529 GTTATCTTTA
46539 AT AT AT GAT GAT AT AT AT AT AT AT AT AT AT AT AT AT -T AT -T A-
1 AT AT AT -AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46580 AT AT AT A
1 AT AT AT A
46587 AATCTTGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.07
2 34 0.81
3 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57407 original size:51 final size:51
Alignment explanation
Indices: 57335--57439 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
57325 AGTAATGTCT
57335 TCATCTGATGATCGGGGCGCAGGCTCAGCAGCAATGTAGGTATCTTGCATC
1 TCATCTGATGATCGGGGCGCAGGCTCAGCAGCAATGTAGGTATCTTGCATC
*
57386 TCATCTGATGATCGGGGCGCAGGCTCAGCTGCAATGTAGGTATCTTGCATC
1 TCATCTGATGATCGGGGCGCAGGCTCAGCAGCAATGTAGGTATCTTGCATC
57437 TCA
1 TCA
57440 GTGGTGGCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.27
Consensus pattern (51 bp):
TCATCTGATGATCGGGGCGCAGGCTCAGCAGCAATGTAGGTATCTTGCATC
Found at i:57563 original size:36 final size:30
Alignment explanation
Indices: 57544--57601 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
57534 TGCCAGGTGT
*
57544 ACATGGTGGTGGTAAATTGCAATTTCCTGA
1 ACATGGTGGTGGTAAATTGCAATTGCCTGA
57574 ACATGGTGGTGGTAAATTGCAATTGCCT
1 ACATGGTGGTGGTAAATTGCAATTGCCT
57602 CCAGGTTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (30 bp):
ACATGGTGGTGGTAAATTGCAATTGCCTGA
Found at i:57617 original size:36 final size:33
Alignment explanation
Indices: 57536--57597 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 33
57526 GCAAGGGTTG
*
57536 CCAGGTGTACATGGTGGTGGTAAATTGCAATTT
1 CCAGGTGAACATGGTGGTGGTAAATTGCAATTT
57569 CC---TGAACATGGTGGTGGTAAATTGCAATT
1 CCAGGTGAACATGGTGGTGGTAAATTGCAATT
57598 GCCTCCAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 26 0.93
33 2 0.07
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (33 bp):
CCAGGTGAACATGGTGGTGGTAAATTGCAATTT
Found at i:57657 original size:18 final size:18
Alignment explanation
Indices: 57634--57702 Score: 95
Period size: 18 Copynumber: 3.8 Consensus size: 18
57624 ATAGTGGGAT
57634 TGGGATTTCTGGAATTGG
1 TGGGATTTCTGGAATTGG
57652 TGGGATTTCTGGAATTGG
1 TGGGATTTCTGGAATTGG
**
57670 TGGGATTT-TGGGAAAGGG
1 TGGGATTTCT-GGAATTGG
*
57688 TGGGATTTTTGGAAT
1 TGGGATTTCTGGAAT
57703 AGGTAAACCG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
17 1 0.02
18 44 0.96
19 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.41, T:0.38
Consensus pattern (18 bp):
TGGGATTTCTGGAATTGG
Found at i:57889 original size:36 final size:36
Alignment explanation
Indices: 57849--57993 Score: 146
Period size: 36 Copynumber: 3.9 Consensus size: 36
57839 CCCGACCCGG
57849 TTCCAATTCCAACTCCATATCCAGTTCCACTCCCAC
1 TTCCAATTCCAACTCCATATCCAGTTCCACTCCCAC
* ** * * *
57885 TTCCACTTCCTGCTCCATATCCATTTGATCCACCCGATCCAG
1 TTCCAATTCCAACTCCATATCCA---GTTCCACTC---CCAC
*
57927 TTCCAATTCCAACTCCATATCCGGTTCCACTCCCAC
1 TTCCAATTCCAACTCCATATCCAGTTCCACTCCCAC
* * *
57963 TTCCAGTTCCTACTCCATATCCAGTGCCACT
1 TTCCAATTCCAACTCCATATCCAGTTCCACT
57994 TCCTCCTGAT
Statistics
Matches: 86, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
36 50 0.58
39 14 0.16
42 22 0.26
ACGTcount: A:0.21, C:0.42, G:0.07, T:0.30
Consensus pattern (36 bp):
TTCCAATTCCAACTCCATATCCAGTTCCACTCCCAC
Found at i:57914 original size:78 final size:78
Alignment explanation
Indices: 57821--57985 Score: 267
Period size: 78 Copynumber: 2.1 Consensus size: 78
57811 TTGCCCAATC
*
57821 CCATATCCACCTGATCCACCCGACCCGGTTCCAATTCCAACTCCATATCCAGTTCCACTCCCACT
1 CCATATCCACCTGATCCACCCGACCCAGTTCCAATTCCAACTCCATATCCAGTTCCACTCCCACT
*
57886 TCCACTTCCTGCT
66 TCCACTTCCTACT
** * *
57899 CCATATCCATTTGATCCACCCGATCCAGTTCCAATTCCAACTCCATATCCGGTTCCACTCCCACT
1 CCATATCCACCTGATCCACCCGACCCAGTTCCAATTCCAACTCCATATCCAGTTCCACTCCCACT
*
57964 TCCAGTTCCTACT
66 TCCACTTCCTACT
57977 CCATATCCA
1 CCATATCCA
57986 GTGCCACTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.22, C:0.44, G:0.07, T:0.27
Consensus pattern (78 bp):
CCATATCCACCTGATCCACCCGACCCAGTTCCAATTCCAACTCCATATCCAGTTCCACTCCCACT
TCCACTTCCTACT
Found at i:57954 original size:18 final size:17
Alignment explanation
Indices: 57928--57993 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
57918 CCGATCCAGT
*
57928 TCCAATTCCAACTCCATA
1 TCCAGTTCC-ACTCCATA
*
57946 TCCGGTTCCACTCCCACT-
1 TCCAGTTCCACT-CCA-TA
57964 TCCAGTTCCTACTCCATA
1 TCCAGTTCC-ACTCCATA
*
57982 TCCAGTGCCACT
1 TCCAGTTCCACT
57994 TCCTCCTGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 7 0.17
18 29 0.73
19 4 0.10
ACGTcount: A:0.21, C:0.42, G:0.08, T:0.29
Consensus pattern (17 bp):
TCCAGTTCCACTCCATA
Found at i:61051 original size:11 final size:11
Alignment explanation
Indices: 61035--61069 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
61025 AGTTGAAATC
61035 TTTTTGTTTTT
1 TTTTTGTTTTT
61046 TTTTTGTTTTCT
1 TTTTTGTTTT-T
61058 TTTTT-TTTTT
1 TTTTTGTTTTT
61068 TT
1 TT
61070 GGCTTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.13
11 14 0.61
12 6 0.26
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:61060 original size:16 final size:16
Alignment explanation
Indices: 61036--61066 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61026 GTTGAAATCT
*
61036 TTTTGTTTTTTTTTTG
1 TTTTCTTTTTTTTTTG
61052 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTT
61067 TTTGGCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.90
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTG
Found at i:61075 original size:16 final size:16
Alignment explanation
Indices: 61037--61077 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
61027 TTGAAATCTT
61037 TTTG-TTTTTTTTTTG
1 TTTGCTTTTTTTTTTG
*
61052 TTTTCTTTTTTTTTT-
1 TTTGCTTTTTTTTTTG
61067 TTTGGCTTTTT
1 TTT-GCTTTTT
61078 CATTGTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (16 bp):
TTTGCTTTTTTTTTTG
Found at i:61351 original size:2 final size:2
Alignment explanation
Indices: 61346--61379 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
61336 ATCGAGCCTG
61346 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
61380 AAGGTTACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:75110 original size:2 final size:2
Alignment explanation
Indices: 75103--75127 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
75093 TACATGAACA
75103 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
75128 ATTAATTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:81609 original size:24 final size:24
Alignment explanation
Indices: 81582--81627 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
81572 TATCGTTATA
*
81582 AATTTTAAGGTCTTCAAGATCTTC
1 AATTTTAAGGTATTCAAGATCTTC
81606 AATTTTAAGGTATTCAAGATCT
1 AATTTTAAGGTATTCAAGATCT
81628 GGGGCATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (24 bp):
AATTTTAAGGTATTCAAGATCTTC
Found at i:99554 original size:20 final size:20
Alignment explanation
Indices: 99529--99635 Score: 69
Period size: 20 Copynumber: 5.2 Consensus size: 20
99519 CAACTTCTCC
99529 TTCTTTTTCTTCTCTTTCCT
1 TTCTTTTTCTTCTCTTTCCT
* *
99549 TTCTTTCTCTTTTCTCTT-CT
1 TTCTTTTTCTTCTCT-TTCCT
*
99569 TTC-TTTTCCTCTCTTCTTCTCT
1 TTCTTTTTCTTCTC-T-TTC-CT
* *
99591 CTCCTTTTCCTTC-CTTCTCCT
1 -TTCTTTTTCTTCTCTT-TCCT
*
99612 CTTCTTTTCCTTCTCTTT-CT
1 -TTCTTTTTCTTCTCTTTCCT
99632 TTCT
1 TTCT
99636 CAACTTCCTC
Statistics
Matches: 70, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
19 11 0.16
20 24 0.34
21 18 0.26
22 8 0.11
23 3 0.04
24 6 0.09
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTTTTCTTCTCTTTCCT
Found at i:99583 original size:17 final size:16
Alignment explanation
Indices: 99538--99592 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
99528 CTTCTTTTTC
*
99538 TTCTCTTTCCT-TTCT
1 TTCTCTTTTCTCTTCT
99553 TTCTCTTTTCTCTTCT
1 TTCTCTTTTCTCTTCT
99569 TTCT-TTTCCTCTCTTCT
1 TTCTCTTT--TCTCTTCT
99586 TCTCTCT
1 T-TCTCT
99593 CCTTTTCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 13 0.38
16 8 0.24
17 9 0.26
18 3 0.09
19 1 0.03
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCTCTTTTCTCTTCT
Found at i:99595 original size:17 final size:17
Alignment explanation
Indices: 99522--99626 Score: 55
Period size: 17 Copynumber: 6.4 Consensus size: 17
99512 CTCTCTCCAA
99522 CTTCTCCT-TCTT-TTT
1 CTTCTCCTCTCTTCTTT
*
99537 CTTCT-CTTTCCTTTCTTT
1 CTTCTCCTCT-C-TTCTTT
**
99555 C-TCTTTTCTCTTCTTT
1 CTTCTCCTCTCTTCTTT
*
99571 CTTTTCCTCTCTTC-TT
1 CTTCTCCTCTCTTCTTT
*
99587 CTCTCTCCT-T-TTCCTTC
1 CT-TCTCCTCTCTT-CTTT
*
99604 CTTCTCCTCTTCTT-TTC
1 CTTCTCCTC-TCTTCTTT
99621 CTTCTC
1 CTTCTC
99627 TTTCTTTCTC
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
14 2 0.03
15 8 0.11
16 20 0.28
17 32 0.45
18 7 0.10
19 2 0.03
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (17 bp):
CTTCTCCTCTCTTCTTT
Found at i:99636 original size:10 final size:10
Alignment explanation
Indices: 99523--99636 Score: 53
Period size: 10 Copynumber: 11.5 Consensus size: 10
99513 TCTCTCCAAC
*
99523 TTCTCCTTCT
1 TTCTCTTTCT
*
99533 TTTTCTTCTCT
1 TTCTCTT-TCT
99544 TTC-CTTTCT
1 TTCTCTTTCT
99553 TTCTCTTT-T
1 TTCTCTTTCT
*
99562 CTCTTCTTTCTT
1 TTC-TCTTTC-T
99574 TTCCTCTCTTC-
1 TT-CTCT-TTCT
*
99585 TTCTCTCTCCT
1 TTCTCT-TTCT
* *
99596 TT-TCCTTCC
1 TTCTCTTTCT
*
99605 TTCTC-CTC-
1 TTCTCTTTCT
*
99613 TTCT-TTTCC
1 TTCTCTTTCT
99622 TTCTCTTTCT
1 TTCTCTTTCT
99632 TTCTC
1 TTCTC
99637 AACTTCCTCT
Statistics
Matches: 80, Mismatches: 12, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
8 6 0.08
9 19 0.24
10 37 0.46
11 9 0.11
12 5 0.06
13 4 0.05
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (10 bp):
TTCTCTTTCT
Found at i:101009 original size:14 final size:14
Alignment explanation
Indices: 100990--101021 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
100980 AAAGCTTGAA
100990 TCTTGACTAGATTT
1 TCTTGACTAGATTT
101004 TCTTGACTAGATTT
1 TCTTGACTAGATTT
101018 TCTT
1 TCTT
101022 CGCAAATGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (14 bp):
TCTTGACTAGATTT
Found at i:102866 original size:332 final size:331
Alignment explanation
Indices: 101143--105098 Score: 3501
Period size: 332 Copynumber: 11.7 Consensus size: 331
101133 AATACTGGTA
* * * *
101143 AAAAAATTATATAATTCGATGCAAAAAAGAATGAAGTGCTTTTCAAGCTT-TCAATATCGTATTT
1 AAAAAA-TATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCT-AATATCGTATTT
* * * *
101207 CCTA-TTTTTTCCGAATTAATTTTTGATTAAATCGAAACATGATTCAGATGCTTGTAAAAACAAA
64 GCTATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAA
* * * * *
101271 TCCTTAAATCCAATGTGACTGAGAATTGGTTAGATGAATACACATATTTTAGTGAGTCTTGGCGC
129 TCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTTGGCGA
* * ** * ** * *
101336 CAAAAATCATGCAAAACTGAACCGAAAATCTGGAACGCGTTTTTAATCAAAAAAGCTGTGATGGT
194 CAAAAATCATGCAAAACTGAGCTG-GGACCCAGAACGCGTTTTT-AGCCAAAAA-CTGTGATGGT
*
101401 TAGTACACGATTTCAGCT-AAATTTTCGCAAAAATTGACCCGAAAAAATTTTCCTCAATTTTTGG
256 TAGTACACGATTTCAGCTAAAATTTT-GCAAAAACTGACCC-AAAAAATTTTCCTCAATTTTTGG
*
101465 CCACAATACTCGT
319 CCACAATACTCAT
* * *
101478 AAAAAATATATAATTCAATGCCAATAAGAATGAAGGGATTTTCACGCTTCTAATATCATATTTGC
1 AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTGC
* *
101543 TATTTTTTT-CGAATTAATTTCTAATTAAATTGAAACATGATTCAGATGCTCGGAAAAACAAATC
66 TATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATC
* * * *
101607 CTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATGTGGATATTTCTGTGAGTCTTGGC-ACC
131 CTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTTGGCGA-C
* * * * * * *
101671 AAAAATCATGCAAAATTGAGCAGGGA-CCTGAGGCGCGTTTTTAGCTAAAAACTATAATGGTTAG
195 AAAAATCATGCAAAACTGAGCTGGGACCCAGA-ACGCGTTTTTAGCCAAAAACTGTGATGGTTAG
* * * * * *
101735 TACACGATTTCGGCTAAATTTTTGCAAAAAATGATGACCAGAAAGAATTTTTCTCAATTTTTAGC
259 TACACGATTTCAGCTAAAATTTTGCAAAAACTGA--CCCA-AAA-AATTTTCCTCAATTTTTGGC
* *
101800 CACAATATTCGT
320 CACAATACTCAT
* * * * * * * *
101812 AAAATATATATAATTCAATGTCAAAAAAAATGGAGGGCTTGTAACGCTTCTAATATTGTATTTCC
1 AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTGC
* * * * *
101877 TATTTTTTTACTGAATTAATTTTTGATTAAATCGAAACATGATTCAGATGCTTGTAAAAAAAGAA
66 TATTTTTTT-CCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACA-AA
* * * *
101942 TCCTTAAATCCAAAGTGGCTGAGATTTAGTTAGATGAATATAGATATTTCAGTGAATCTTAGTGC
129 TCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTT-G-GC
* * * * * * ** *
102007 -A-AAAAATAATGCAAAA-TATAGTCGGGGCCCCGGAACTCGTAATTAGCCAAAAACTGTGATGA
192 GACAAAAATCATGCAAAACT-GAG-CTGGGACCCAGAACGCGTTTTTAGCCAAAAACTGTGATGG
* * * *
102069 TTAGTACACGATTT-TGACTAAAATTTTGCAAAACCT-ATCCCGAAAAATTTTCCGCAATTTTTT
255 TTAGTACACGATTTCAG-CTAAAATTTTGCAAAAACTGA-CCCAAAAAATTTTCCTCAA-TTTTT
102132 GGCCACAATACTCAT
317 GGCCACAATACTCAT
* * * * *
102147 CAGAAGTATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTGACGCTTCTAATATCGTATTTCC
1 AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTGC
* * *
102212 TA-TTTTTTCCGAATTAATTTCTGATTAAATCGAAACATGATTCAGATACTCG-GAAAA-AAATC
66 TATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATC
* * *
102274 CTTAAATCAAATGTGACTGAGATTTGGTTAGATGAATATAGGTATTTCAGTGAGTCTTGGCGCCA
131 CTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTTGGCGACA
* * *** * * ** *
102339 AAAATCATGCAAAACTGAGCCGGGACCAAGAACAAATTTTTAGCTAAAAACTATGATGAATAGTG
196 AAAATCATGCAAAACTGAGCTGGGACCCAGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTA
* * * * * *
102404 CACGATTTC-GCCTTAAATTTTTCAAAAACTAACCCAAAAAATTTTCCTTAATTTTTTGCCACAT
261 CACGATTTCAG-CTAAAATTTTGCAAAAACTGACCCAAAAAATTTTCCTCAATTTTTGGCCACAA
102468 TACTCAT
325 TACTCAT
** * * *
102475 AAAAAATATATAATTCAATGCCAAAAAGGTTGAAGGTCGTTTCACGCTTCTAATATCATATTTGC
1 AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTGC
* * * * * *
102540 GATTCTTTTTCCGAATTAATTTCTAAATAAGTCGAAACAAGATTTAGATCCTCGTAAAAA-AAAT
66 TATT-TTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAAT
* * * * *
102604 CCGTAAATCCAATGTGACTGATATTTGGTTAGAGGACTATAGATATTTCAGTGAGTCTTGGTGAC
130 CCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTTGGCGAC
* * * * * * *
102669 AATAATCAGGTAAAACTGAGCTGCAGACTCAGAACGCATTTTTAGCCAAAAACCGTGATGGTTAG
195 AAAAATCATGCAAAACTGAGCTG-GGACCCAGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAG
* * * * * **
102734 TACACTAATTCAGGTAAAATTTTGCAAAGACTGACCCAAAAAATTTTTCCTTAATTTTTTCCCAC
259 TACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAAA-TTTTCCTCAATTTTTGGCCAC
102799 AATACTCAT
323 AATACTCAT
* ** * * * * * *
102808 -TAATTTATATGATTCAATTCCAAAAAGAATAAAGGGCTTTTTATGCTTCTAATATCATATTT-C
1 AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTGC
* * * ** *
102871 -ATCATTTTTCTGAATTAATTTCTAATTAAATCGAAACATGACTCAGATAATCGTAAAAAAAAAT
66 TAT-TTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAA-
* * * * *
102935 TCCTTAAATCAAAT-AGAGCTGAGATTTGGTTAGATGAATATAGGTATTTCAGTGAATCCTGGCG
129 TCCTTAAATCCAATGTGA-CTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTTGGCG
* * *
102999 -CTAAAAATCATGCAAAACTGAGCTGGGGACCCGGGACGCGTTTTTAGCCAAAAAACTATGATGG
193 AC-AAAAATCATGCAAAACTGAGCT-GGGACCCAGAACGCGTTTTTAGCC-AAAAACTGTGATGG
* * * *** * **
103063 TTAGTATACGATTTCAGCTAAAGTTTTGCAAAAACTGATTCGGGAGAATTTTCCTCAATTTTTAT
255 TTAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGA-CCCAAAAAATTTTCCTCAATTTTTGG
103128 CCACAATACTCATAAATAACATATAAATATTTTTT
319 CCACAATA--C-----T--C--------A-----T
* *
103163 GACATAAAATAACATATAATTCAATGCCAAAAA-AATGAAAGGCTTTTCACGCTTTTAATATCGT
1 -A-A-AAAAT---ATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGT
* * * *
103227 ATTTCCTATTTTTTTTCGGAATTAATTTC-AGATTAAATTGAAACATGATTCAGATGTTCGTAAA
60 ATTTGCTA-TTTTTTTCCGAATTAATTTCTA-ATTAAATCGAAACATGATTCAGATGCTCGTAAA
* * * * ** * *
103291 AACAAATCCTTAACTCCAATGTGGCTGAGATTTGGTTAGATGAATACAAATATTTTTGAGAGCCT
123 AACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCT
* * * * * *
103356 TAGCGTA-AAAAATCATGCAAAACTGAGTTAGGGATCCAGAACGTGTTTTTAGCAAAAAAAATTG
188 TGGCG-ACAAAAATCATGCAAAACTGAGCT-GGGACCCAGAACGCGTTTTTAGC--CAAAAACTG
* * * * *
103420 TGATGGTTAGCATACGATTTAAGCTAAATTTTTGCAAAAACTGAACCCGAAATAATTTTCCTCAA
249 TGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAACTG-ACCC-AAAAAATTTTCCTCAA
103485 TTTTTGGCCACAATACTCAT
312 TTTTTGGCCACAATACTCAT
* * * *
103505 AAAAAATATTTAATTCAATGCCAATAAGAATGAAGGGATTTTCACGCTTCTAATATCATATTTGC
1 AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTGC
* *
103570 TATTTTTTTCCGAATAAATTTTCTAATTAAATCGAAACATGATTCAGATGCTCATAAAAACAAAT
66 TATTTTTTTCCGAATTAA-TTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAAT
* * * *
103635 CCTTAAATCCAATGTGCCTTAGATTTAGTTAGATGAATATACATATATATATATATATATATATA
130 CCTTAAATCCAATGTGACTGAGATTTGGTTAGATG-------------------A-ATATAGATA
* * * * * *
103700 TTTCAGTGAATCATGGTGCCAAAAATCATGCAAAA-TATAG-TCGGACCCAGAACGCGTTTTTTA
175 TTTCAGTGAGTCTTGGCGACAAAAATCATGCAAAACT-GAGCTGGGACCCAGAACGCG-TTTTTA
* * * * * **
103763 GCTAAAAAAACTGTGATGCTTAGTACACGATTTCAGCTAAACTTTTGCAAAAAGTAACCTGAAAA
238 GC--CAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAA
* *
103828 ATTTTCCTCAATTTTTGACCACAATAAC-CGT
301 ATTTTCCTCAATTTTTGGCCACAAT-ACTCAT
* * * ** * *
103859 AAAAAAATATATAATTGAATTCCAAAAAGAATGAATGATTTTTCACACTTCTAATATCGTATTTC
1 -AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTG
* * *
103924 CTA-TTTTTTCCGAATTAATTTCTAATTAAATCGAAATATGATTTAGATGCTCGTTAAAAAAAAA
65 CTATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCG-T--AAAAACA
* * *
103988 GAAT-CTCTAAATCCAATGTG-CTGATATTTGGTTAGATGATTATAGATATTT-AGTGAGTCGTG
127 -AATCCT-TAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTTG
* * * * * * *
104050 GTGACAAAATTCATGCAAAACTGAGTTGTGGACAC-GTGACGTCTTTTTTAGTCAAAAACTGTGA
190 GCGACAAAAATCATGCAAAACTGAGCTG-GGACCCAG-AACG-CGTTTTTAGCCAAAAACTGTGA
* * * ** * *
104114 TGATTAGTACACGATTTTAGCTAAAATTTTGCAAAAACTGAACCGAAAATTTTTTTCTTAATTTT
252 TGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAACTG-ACCCAAAAAATTTTCCTCAATTTT
*
104179 TTGCCACAATACTCAT
316 TGGCCACAATACTCAT
* * * * * *
104195 -AAAAATATATAATTTAATGTCAAAAATAATTAAGGGATTTTCACGCTTCTAGTATCGTATTT-C
1 AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTGC
* * * * * * *
104258 ATATTTTTTT--GAATTATTTTCTGATTAAATCAAAACATGATTCAGTTACTTGCAAAAATCAAA
66 -TATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAA-CAAA
* * * * * *
104321 TCCTTAAATCAAATGTGGCTGAGAGTTGGTTAGATGAATATAGGTATTTCAATGAGTCTT-GCCA
129 TCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTTGGCGA
* * * * *
104385 CCAAAAATCATGC--AA--GAGCAGGGGACCCTGGACGCGTTTTTAGCCAAAAATTGAGAT-G-T
194 -CAAAAATCATGCAAAACTGAGC-TGGGACCCAGAACGCGTTTTTAGCCAAAAACTGTGATGGTT
* * * * *
104444 -GTGCACGATTTTAACTAAAATTTTACAAAAACTGACCCGAAAAAATTTTCCCTAAATTTTTGGC
257 AGTACACGATTTCAGCTAAAATTTTGCAAAAACTGACCC-AAAAAATTTT-CCTCAATTTTTGGC
*
104508 CACAATAAT-AGT
320 CACAATACTCA-T
* ** * * * * *
104520 AAAAAGTATATAATTCAATGCCATTAAGAATGATGGGATTTTCATGCTTCTAATACCATATTTGC
1 AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTGC
* * * * * *
104585 TATTTTTTACCGAATTAA-TTCTGATTAAATTGAAATATGATTCAGATGTTCGAAAAAACAAATC
66 TATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATC
* * * * * *
104649 ATTAAATCCAATGTGATTGAGATTTGGTTAGATGAATATAGGTATTTCAGAGAGTCTTGGAGTCA
131 CTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTTGGCGACA
* * * * **
104714 AAAATCATGCAAAATTGAGCCGGGGATCCGGAATACGTTTTTAGCCAAAAACTGTGATGGTTAGT
196 AAAATCATGCAAAACTGAG-CTGGGACCCAGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGT
* *** * ** * *
104779 ACACGATTTCACCTAAAATTTCAAAAAAACTAACCCGAAAATTTTTTTCTTAATTTTTGGCCACA
260 ACACGATTTCAGCTAAAATTTTGCAAAAACTGACCC-AAAAAATTTTCCTCAATTTTTGGCCACA
* *
104844 TTACTCGT
324 ATACTCAT
* * *
104852 AAAAAATATATAATTCAATGCCAGAAAGAATGAAGGGCTTTTCACACTTCTAGTATCGTATTTGC
1 AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTGC
* * * *
104917 TA-TTTTTTCTGAATTAATTTCTGAA-TAAATCGATACATGGTTCAGATGCTCATAAAAGA-AAA
66 TATTTTTTTCCGAATTAATTTCT-AATTAAATCGAAACATGATTCAGATGCTCGTAAAA-ACAAA
* * * * * * * * *
104979 TCCGTAAATCCAATGTGGCTGATATTTGGTAAGAGGATTATGGATATTTTAGTGAGTCTTGGCGC
129 TCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTTGGCGA
* * ** * * *
105044 CAAGAATCATGCAAAACTGAGCCGGGGACCTGGGACGTGTTTTTAGCTAAAAACT
194 CAAAAATCATGCAAAACTGAG-CTGGGACCCAGAACGCGTTTTTAGCCAAAAACT
105099 ATATTTTTAA
Statistics
Matches: 2949, Mismatches: 525, Indels: 297
0.78 0.14 0.08
Matches are distributed among these distances:
323 3 0.00
324 40 0.01
325 21 0.01
326 127 0.04
327 53 0.02
328 96 0.03
329 78 0.03
330 220 0.07
331 175 0.06
332 449 0.15
333 229 0.08
334 341 0.12
335 174 0.06
336 120 0.04
337 196 0.07
338 57 0.02
339 12 0.00
340 2 0.00
341 1 0.00
342 2 0.00
347 1 0.00
350 1 0.00
353 32 0.01
354 44 0.01
355 76 0.03
356 79 0.03
357 51 0.02
359 3 0.00
361 29 0.01
362 109 0.04
363 100 0.03
364 28 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (331 bp):
AAAAAATATATAATTCAATGCCAAAAAGAATGAAGGGCTTTTCACGCTTCTAATATCGTATTTGC
TATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGCTCGTAAAAACAAATC
CTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAGTGAGTCTTGGCGACA
AAAATCATGCAAAACTGAGCTGGGACCCAGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTA
CACGATTTCAGCTAAAATTTTGCAAAAACTGACCCAAAAAATTTTCCTCAATTTTTGGCCACAAT
ACTCAT
Found at i:103684 original size:2 final size:2
Alignment explanation
Indices: 103671--103700 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
103661 AGTTAGATGA
*
103671 AT AT AC 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
103701 TTCAGTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:106227 original size:311 final size:313
Alignment explanation
Indices: 105521--107040 Score: 1277
Period size: 311 Copynumber: 4.8 Consensus size: 313
105511 ACCATCACGG
* * * * * * * *
105521 TTTTTGGATAAAAACGCGTTTTGGAGCCCCTG-CTCAATTTTGCATGATTTTTTGCGC-GAA-GT
1 TTTTTGGCTAAAAACGCGTTTCGGGGCCTC-GACTCAGTTTTGCATG-GTTTTTG-GCATAATGA
* * * * *
105583 CTCATTGAAAATATCTATATTCATC-GAAGCAAATCTCAGCCATATTGGATATAA-GAATT-TTT
63 CTCATTG-AAATATCTATATTCATCTGAACCAAATCTCAGTCACATTGGATTTAACGATTTGTTT
* * * **
105645 TTAGGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATT-TAGAAAAATAAAAAAACGAT
127 TTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAATGGAAAAACGAT
* *** *
105709 ATTAGAAGCGTGAAAAACCATTCAATATTTTTGGCGTTGAATT-T-T-TTTTTTTTAGTTTTGTG
192 ATTAGAAGCGT-AAAAACCCTTCAAT-TTTTTGGCGTTGAATTATATATTTTTAAGAGTGTTGTG
* * **
105771 GC-AAAAATTGAGAAAAAAAAAACACATTT--TTATTTTTTTTAGCCAAAATCGTGTACTAACTA
255 GCAAAAAATTGAG---AAAAAAA-A-ATTTAGGTA-ATTTTTTAGCCAAAATCGTGTAC--ACGG
105833 TCACT
312 T---T
* * ** * *
105838 GTTTTTGGCTAAAAACGCATTTCTGGGTTTCGACTCAGTTTTGTATTGTTTTTGGCATAAAT-AC
1 -TTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGGCAT-AATGAC
* * * * * * *
105902 TCCTTGAAATATCTATATTAATCTG-ATCAAATCTTAGCCACATTAGATTTAAGGATTTGTTTTT
64 TCATTGAAATATCTATATTCATCTGAACCAAATCTCAGTCACATTGGATTTAACGATTTGTTTTT
* * *
105966 ACGAGTATCTGAATCTTGTTTCGATTTGATTAGAAATTAATTCGAAAAAAATGGAAAAACAATAT
129 ACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAATGGAAAAACGATAT
* *
106031 TAGAAGCGTAAAAACCCTTCAATCTTTTTAGCGTTGAATTATATATTTTTAAGAGTGTTGCGG-A
194 TAGAAGCGTAAAAACCCTTCAAT-TTTTTGGCGTTGAATTATATATTTTTAAGAGTGTTGTGGCA
106095 AAAAATTGAGAAAAAAAAATTTAGGTAATTTTTTAGCCAAAATCGTGTACAC-GTT
258 AAAAATTGAGAAAAAAAAATTTAGGTAATTTTTTAGCCAAAATCGTGTACACGGTT
* *
106150 TTTTTAGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGTATGGTTTTTGGCATAATGACTC
1 TTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGGCATAATGACTC
* * * * **
106215 CTTGAGATATCTATATTGATCT-AACCAAATCTCAGTCACATTGGATTTAAGGATTTGGCTTTAC
66 ATTGAAATATCTATATTCATCTGAACCAAATCTCAGTCACATTGGATTTAACGATTTGTTTTTAC
* * * * * * *
106279 GAGCATTTGAATCTTGTTTCGATTTGATAAAAAATAAATTTAGAAAAAAAAAGGAAAAACGATAT
131 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA-TTCG-AAAAAAATGGAAAAACGATAT
** * * ** * *
106344 TAGAAGTTTTAAAACTCCTTAAATTTTTTAACGGTT-AATTATATATTTTTATGAGTATTGTGGC
194 TAGAAGCGTAAAAAC-CCTTCAATTTTTTGGC-GTTGAATTATATATTTTTAAGAGTGTTGTGGC
** ** * * * *
106408 AAAAAA-TGAAGGAATTAAAAACTTTTAAATAAGTTTTTGCAAAATTTTTGCCGAAATTGTTTTT
257 AAAAAATTG-A-GAA--AAAAAAATTTAGGTAA----TT------TTTTAGCCAAAATCG---TG
106472 TAAACCATCACGG--
305 T-----A-CACGGTT
* * * * * * * * *
106485 TTTTTGGTTAAAAACGCGTTCCGGAGCCCCTG-CTCAATTTTGCATGATTTTTTACGC-GAA-GT
1 TTTTTGGCTAAAAACGCGTTTCGGGGCCTC-GACTCAGTTTTGCATG-GTTTTT-GGCATAATGA
* * * *
106547 CTCATTGGAATATCTATATTTAT-TGAACCAAATCTCAGTCACATTGGATTTCACAATTTGTTTT
63 CTCATTGAAATATCTATATTCATCTGAACCAAATCTCAGTCACATTGGATTTAACGATTTGTTTT
* * *
106611 TAGGAGCATCTGAATCCTGTTTCGATTTAATTAAAAATTAATTC-AGAAAAAATGGAAAAACGAT
128 TACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGA-AAAAAATGGAAAAACGAT
* * *
106675 ATTAGAAACGTAAAACCCCTTCAATTTTTTGGCGTTGAATTATACATTTTTAAGAGTGTTGTGGC
192 ATTAGAAGCGTAAAAACCCTTCAATTTTTTGGCGTTGAATTATATATTTTTAAGAGTGTTGTGGC
* * *
106740 AAAAAATTGAG--AAAAAAATTTCAGGTAAGTTTTTAGCCGAAATCATGTACACGGTTTTTT
257 AAAAAATTGAGAAAAAAAAATTT-AGGTAATTTTTTAGCCAAAATCGTGTACACGG----TT
* ** * *
106800 TTTTTTGCTAAAAACGCGTTTCGGGATCTCGACTCAGTTTTACATGGTTTTT-GCATAAAGACTC
1 TTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGGCATAATGACTC
* *
106864 ATTGAAATATCTATATTCATC-GAACCAAATCCCAGTAACATTGGATTTAACGATTTGTTTTTAC
66 ATTGAAATATCTATATTCATCTGAACCAAATCTCAGTCACATTGGATTTAACGATTTGTTTTTAC
* *
106928 GAACATCTGAATCTTGTTT-GATTTAATTAGAAATTAATTCGAAAAAAATGGGAAAACGATATTA
131 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTA
* * * * * *
106992 AAAACATGAAAACCCCTTCAATCTTTTTGGAGTTGAATTGTATATTTTT
196 GAAGCGT-AAAAACCCTTCAAT-TTTTTGGCGTTGAATTATATATTTTT
107041 TATGAGTATT
Statistics
Matches: 981, Mismatches: 155, Indels: 135
0.77 0.12 0.11
Matches are distributed among these distances:
309 5 0.01
310 4 0.00
311 143 0.15
312 6 0.01
313 112 0.11
314 115 0.12
315 64 0.07
316 4 0.00
317 61 0.06
318 81 0.08
319 81 0.08
320 27 0.03
321 3 0.00
322 23 0.02
324 1 0.00
327 20 0.02
328 4 0.00
330 2 0.00
331 4 0.00
332 46 0.05
333 31 0.03
334 3 0.00
335 127 0.13
336 11 0.01
337 3 0.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (313 bp):
TTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGGTTTTTGGCATAATGACTC
ATTGAAATATCTATATTCATCTGAACCAAATCTCAGTCACATTGGATTTAACGATTTGTTTTTAC
GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTA
GAAGCGTAAAAACCCTTCAATTTTTTGGCGTTGAATTATATATTTTTAAGAGTGTTGTGGCAAAA
AATTGAGAAAAAAAAATTTAGGTAATTTTTTAGCCAAAATCGTGTACACGGTT
Found at i:109404 original size:331 final size:326
Alignment explanation
Indices: 108782--113709 Score: 4723
Period size: 331 Copynumber: 15.0 Consensus size: 326
108772 TCTGTAAACA
* * * * * * * *
108782 TTTTCCCTCATTTTCGGCCACAATACTGGTAAAAAATATATAATTCAATGGCAATAAGAATGGAG
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAAG
* * * *
108847 GAATTTTCACGCTTCTAATAAT-ATATTTGCTATTTTTTACTGAATTAAATTCTGATTAAATTGA
66 G-GTTTTCACGCTTCTAAT-ATCATATTTGCTATTTTTT-CCGAATTAATTTCTGATTAAATCGA
* * * *
108911 AACATGATTTAGTTG-TACGTAAAAAAAGAAAATCCTTAAATCCAATGTGGCTAAGATTTGATTA
128 AACATGATTCAGATGCT-CGT---AAAA-AAAAT-CTTAAAT-CAATGTGGCTGAGATTTGGTTA
* * * *
108975 GATGAATATTGTTATTTCAGTGAGTCTTGGCACCAAAAATCATGCAAAATTGAGTCGGGGATCCA
186 GATGAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAG-CGGGGATCCG
** * * * *
109040 AAACACGTTTTTAGTCAAAAACTGTGATGGTTAGTACATGATTT-GGCCTAAAATTTCTAAAAAA
250 GGACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAG-CTAAAATTT-TCAAAAA
109104 CTGACCCG-AAAAT
313 CTGACCCGAAAAAT
* *
109117 TTATTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCATTGCTAAAAAGAATGAA
1 TT-TTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAA
* * * * * * *
109182 GGGTTTTCACACTTCTAATATCGTATTTGCTATTTTTTCCTAATTAATTTATTAATAAATCGATA
65 GGGTTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATTAATTTCTGATTAAATCGAAA
* * * * *
109247 CATGATTCAGATGCTCGTAAAAGAAAATTTGTAAATACGATGTGGCTTATATTTGTTTAGA-GTA
130 CATGATTCAGATGCTCGTAAAA-AAAATCT-TAAAT-CAATGTGGCTGAGATTTGGTTAGATG-A
* * * * * *
109311 TTATAGATATTTCAGTGAGTCTTGACGCCAAAAATTATGCAAAATTGAGCGGGGGAGCCGAGACG
191 ATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAGC-GGGGATCCGGGACA
* * * * *
109376 TGTTTTTAGCCAAAAACTGTTATGGTTAGTAGACGATTTCAAG-TAAAATTTTGCCAAAACTAAC
255 CGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC-AGCTAAAATTTT-CAAAAACTGAC
*
109440 CTGAAAAAT
318 CCGAAAAAT
* *
109449 TTTTCCTTAATTTTTGGCCACATTACTCATAAAAAATATATAATTCAATGCAAAAAAGAATGAAG
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAAG
** * * *
109514 GGATTTTCACGCTTCTAATATTGTATTTCCTA-TTTTCCCGAATTAATTTCGGATTAAATCGAAA
66 GG-TTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATTAATTTCTGATTAAATCGAAA
* * **
109578 CATGATTCAGATACTCGTAAAAACAAATCTT---TCAA--T--C--A-A-AT-G-T-GGCGAATA
130 CATGATTCAGATGCTCGTAAAAA-AAATCTTAAATCAATGTGGCTGAGATTTGGTTAGATGAATA
* * * ** * *
109629 TAGCTATTTCAGTAAGTCTTTGTACCAAAAATAATGCAAAACTATG-TCGGGGA-CCTGGGACAC
194 TAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAA-T-TGAGCGGGGATCC-GGGACAC
* * * * *
109692 GTTTTTAGCCTAAAACTGTGATTGTTAGTACATGATTTCAGTTAAAATTTTGCAAAAATTGACCC
256 GTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTT-CAAAAACTGACCC
*
109757 AAAAAAT
320 GAAAAAT
* * * * *
109764 TTTTCCTGAATTTTTGGACGCATTACTCGTAAAAAA-ATATGCATATCAATGCCAACAAGAATGA
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATAT-AAT-TCAATGCCAAAAAGAATGA
* * * * * *
109828 AGGAATTTTCATGCTTCTAATACCATATTTGCTATTTTTTACCGAATTAATTTCTTATTATATGG
64 AGG-GTTTTCACGCTTCTAATATCATATTTGCTATTTTTT-CCGAATTAATTTCTGATTAAATCG
* * * *
109893 AAACATGATTCATATGCTCGTAAAAACAATTTCATAAATCCAATATGGCTGAGATTTGGTTAGAT
127 AAACATGATTCAGATGCTCGTAAAAA-AA-ATCTTAAAT-CAATGTGGCTGAGATTTGGTTAGAT
* * * * *
109958 GAATATAGTTATTTTAGTGAGTCTTGGCGCCAAAAATCAGGCAAAACTAAGTCGGGGATCCGGGA
189 GAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAG-CGGGGATCCGGGA
* * ** ** *
110023 CACGTTTTTAGCTAAAAACTGTTATTTTTAGTACACGA-TT-AAATAAAAGTTTGCAAAAACTGA
253 CACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAA-TTTTCAAAAACTGA
110086 CCCGAAAAAT
317 CCCGAAAAAT
* * ** *
110096 TTTTCCTTAATTTTTGGCAACATTACTCATAAAATGTATATAATTCAATGCCAAAAGGAATGAAG
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAAG
* * *
110161 GGCTTTTCACGCTTCTAATATCGTATTTCCTATTTTTT--TAATTAATTTCTGATTAAATCGAAA
66 GG-TTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATTAATTTCTGATTAAATCGAAA
* * * * * * *
110224 CATTATTTAGATACTCGGAAAAACAAATTCTTAAATCAAATATGACTGAGATTTGGTTTGATGAA
130 CATGATTCAGATGCTCGTAAAAA-AAA-TCTTAAATC-AATGTGGCTGAGATTTGGTTAGATGAA
* * *
110289 TATAGATATTTCAATGAGTCTTGGCGCCAAAAATCAT-CAAAGACTGAGTCGGGGATCCGAGACA
192 TATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAA-ATTGAG-CGGGGATCCGGGACA
* * *
110353 CGTTTTTAGCC-AAAACTGTGATGGTTAGTACAAGATTTCAGCTAAAATTTACAAAAACTGATCC
255 CGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTCAAAAACTGACCC
*
110417 GAAAAAA
320 GAAAAAT
* * * * * *
110424 TTTTCCCTAATTTTCT-GTCACAATACTCGTAAAAAATATATAATTCAATGGCAATAAGAATGGA
1 TTTTCCTTAATTTT-TGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAA
* * * *
110488 GGGATTTTCACGCTTCTAATATTATATTTGCTATTTTTTACTGAATTAAATTCTGATTAAATTGA
65 GGG-TTTTCACGCTTCTAATATCATATTTGCTATTTTTT-CCGAATTAATTTCTGATTAAATCGA
* *
110553 AACATGATTCAGTTGCTCGTAAAAAAAAATCCTTAAATCTAACGTGGCTGAGATTTGGTTAGATG
128 AACATGATTCAGATGCTCGT-AAAAAAAAT-CTTAAATC-AATGTGGCTGAGATTTGGTTAGATG
* * * * * *
110618 AATATAGATATTTCAGTGAGTTTTGGCACCAAAAATCATGTAAAATTGAGCCGGGTATCCAGAAC
190 AATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAG-CGGGGATCCGGGAC
* * * * * * *
110683 ACGTTTTTAGCCAAAAACTGTGATGTTTAGTACATGATTTGACCTAAAATTTTTTAAAAATTGAT
254 ACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAA-TTTTCAAAAACTGAC
110748 CCG-AAAAT
318 CCGAAAAAT
*
110756 TTATTCCTTAATTTTT-GCCACATTACTCGTAAAAAATATATAATTCATTGCCAAAAAGAATGAA
1 TT-TTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAA
* * *
110820 GGGTTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATTAAATTCTGAGTAAATCGATA
65 GGGTTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATTAATTTCTGATTAAATCGAAA
* *
110885 CATGATTCAGATGCTCGTAAAAGAAAATCTGTAAATACAATGTGGTTGATATTT-GTTCAGA-GT
130 CATGATTCAGATGCTCGTAAAA-AAAATCT-TAAAT-CAATGTGGCTGAGATTTGGTT-AGATG-
* * * * * * *
110948 ATTATAGATATTTTTAGTGAGTCTTGGCG-CAAAAACTTATGCAATACTGAACGGGGGAGCCGGG
190 AATATAGATA-TTTCAGTGAGTCTTGGCGCCAAAAA-TCATGCAAAATTGAGC-GGGGATCCGGG
** * * * *
111012 ACGTGTTTTTAGCCAGAAACTGTTATGATTAGTACACGATTTCAAG-TAAAATTTTGCCAAAACT
252 ACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC-AGCTAAAATTTT-CAAAAACT
**
111076 GACTTG-AAAAT
315 GACCCGAAAAAT
* *
111087 TTTTACTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCAAAAAAAGAATGAA
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGC-CAAAAAGAATGAA
* * * *
111152 GTGATTTTCACGCTTCTAATATCGTATTTCCTA--TTTCCCGAATTAATTT-TGGATTAAATCGA
65 G-GGTTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATTAATTTCT-GATTAAATCGA
* * * * **
111214 AACATGATTCAGATACTCCTAAAAACAAATCCT---TCAA--T--C--A-A-AT-G-T-GGCGAA
128 AACATGATTCAGATGCTCGTAAAAA-AAATCTTAAATCAATGTGGCTGAGATTTGGTTAGATGAA
* * * * * * *
111265 TATAGCTATTTCAGTGAGTTTTTGTC-CCAAAAATAATGCAAAACTATGA-TGTGGA-CCTGAGA
192 TATAGATATTTCAGTGAG-TCTTGGCGCCAAAAATCATGCAAAA-T-TGAGCGGGGATCC-GGGA
* *
111327 CACGTTTTTAGCCAAAAACTGTTATTGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGA
253 CACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTT-CAAAAACTGA
111392 CCC-AAAAAGT
317 CCCGAAAAA-T
* * *
111402 TTTTCCTTAATTTTTGGACGCATTACTCGTAAAAAATATAT-ATATCAATGCCAACAAGAATGAA
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAAT-TCAATGCCAAAAAGAATGAA
* * * * * *
111466 GGAATTTTCATGCTTCTAATACCATATTTGCTATTTTTTACCAAATTAATTTCTGATTATATGGA
65 GG-GTTTTCACGCTTCTAATATCATATTTGCTATTTTTT-CCGAATTAATTTCTGATTAAATCGA
* * * * *
111531 AACATGATTCATATGCTCGTAAAAACAATTCCATAAATCCAATGTGACTGAGATTTGGTTAGTTG
128 AACATGATTCAGATGCTCGTAAAAA-AAAT-CTTAAAT-CAATGTGGCTGAGATTTGGTTAGATG
* * * * * * * *
111596 AATATAGTTATTTTAGTGAGTCTTGACGGCAAAAATCATGCAAAACTAAGTCGAGTATCCGGGAC
190 AATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAG-CGGGGATCCGGGAC
* ** *
111661 ACGTTTTTAG-CTAAAACTGTGATTATTAGTACACGATTTCAGCTAAAATTTTACAAAAACTAAC
254 ACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTT-CAAAAACTGAC
111725 CCGAAAAAT
318 CCGAAAAAT
* * * **
111734 TTTTCCTTAATTTTTGGCAACATTACTCATAAAAAGTATATAATTCAATGCCAAATGGAATGAAG
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAAG
* * *
111799 GGCTTTTCACACTTCTAATATCGTATTTCCTATTTTTT-CGAATTAATTTCTGATTAAATCGAAA
66 GG-TTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATTAATTTCTGATTAAATCGAAA
* * * * **
111863 CATGATTTAGATACTCGTGAAAACAAATTCTTAAATCAAATGTGACTGAGATTTGGTCGGATGAA
130 CATGATTCAGATGCTCGT-AAAA-AAAATCTTAAATC-AATGTGGCTGAGATTTGGTTAGATGAA
* * * * * *
111928 TATAGATATTTCAGCGAGTCTTGGCGCCAAAAATCATCCAAGACTGAGTCGGGGATCTGGGACAT
192 TATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAG-CGGGGATCCGGGACAC
* *
111993 GTTTTTAGCCAAAAACTGTGATGGTTAATACACGATTTCAGCTAAAATTTGCAAAAACTGACCCG
256 GTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTCAAAAACTGACCCG
*
112058 AAAAAA
321 AAAAAT
** * * * * *
112064 TTTTCCCCAATTTTCGGCCACAATACTCGTAAAAAATATATAATTCAATAG-CGATAAGAATGGA
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAAT-GCCAAAAAGAATGAA
* * * * * *
112128 GGGATTTTCATGCTTCTAATATTATATTTGCTATTTTTTACTGAATTAAATTCTGATTAACTTGA
65 GGG-TTTTCACGCTTCTAATATCATATTTGCTATTTTTT-CCGAATTAATTTCTGATTAAATCGA
* * * *
112193 AACATAATTCGGTTGCTCGTAAAAAAATAATCCTTAAATCCAATATGGCTGAGATTTGGATT-GA
128 AACATGATTCAGATGCTCGT-AAAAAA-AAT-CTTAAAT-CAATGTGGCTGAGATTTGG-TTAGA
* * *
112257 TGAATATAGGTATTTCAGTGAGTCTTGACACCAAAAATCATGCAAAATTGAGTCGGGGATCCGGG
188 TGAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAG-CGGGGATCCGGG
* ** * *
112322 ACAGGTTTTTAGCCAAAAACTGCAATGGTTAGTACACAATTTCAGTTGAAAATTTTCAAAAACTG
252 ACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCT-AAAATTTTCAAAAACTG
*
112387 ACCCGAAAAAA
316 ACCCGAAAAAT
** * * * * * * *
112398 TTTTCCCCAATTTTCGGCCACAATACTCGTAAATAATATATAATTCAATGGCAATAAGAACGGAG
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAAG
* * * * * *
112463 GAATTTTCACACTTCTAATATTATATTTGCTATTTTTACTGAATTAAATTT-TGATTAAATTGAA
66 G-GTTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATT-AATTTCTGATTAAATCGAA
* * * *
112527 ACATGATTCAGTTG-TACGTAAAAAAAAAATCCTTAAATCCAATGTGGTTAAGATTTGGATAGAT
129 ACATGATTCAGATGCT-CGT--AAAAAAAAT-CTTAAAT-CAATGTGGCTGAGATTTGGTTAGAT
* * * * * ***
112591 GAATATTGGTATTTCAGTGAGTCTTGGCACCAAAAATCATGCAAAATTTAGTTGGGGATCCAAAA
189 GAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAG-CGGGGATCCGGGA
* * * * * *
112656 CACGTTTTTAACTAAAAACTGTGATGGTTAGTACATGATTT-GGCCTAAAATTTCTAAAAAATTG
253 CACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAG-CTAAAATTT-TCAAAAACTG
112720 ACCCG-AAAAT
316 ACCCGAAAAAT
* * * *
112730 TTATTCCTTTATTTTTGGCCACATTACTCGTAAAAAATATATGATTCATTGCCAAAAGGAATGAA
1 TT-TTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAA
* * *
112795 GGGTTTTCACGCTTCTAATATCGTATTTGCTATTTTTTCCGAATTAATTTCTGAATAAATCGATA
65 GGGTTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATTAATTTCTGATTAAATCGAAA
* * *
112860 CATGGTTCAGATGCTCGTAAAAGAAAATCTGTAAATACAATGTGGCTGATATTTGTTTAGA-GTA
130 CATGATTCAGATGCTCGTAAAA-AAAATCT-TAAAT-CAATGTGGCTGAGATTTGGTTAGATG-A
* * * * * *
112924 TTATAGATATTTCAGTGAGTCTTGGTGCCAAAAATTATGCAAAACTGAGCGGGGGAGCCGGGACG
191 ATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAGC-GGGGATCCGGGACA
* * ** *
112989 TGTTTTTAGCCAAAAACTGTTATGGTTAGTACACGATTTCAGGGAAAATTTTGCCAAAACTGACC
255 CGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTT-CAAAAACTGACC
*
113054 TGAAAAAT
319 CGAAAAAT
* * *
113062 TTTTCCTTAATTTTTGGCCACATTACTTGTAAAAAATATATAATTCAATGCAAAAAAGCATGAAG
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAAG
* * * *
113127 GGATTTTCACGCTTCTAATATCGTATTTCCTATTTTCT-CGAATTAATTTCGGATTAAATCGAAA
66 GG-TTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATTAATTTCTGATTAAATCGAAA
* * * * **
113191 CATGATTCAGATACTCGTAAAAACAACTCCT---TCAA--T--C--A-A-AT-G-T-GGCGAATA
130 CATGATTCAGATGCTCGTAAAAA-AAATCTTAAATCAATGTGGCTGAGATTTGGTTAGATGAATA
* * * * * *
113242 TAGCTATTTCAGTGAGTCTTTGTGTCAAAAATAATGCAAAACTATG-CCGGGGA--CGTGTGACG
194 TAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAA-T-TGAGCGGGGATCCG-G-GAC-
* * * *
113304 A-ATTTTTAGCCAAAAAACTGTGATTGTTAGTAAAAGATTTCAGCTAAAATTTTGCAAAAACTGA
254 ACGTTTTTAGCC-AAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTT-CAAAAACTGA
113368 -CC-AAAAATTT
317 CCCGAAAAA--T
* * * * * *
113378 TTTTTCTTAATTTTTGGACGCGTTACTCGTAAAAAATATGTAATTCAATGCCAATAAGAATGAAG
1 TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAAG
* * * * *
113443 GAATTTTCATGCTTCTAATACCATATTTGCTATTTTTTATCGAATTAATTTCTGATTATAT-GAA
66 G-GTTTTCACGCTTCTAATATCATATTTGCTATTTTTT-CCGAATTAATTTCTGATTAAATCG-A
* * *
113507 AACATGATTCAGATGCTAGTAAAAACAATTCCATAAATCCAATGTGGCTGAGATTTGGTTAGATG
128 AACATGATTCAGATGCTCGTAAAAA-AAAT-CTTAAAT-CAATGTGGCTGAGATTTGGTTAGATG
* * * * *
113572 AATATAGTTATTTTAGTGAGTCTTGGCGCCAAAAATCATG-AAAACTGAGTCGAGGATCAGGGAC
190 AATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAG-CGGGGATCCGGGAC
* ** *
113636 ACGTTTTTAG-CTAAAACTGTGATTATTAGTACACGATTTCAGCTAAAATTTTACAAAAACTAAC
254 ACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTT-CAAAAACTGAC
113700 CCGAAAAAT
318 CCGAAAAAT
113709 T
1 T
113710 AGGTTTCTTA
Statistics
Matches: 3814, Mismatches: 599, Indels: 364
0.80 0.13 0.08
Matches are distributed among these distances:
313 7 0.00
314 139 0.04
315 265 0.07
316 191 0.05
317 56 0.01
318 101 0.03
319 8 0.00
320 3 0.00
321 1 0.00
322 7 0.00
323 6 0.00
324 4 0.00
325 2 0.00
326 9 0.00
327 30 0.01
328 247 0.06
329 21 0.01
330 351 0.09
331 986 0.26
332 505 0.13
333 496 0.13
334 289 0.08
335 36 0.01
336 54 0.01
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.34
Consensus pattern (326 bp):
TTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCCAAAAAGAATGAAG
GGTTTTCACGCTTCTAATATCATATTTGCTATTTTTTCCGAATTAATTTCTGATTAAATCGAAAC
ATGATTCAGATGCTCGTAAAAAAAATCTTAAATCAATGTGGCTGAGATTTGGTTAGATGAATATA
GATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAATTGAGCGGGGATCCGGGACACGTTTT
TAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTCAAAAACTGACCCGAAAAA
T
Found at i:112311 original size:333 final size:331
Alignment explanation
Indices: 111262--113709 Score: 2541
Period size: 333 Copynumber: 7.4 Consensus size: 331
111252 CAAATGTGGC
* * * * *
111262 GAATATAGCTATTTCAGTGAGTTTTTGTC-CCAAAAATAATGCAAAACT-ATGAT-GTGGA-CCT
1 GAATATAGATATTTCAGTGAG-TCTTGGCGCCAAAAATCATGCAAAACTGA-G-TCGGGGATCC-
* * *
111323 GAGACACGTTTTTAGCCAAAAACTGTTATTGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAA
62 GGGACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAA
* *
111388 CTGACCC-AAAAAGTTTTTCCTTAATTTTTGGACGCATTACTCGTAAAAAATATAT-ATATCAAT
127 CTGACCCGAAAAA-TTTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAAT-TCAAT
* * * * **
111451 GCCAACAAGAATGAAGGAATTTTCATGCTTCTAATACCATATTTGCTATTTTTTACCAAATTAAT
190 G-CAATAAGAATGAAGGGATTTTCACGCTTCTAATATCATATTTGCTATTTTTTACTGAATTAAT
* * * * * * *
111516 TTCTGATTATATGGAAACATGATTCATATGCTCGTAAAAACAATTCCATAAATCCAATGTGACTG
254 TTCTGATTAAATCGAAACATGATTCAGATGCTCGTAAAAAAAAATCCTTAAATCCAATGTGGCTG
*
111581 AGATTTGGTTAGTT
319 AGATTTGGTT-GAT
* * * * * * *
111595 GAATATAGTTATTTTAGTGAGTCTTGACGGCAAAAATCATGCAAAACTAAGTCGAGTATCCGGGA
1 GAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGATCCGGGA
* ** * *
111660 CACGTTTTTAG-CTAAAACTGTGATTATTAGTACACGATTTCAGCTAAAATTTTACAAAAACTAA
66 CACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGA
* * *
111724 CCCGAAAAATTTTTCCTTAATTTTTGGCAACATTACTCATAAAAAGTATATAATTCAATGCCAA-
131 CCCGAAAAATTTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATG-CAAT
* * * * *
111788 ATGGAATGAAGGGCTTTTCACACTTCTAATATCGTATTTCCTATTTTTT-C-GAATTAATTTCTG
195 A-AGAATGAAGGGATTTTCACGCTTCTAATATCATATTTGCTATTTTTTACTGAATTAATTTCTG
* * * * * * *
111851 ATTAAATCGAAACATGATTTAGATACTCGTGAAAACAAATTCTTAAATCAAATGTGACTGAGATT
259 ATTAAATCGAAACATGATTCAGATGCTCGTAAAAAAAAATCCTTAAATCCAATGTGGCTGAGATT
*
111916 TGGTCGGAT
324 TGGT-TGAT
* * * *
111925 GAATATAGATATTTCAGCGAGTCTTGGCGCCAAAAATCATCCAAGACTGAGTCGGGGATCTGGGA
1 GAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGATCCGGGA
* *
111990 CATGTTTTTAGCCAAAAACTGTGATGGTTAATACACGATTTCAGCTAAAA-TTTGCAAAAACTGA
66 CACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGA
* ** * * *
112054 CCCGAAAAAATTTTCCCCAATTTTCGGCCACAATACTCGTAAAAAATATATAATTCAATAGCGAT
131 CCCGAAAAATTTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAAT-GCAAT
* * * *
112119 AAGAATGGAGGGATTTTCATGCTTCTAATATTATATTTGCTATTTTTTACTGAATTAAATTCTGA
195 AAGAATGAAGGGATTTTCACGCTTCTAATATCATATTTGCTATTTTTTACTGAATTAATTTCTGA
* * * * * *
112184 TTAACTTGAAACATAATTCGGTTGCTCGTAAAAAAATAATCCTTAAATCCAATATGGCTGAGATT
260 TTAAATCGAAACATGATTCAGATGCTCGTAAAAAAA-AATCCTTAAATCCAATGTGGCTGAGATT
112249 TGGATTGAT
324 TGG-TTGAT
* * * *
112258 GAATATAGGTATTTCAGTGAGTCTTGACACCAAAAATCATGCAAAATTGAGTCGGGGATCCGGGA
1 GAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGATCCGGGA
* ** * *
112323 CAGGTTTTTAGCCAAAAACTGCAATGGTTAGTACACAATTTCAGTTGAAAATTTT-CAAAAACTG
66 CACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCT-AAAATTTTGCAAAAACTG
* ** * * *
112387 ACCCGAAAAAATTTTCCCCAATTTTCGGCCACAATACTCGTAAATAATATATAATTCAATGGCAA
130 ACCCGAAAAATTTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAAT-GCAA
* * * * *
112452 TAAGAACGGAGGAATTTTCACACTTCTAATATTATATTTGCTA-TTTTTACTGAATTAAATTT-T
194 TAAGAATGAAGGGATTTTCACGCTTCTAATATCATATTTGCTATTTTTTACTGAATT-AATTTCT
* * * *
112515 GATTAAATTGAAACATGATTCAGTTG-TACGTAAAAAAAAAATCCTTAAATCCAATGTGGTTAAG
258 GATTAAATCGAAACATGATTCAGATGCT-CGT-AAAAAAAAATCCTTAAATCCAATGTGGCTGAG
*
112579 ATTTGGATAGAT
321 ATTTGG-TTGAT
* * * * * * ***
112591 GAATATTGGTATTTCAGTGAGTCTTGGCACCAAAAATCATGCAAAATTTAGTTGGGGATCCAAAA
1 GAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGATCCGGGA
* * * * * *
112656 CACGTTTTTAACTAAAAACTGTGATGGTTAGTACATGATTT-GGCCTAAAATTTCT-AAAAAATT
66 CACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAG-CTAAAATTT-TGCAAAAACT
* * *
112719 GACCCG-AAAATTTATTCCTTTATTTTTGGCCACATTACTCGTAAAAAATATATGATTCATTGCC
129 GACCCGAAAAATTT-TTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATG-C
* *
112783 AA-AAGGAATGAAGGG-TTTTCACGCTTCTAATATCGTATTTGCTATTTTTT-CCGAATTAATTT
192 AATAA-GAATGAAGGGATTTTCACGCTTCTAATATCATATTTGCTATTTTTTACTGAATTAATTT
* * * * *
112845 CTGAATAAATCGATACATGGTTCAGATGCTCGTAAAAGAAAAT-CTGTAAATACAATGTGGCTGA
256 CTGATTAAATCGAAACATGATTCAGATGCTCGTAAAAAAAAATCCT-TAAATCCAATGTGGCTGA
* *
112909 TATTTGTTTAGA-
320 GATTTGGTT-GAT
* * * *
112921 GTATTATAGATATTTCAGTGAGTCTTGGTGCCAAAAATTATGCAAAACTGAG-CGGGGGAGCCGG
1 G-AATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTC-GGGGATCCGG
** * ** *
112985 GACGTGTTTTTAGCCAAAAACTGTTATGGTTAGTACACGATTTCAGGGAAAATTTTGCCAAAACT
64 GACACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAACT
* *
113050 GACCTGAAAAATTTTTCCTTAATTTTTGGCCACATTACTTGTAAAAAATATATAATTCAATGCAA
129 GACCCGAAAAATTTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGC-A
* * * * * *
113115 AAAAGCATGAAGGGATTTTCACGCTTCTAATATCGTATTTCCTATTTTCT-C-GAATTAATTTCG
193 ATAAGAATGAAGGGATTTTCACGCTTCTAATATCATATTTGCTATTTTTTACTGAATTAATTTCT
* * * * *
113178 GATTAAATCGAAACATGATTCAGATACTCGTAAAAACAACTCCTTCAATCAAATGTGGC------
258 GATTAAATCGAAACATGATTCAGATGCTCGTAAAAAAAAATCCTTAAATCCAATGTGGCTGAGAT
113237 ---------
323 TTGGTTGAT
* * * * * *
113237 GAATATAGCTATTTCAGTGAGTCTTTGTGTCAAAAATAATGCAAAACT-ATGCCGGGGA--CGTG
1 GAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAACTGA-GTCGGGGATCCG-G
* * * *
113299 TGACGA-ATTTTTAGCCAAAAAACTGTGATTGTTAGTAAAAGATTTCAGCTAAAATTTTGCAAAA
64 -GAC-ACGTTTTTAGCC-AAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAA
* * * * *
113363 ACTGA-CC-AAAAATTTTTTTTCTTAATTTTTGGACGCGTTACTCGTAAAAAATATGTAATTCAA
126 ACTGACCCGAAAAA--TTTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAA
* * *
113426 TGCCAATAAGAATGAAGGAATTTTCATGCTTCTAATACCATATTTGCTATTTTTTA-TCGAATTA
189 TG-CAATAAGAATGAAGGGATTTTCACGCTTCTAATATCATATTTGCTATTTTTTACT-GAATTA
* * * * *
113490 ATTTCTGATTATAT-GAAAACATGATTCAGATGCTAGTAAAAACAATTCCATAAATCCAATGTGG
252 ATTTCTGATTAAATCG-AAACATGATTCAGATGCTCGTAAAAAAAAATCCTTAAATCCAATGTGG
113554 CTGAGATTTGGTTAGAT
316 CTGAGATTTGGTT-GAT
* * * *
113571 GAATATAGTTATTTTAGTGAGTCTTGGCGCCAAAAATCATG-AAAACTGAGTCGAGGATCAGGGA
1 GAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGATCCGGGA
* ** * *
113635 CACGTTTTTAG-CTAAAACTGTGATTATTAGTACACGATTTCAGCTAAAATTTTACAAAAACTAA
66 CACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGA
113699 CCCGAAAAATT
131 CCCGAAAAATT
113710 AGGTTTCTTA
Statistics
Matches: 1779, Mismatches: 262, Indels: 150
0.81 0.12 0.07
Matches are distributed among these distances:
313 2 0.00
314 7 0.00
315 61 0.03
316 135 0.08
317 2 0.00
318 61 0.03
330 247 0.14
331 337 0.19
332 308 0.17
333 449 0.25
334 166 0.09
335 4 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (331 bp):
GAATATAGATATTTCAGTGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGATCCGGGA
CACGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCAGCTAAAATTTTGCAAAAACTGA
CCCGAAAAATTTTTCCTTAATTTTTGGCCACATTACTCGTAAAAAATATATAATTCAATGCAATA
AGAATGAAGGGATTTTCACGCTTCTAATATCATATTTGCTATTTTTTACTGAATTAATTTCTGAT
TAAATCGAAACATGATTCAGATGCTCGTAAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTG
GTTGAT
Done.