Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 152 of 221
Found at i:46107802 original size:31 final size:31
Alignment explanation
Indices: 46107767--46107830 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
46107757 CTTCAAGCTC
46107767 ACGAGAGCTTAGTAAGCGTATCAAAAATCAT
1 ACGAGAGCTTAGTAAGCGTATCAAAAATCAT
46107798 ACGAGAGCTTAGTAAGCGTATCAAAAATCAT
1 ACGAGAGCTTAGTAAGCGTATCAAAAATCAT
46107829 AC
1 AC
46107831 CATGCAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (31 bp):
ACGAGAGCTTAGTAAGCGTATCAAAAATCAT
Found at i:46110307 original size:14 final size:14
Alignment explanation
Indices: 46110288--46110499 Score: 93
Period size: 14 Copynumber: 14.6 Consensus size: 14
46110278 ATTTTCACCT
*
46110288 TCTCTCTCTTTTTC
1 TCTCTCTCTTTCTC
46110302 TCTCTCTCTTTCTC
1 TCTCTCTCTTTCTC
* **
46110316 CCTCTCTCCCTCTCC
1 TCTCTCTCTTTCT-C
* *
46110331 TCCTCTCCCCTTCCCTC
1 T-CTCT-CTCTT-TCTC
46110348 TCTCTCTCTTTCTC
1 TCTCTCTCTTTCTC
* *
46110362 CCTTTCTCTTTCTCCC
1 TCTCTCTCTTTCT--C
* *
46110378 TCTCCCTCTCTCTC
1 TCTCTCTCTTTCTC
* * * *
46110392 TCCCTCCCTCTCGC
1 TCTCTCTCTTTCTC
* * *
46110406 TCGCTCTCTCTCCC
1 TCTCTCTCTTTCTC
*
46110420 TCCCTCTCTTTCTC
1 TCTCTCTCTTTCTC
* * *
46110434 TCCCTCTCTCTCCC
1 TCTCTCTCTTTCTC
* * *
46110448 TC-CTTCCCTCTCCC
1 TCTC-TCTCTTTCTC
* *
46110462 TCTCTCCCTCTCTC
1 TCTCTCTCTTTCTC
* *
46110476 TCCCTCTCTCCTCTC
1 TCTCTCTCT-TTCTC
46110491 TCTCTCTCT
1 TCTCTCTCT
46110500 AGTTTCATCT
Statistics
Matches: 155, Mismatches: 34, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
13 1 0.01
14 111 0.72
15 19 0.12
16 18 0.12
17 4 0.03
18 2 0.01
ACGTcount: A:0.00, C:0.55, G:0.01, T:0.44
Consensus pattern (14 bp):
TCTCTCTCTTTCTC
Found at i:46110315 original size:8 final size:8
Alignment explanation
Indices: 46110288--46110499 Score: 141
Period size: 8 Copynumber: 27.4 Consensus size: 8
46110278 ATTTTCACCT
46110288 TCTCTCTC
1 TCTCTCTC
* *
46110296 TTTTTCTC
1 TCTCTCTC
*
46110304 TCTCTCTT
1 TCTCTCTC
*
46110312 TCTCCCTC
1 TCTCTCTC
*
46110320 TCTCCCTC
1 TCTCTCTC
46110328 TC-CTC-C
1 TCTCTCTC
*
46110334 TCTC-CCC
1 TCTCTCTC
*
46110341 T-TCCCTC
1 TCTCTCTC
46110348 TCTCTCTC
1 TCTCTCTC
* *
46110356 TTTCTCCC
1 TCTCTCTC
* *
46110364 TTTCTCTT
1 TCTCTCTC
*
46110372 TCTCCCTC
1 TCTCTCTC
*
46110380 TCCCTCTC
1 TCTCTCTC
*
46110388 TCTCTCCC
1 TCTCTCTC
*
46110396 TCCCTCTC
1 TCTCTCTC
* *
46110404 GCTCGCTC
1 TCTCTCTC
*
46110412 TCTCTCCC
1 TCTCTCTC
*
46110420 TCCCTCTC
1 TCTCTCTC
*
46110428 TTTCTCTC
1 TCTCTCTC
*
46110436 CCTCTCTC
1 TCTCTCTC
*
46110444 TCCCTC-C
1 TCTCTCTC
*
46110451 T-TCCCTC
1 TCTCTCTC
*
46110458 TCCCTCTC
1 TCTCTCTC
*
46110466 TCCCTCTC
1 TCTCTCTC
*
46110474 TCTCCCTC
1 TCTCTCTC
46110482 TCTC-CTC
1 TCTCTCTC
46110489 TCTCTCTC
1 TCTCTCTC
46110497 TCT
1 TCT
46110500 AGTTTCATCT
Statistics
Matches: 154, Mismatches: 43, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
6 8 0.05
7 19 0.12
8 127 0.82
ACGTcount: A:0.00, C:0.55, G:0.01, T:0.44
Consensus pattern (8 bp):
TCTCTCTC
Found at i:46110378 original size:60 final size:61
Alignment explanation
Indices: 46110288--46110495 Score: 221
Period size: 60 Copynumber: 3.4 Consensus size: 61
46110278 ATTTTCACCT
* * *
46110288 TCTCTCTCTTTTTCTCTCTCTCTTTCTCCCTCTCTCCCTCTCCTCCTCTCCCCT-TCCCTC
1 TCTCTCTCTCTCTCCCTCTCTCTTTCTCCCTCTCTCCCTCTCCTCCTCTCCCCTCTCCCTC
* * *
46110348 TCTCTCTCTTTCTCCCTTTCTCTTTCTCCCTCTC-CCTCTCTCTCTCC-CT-CCCTCTCGCTC
1 TCTCTCTCTCTCTCCCTCTCTCTTTCTCCCTCTCTCC-CTCTC-CTCCTCTCCCCTCTCCCTC
* *
46110408 GCTCTCTCTCCCTCCCTCTCT-TTCTCTCCCTCTCTCTCC-CTCCTTCCCTCTCCCTCTCTCCCT
1 TCTCTCTCTCTCTCCCTCTCTCTT-TCTCCCTCTCTC-CCTCTCC-T-CCTCTCCC-CTCTCCCT
46110471 C
61 C
*
46110472 TCTCTCCCTCTCTCCTCTCTCTCT
1 TCTCTCTCTCTCTCC-CTCTCTCT
46110496 CTCTAGTTTC
Statistics
Matches: 123, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
59 9 0.07
60 74 0.60
61 8 0.07
62 3 0.02
63 2 0.02
64 20 0.16
65 6 0.05
66 1 0.01
ACGTcount: A:0.00, C:0.55, G:0.01, T:0.44
Consensus pattern (61 bp):
TCTCTCTCTCTCTCCCTCTCTCTTTCTCCCTCTCTCCCTCTCCTCCTCTCCCCTCTCCCTC
Found at i:46110497 original size:6 final size:6
Alignment explanation
Indices: 46110288--46110499 Score: 141
Period size: 6 Copynumber: 36.5 Consensus size: 6
46110278 ATTTTCACCT
* * * * *
46110288 TCTCTC TCTTTT TCTCTC TCTCTT TCTCCC TCTCTC CCTCTC -CTC-C
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * *
46110334 TCTC-C CCT-TC CCTCTC TCTCTC TTTCTC CCTTTC TCTTTC TCCCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * *
46110380 TCCCTC TCTCTC TCCCTC CCTCTC GCTCGC TCTCTC TCCCTC CCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * *
46110428 TTTCTC TCCCTC TCTCTC CCTC-C T-TCCC TCTCCC TCTCTC CCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
*
46110474 TCTCCC TCTCTC -CTCTC TCTCTC TCT
1 TCTCTC TCTCTC TCTCTC TCTCTC TCT
46110500 AGTTTCATCT
Statistics
Matches: 159, Mismatches: 41, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
4 3 0.02
5 21 0.13
6 135 0.85
ACGTcount: A:0.00, C:0.55, G:0.01, T:0.44
Consensus pattern (6 bp):
TCTCTC
Found at i:46113329 original size:14 final size:15
Alignment explanation
Indices: 46113307--46113383 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
46113297 CAATCAAACA
46113307 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
46113321 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
46113336 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
46113356 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
46113370 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
46113384 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:46113348 original size:20 final size:20
Alignment explanation
Indices: 46113323--46113362 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46113313 AATATTTTCC
*
46113323 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
46113343 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
46113363 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:46113368 original size:34 final size:35
Alignment explanation
Indices: 46113311--46113377 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
46113301 CAAACACCAG
*
46113311 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
46113346 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
46113378 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46113384 original size:14 final size:14
Alignment explanation
Indices: 46113346--46113385 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
46113336 ACAGAAAAGT
*
46113346 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
46113360 AAATCATTTTACGG
1 AAAACATTTTACAG
46113374 AAAACATTTTAC
1 AAAACATTTTAC
46113386 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:46115282 original size:242 final size:242
Alignment explanation
Indices: 46114857--46115343 Score: 911
Period size: 242 Copynumber: 2.0 Consensus size: 242
46114847 TCATTTGACC
46114857 CAAGAGAACCGACTCGATTCAAAGAATTGATGGAGAAGCCTGGGTGGCCCAATGATGCAGATATA
1 CAAGAGAACCGACTCGATTCAAAGAATTGATGGAGAAGCCTGGGTGGCCCAATGATGCAGATATA
*
46114922 AGAAGTTAGGCTACCTTGATAAATAGGGAAATTAATCTTAGAAGATTGTGGGGAATCATATCTGA
66 AGAAGTTAGGCTACCTTGATAAATAGGGAAACTAATCTTAGAAGATTGTGGGGAATCATATCTGA
46114987 TAATATTAGATTTAATTTGATTATGTAATCTTGTAAATCCCTTAATTTTAGGGATAGGCTTAATC
131 TAATATTAGATTTAATTTGATTATGTAATCTTGTAAATCCCTTAATTTTAGGGATAGGCTTAATC
*
46115052 TCATCCGTTGATGTAATTCGATCTATACCATCAGTTTGAAGGGAGCT
196 TCATCCGTTGATGTAATTCGAGCTATACCATCAGTTTGAAGGGAGCT
46115099 CAAGAGAACCGACTCGATTCAAAGAATTGATGGAGAAGCCTGGGTGGCCCAATGATGCAGATATA
1 CAAGAGAACCGACTCGATTCAAAGAATTGATGGAGAAGCCTGGGTGGCCCAATGATGCAGATATA
* *
46115164 GGAAGTTAGGCTACCTTGGTAAATAGGGAAACTAATCTTAGAAGATTGTGGGGAATCATATCTGA
66 AGAAGTTAGGCTACCTTGATAAATAGGGAAACTAATCTTAGAAGATTGTGGGGAATCATATCTGA
*
46115229 TAATATTAGATTTAATTTGATTATGTAATCTTGTAAATCCCTTGATTTTAGGGATAGGCTTAATC
131 TAATATTAGATTTAATTTGATTATGTAATCTTGTAAATCCCTTAATTTTAGGGATAGGCTTAATC
* *
46115294 TCATCCGTTGATGTAGTTCGAGCTATACCGTCAGTTTGAAGGGAGCT
196 TCATCCGTTGATGTAATTCGAGCTATACCATCAGTTTGAAGGGAGCT
46115341 CAA
1 CAA
46115344 CTATAAATAG
Statistics
Matches: 238, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
242 238 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (242 bp):
CAAGAGAACCGACTCGATTCAAAGAATTGATGGAGAAGCCTGGGTGGCCCAATGATGCAGATATA
AGAAGTTAGGCTACCTTGATAAATAGGGAAACTAATCTTAGAAGATTGTGGGGAATCATATCTGA
TAATATTAGATTTAATTTGATTATGTAATCTTGTAAATCCCTTAATTTTAGGGATAGGCTTAATC
TCATCCGTTGATGTAATTCGAGCTATACCATCAGTTTGAAGGGAGCT
Found at i:46118910 original size:33 final size:33
Alignment explanation
Indices: 46118868--46118938 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
46118858 GATTCGAAAG
46118868 TAAAAAGCATACATCCTCCTTATAAATTACACC
1 TAAAAAGCATACATCCTCCTTATAAATTACACC
46118901 TAAAAAGCATACATCCTCCTTATAAATTACACC
1 TAAAAAGCATACATCCTCCTTATAAATTACACC
46118934 TAAAA
1 TAAAA
46118939 GGATTGTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.45, C:0.25, G:0.03, T:0.27
Consensus pattern (33 bp):
TAAAAAGCATACATCCTCCTTATAAATTACACC
Found at i:46124862 original size:114 final size:114
Alignment explanation
Indices: 46124662--46124891 Score: 408
Period size: 114 Copynumber: 2.0 Consensus size: 114
46124652 ATAATTCCAA
*
46124662 AGGACTTCCAGTAAGACCGGTAATGTGTAGATCTGGCATGCATTCATTTTTCCCTTTTGGTAAAT
1 AGGACTTCCAGTAAGACCGGTAATGTGTAGATCTGGCATGCATTCATTTTTCCCTTTTAGTAAAT
*
46124727 AGTAGGTGCATCAGTGATGTAGAATAGGTAGGGAAAAGGAA-TTAAATAT
66 AGTAGGTGCATCAGTGATGTAGAATAAGTAGGGAAAA-GAAGTTAAATAT
46124776 AGGACTTCCAGTAAGACCGGTAATGTGTAGATCTGGCATGCATTCATTTTTCCCTTTTAGTAAAT
1 AGGACTTCCAGTAAGACCGGTAATGTGTAGATCTGGCATGCATTCATTTTTCCCTTTTAGTAAAT
* *
46124841 ATTTGGTGCATCAGTGATGTAGAATAAGTAGGGAAAAGAAGTTAAATAT
66 AGTAGGTGCATCAGTGATGTAGAATAAGTAGGGAAAAGAAGTTAAATAT
46124890 AG
1 AG
46124892 AACAGAAATT
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
113 3 0.03
114 108 0.97
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.31
Consensus pattern (114 bp):
AGGACTTCCAGTAAGACCGGTAATGTGTAGATCTGGCATGCATTCATTTTTCCCTTTTAGTAAAT
AGTAGGTGCATCAGTGATGTAGAATAAGTAGGGAAAAGAAGTTAAATAT
Found at i:46135889 original size:98 final size:95
Alignment explanation
Indices: 46135758--46135950 Score: 278
Period size: 98 Copynumber: 2.0 Consensus size: 95
46135748 CAAAATAGAA
* * *
46135758 GCAAGAGTGCATTTGACATATTAGACTTGTGTGACTCAATCCTGTTAGATTCAGCCTGAAAAGTT
1 GCAAGAGTGCATTTGACATATTAAACTTGTGTGACTCAATCCTATTAGATCCAGCCTGAAAAGTT
**
46135823 TGATGTGCACAAGTTGTACTCGTATAGGACTAT
66 CAATGTGCACAA---GTACTCGTATAGGACTAT
* * *
46135856 GCAAGAGTTCATTTGACATGTTAAACTTGTGTGACTCAATCCTATTTGATCCAGCCTGAAAAGTT
1 GCAAGAGTGCATTTGACATATTAAACTTGTGTGACTCAATCCTATTAGATCCAGCCTGAAAAGTT
*
46135921 CAATGTGCACAAGTATTCGTATAGGACTAT
66 CAATGTGCACAAGTACTCGTATAGGACTAT
46135951 ACTTCTTCTA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
95 17 0.20
98 69 0.80
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (95 bp):
GCAAGAGTGCATTTGACATATTAAACTTGTGTGACTCAATCCTATTAGATCCAGCCTGAAAAGTT
CAATGTGCACAAGTACTCGTATAGGACTAT
Found at i:46143795 original size:21 final size:23
Alignment explanation
Indices: 46143771--46143819 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 23
46143761 TAGAGATGCT
* *
46143771 ATTTTTTTAAAAATCTTA-TT-C
1 ATTTTTTGAAAAATATTATTTCC
46143792 A-TTTTTGAAAAATATTATTTCC
1 ATTTTTTGAAAAATATTATTTCC
46143814 ATTTTT
1 ATTTTT
46143820 ACATAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 14 0.61
21 3 0.13
22 2 0.09
23 4 0.17
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTTTTGAAAAATATTATTTCC
Found at i:46149775 original size:17 final size:16
Alignment explanation
Indices: 46149753--46149806 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
46149743 TTACACTTTA
46149753 TTTTAAATTATGATTAT
1 TTTTAAATTAT-ATTAT
46149770 TTTTAAA--ATATT-T
1 TTTTAAATTATATTAT
*
46149783 TTTTATAATTATTAATAT
1 TTTTA-AATTA-TATTAT
46149801 TTTTAA
1 TTTTAA
46149807 GCAAATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
13 6 0.19
14 5 0.16
15 2 0.06
16 1 0.03
17 11 0.35
18 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTAAATTATATTAT
Found at i:46158166 original size:12 final size:12
Alignment explanation
Indices: 46158149--46158173 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46158139 AATATTATTT
46158149 TAATAATTTTAA
1 TAATAATTTTAA
46158161 TAATAATTTTAA
1 TAATAATTTTAA
46158173 T
1 T
46158174 TTAATACGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATAATTTTAA
Found at i:46158353 original size:58 final size:59
Alignment explanation
Indices: 46158227--46158360 Score: 139
Period size: 58 Copynumber: 2.3 Consensus size: 59
46158217 TGATTATCTT
* * * * *
46158227 AATATTAAATTAAATTTAATATTTATTTTGTAGATAAATATTATTTTAATTAAATAGATTT
1 AATATTAAATTTAATCTAATATTTATTCTG-AGATAAATATTATATTAATTAAATA-ATTA
* *
46158288 AATATTAAATTTAATCTAATATTTA-TCTG-GATAACTATTATATTAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATTCTGAGATAAATATTATATTAATTAAATAATTA
*
46158344 AAGTGATTAAGTTTAAT
1 AA-T-ATTAAATTTAAT
46158361 AATAGTTGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 31 0.49
60 3 0.05
61 23 0.37
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (59 bp):
AATATTAAATTTAATCTAATATTTATTCTGAGATAAATATTATATTAATTAAATAATTA
Found at i:46160780 original size:15 final size:16
Alignment explanation
Indices: 46160753--46160805 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
46160743 TTAATCACTT
*
46160753 TAATATTAAATTAATA
1 TAATATTATATTAATA
*
46160769 TAATATT-TATTAAGA
1 TAATATTATATTAATA
* *
46160784 TAAATATTATATGAATT
1 T-AATATTATATTAATA
46160801 TAATA
1 TAATA
46160806 CTAAGATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 7 0.23
16 17 0.57
17 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (16 bp):
TAATATTATATTAATA
Found at i:46160795 original size:21 final size:20
Alignment explanation
Indices: 46160756--46160795 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
46160746 ATCACTTTAA
*
46160756 TATTAAATTAATATAATATT
1 TATTAAATAAATATAATATT
*
46160776 TATTAAGATAAATATTATAT
1 TATTAA-ATAAATATAATAT
46160796 GAATTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TATTAAATAAATATAATATT
Found at i:46160869 original size:68 final size:68
Alignment explanation
Indices: 46160744--46160873 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 68
46160734 TAAAAAAAAT
* * * * *
46160744 TAATCACTTTAATATTAAATTAATATAATATTTATTAAGATAAATATTATATGAATTTAATACTA
1 TAATCACATTAATATTAAATTAATAAAATATATATTAAGATAAATATTAAATAAATTTAATACTA
46160809 AGA
66 AGA
*
46160812 TAATCACATTAATATTAAATTAATAAAATA-ATATTAAGATAAGTATTAAATTAAATTTAATA
1 TAATCACATTAATATTAAATTAATAAAATATATATTAAGATAAATATTAAA-TAAATTTAATA
46160874 TTAAACTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 17 0.31
68 38 0.69
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (68 bp):
TAATCACATTAATATTAAATTAATAAAATATATATTAAGATAAATATTAAATAAATTTAATACTA
AGA
Found at i:46174403 original size:11 final size:12
Alignment explanation
Indices: 46174387--46174513 Score: 60
Period size: 11 Copynumber: 10.8 Consensus size: 12
46174377 ATTAATCACT
46174387 TTAATATTAA-A
1 TTAATATTAATA
46174398 TTAATA-TAATA
1 TTAATATTAATA
*
46174409 TT--TATTAAGA
1 TTAATATTAATA
*
46174419 TAAATATTAGAT-
1 TTAATATTA-ATA
46174431 TTAAT-TTAATA
1 TTAATATTAATA
*
46174442 TTAAGA-TAATCA
1 TTAATATTAAT-A
46174454 CTTTAATATTAA-A
1 --TTAATATTAATA
*
46174467 TTAATAAAATAATA
1 TTAAT--ATTAATA
*
46174481 TTAAGA-TAAGTA
1 TTAATATTAA-TA
46174493 TTAA-ATTTAAT-
1 TTAATA-TTAATA
46174504 TTAATATTAA
1 TTAATATTAA
46174514 ACTATTAAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 36
0.67 0.06 0.27
Matches are distributed among these distances:
9 2 0.02
10 10 0.11
11 37 0.41
12 19 0.21
13 9 0.10
14 10 0.11
15 3 0.03
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (12 bp):
TTAATATTAATA
Found at i:46174432 original size:21 final size:20
Alignment explanation
Indices: 46174391--46174433 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
46174381 ATCACTTTAA
* *
46174391 TATTAAATTAATATAATATT
1 TATTAAATAAATATAAGATT
*
46174411 TATTAAGATAAATATTAGATT
1 TATTAA-ATAAATATAAGATT
46174432 TA
1 TA
46174434 ATTTAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TATTAAATAAATATAAGATT
Found at i:46174505 original size:68 final size:69
Alignment explanation
Indices: 46174379--46174513 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 69
46174369 TTCAAAAAAT
* * *
46174379 TAATCACTTTAATATTAAATTAATATAATATTTATTAAGATAAATATTAGATTTAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATATATATTAAGATAAATATTAAATTTAATTTAATATT
46174444 AAGA
66 AAGA
*
46174448 TAATCACTTTAATATTAAATTAATAAAATA-ATATTAAGATAAGTATTAAATTTAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATATATATTAAGATAAATATTAAATTTAATTTAATATT
46174512 AA
66 AA
46174514 ACTATTAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
68 33 0.53
69 29 0.47
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.44
Consensus pattern (69 bp):
TAATCACTTTAATATTAAATTAATAAAATATATATTAAGATAAATATTAAATTTAATTTAATATT
AAGA
Found at i:46179345 original size:5 final size:5
Alignment explanation
Indices: 46179335--46179363 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
46179325 ACCCTTTTCT
46179335 TCCCA TCCCA TCCCA TCCCA TCCCA TCCC
1 TCCCA TCCCA TCCCA TCCCA TCCCA TCCC
46179364 TTTTCCTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.62, G:0.00, T:0.21
Consensus pattern (5 bp):
TCCCA
Found at i:46189637 original size:272 final size:275
Alignment explanation
Indices: 46189226--46189789 Score: 1071
Period size: 272 Copynumber: 2.1 Consensus size: 275
46189216 AAAAGATACC
*
46189226 ATAGTGATTATTGAATTAAATGACATTAAAGACTAAATTATACAATATTCAAAAGTAATTAAGTG
1 ATAGTGCTTATTGAATTAAATGACATTAAAGACTAAATTATACAATATTCAAAAGTAATTAAGTG
46189291 TACTAAAACTTTGAAATAACATATTTTAAGTGTAGTGATTTATAGAAGTGAAGTGAATTTCAAAG
66 TACTAAAACTTTGAAATAACATATTTTAAGTGTAGTGATTTATAGAAGTGAAGTGAATTTCAAAG
*
46189356 TGAAAATATAATGATTAATGAAAAGGGATTAAATTGCACAATATGCAAAAAAAGTTAGAATTAAG
131 TGAAAATATAATGATTAATGAAAAGGGATTAAATTGCACAAGATGCAAAAAAAGTTAGAATTAAG
46189421 ATAAATTTATGTTCTGATGTGGGAAATGAAGTATGATGAGATAGTGCGTTATATATCTTATGTGT
196 ATAAATTTATGTTCTGATGTGGGAAATGAAGTATGATGAGATAGTGCGTTATATATCTTATGTGT
46189486 AAATGAATCATAATT
261 AAATGAATCATAATT
*
46189501 ATAGTGCTTATTGAATTAAATGACATTAAAGACTAAATTGTACAATATTC-AAA-TAATTAAGTG
1 ATAGTGCTTATTGAATTAAATGACATTAAAGACTAAATTATACAATATTCAAAAGTAATTAAGTG
46189564 TACTAAAACTTTGAAATAACATA-TTTAAGTGTAGTGATTTATAGAAGTGAAGTGAATTTCAAAG
66 TACTAAAACTTTGAAATAACATATTTTAAGTGTAGTGATTTATAGAAGTGAAGTGAATTTCAAAG
46189628 TGAAAATATAATGATTAATGAAAAGGGATTAAATTGCACAAGATGCAAAAAAAGTTAGAATTAAG
131 TGAAAATATAATGATTAATGAAAAGGGATTAAATTGCACAAGATGCAAAAAAAGTTAGAATTAAG
*
46189693 ATAAATTTATGTTCTGATGTGGGAAATGAAGTATTATGAGATAGTGCGTTATATATCTTATGTGT
196 ATAAATTTATGTTCTGATGTGGGAAATGAAGTATGATGAGATAGTGCGTTATATATCTTATGTGT
46189758 AAATGAATCATAATT
261 AAATGAATCATAATT
46189773 ATAGTGCTTATTGAATT
1 ATAGTGCTTATTGAATT
46189790 TTTATAATAA
Statistics
Matches: 285, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
272 201 0.71
273 33 0.12
274 3 0.01
275 48 0.17
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (275 bp):
ATAGTGCTTATTGAATTAAATGACATTAAAGACTAAATTATACAATATTCAAAAGTAATTAAGTG
TACTAAAACTTTGAAATAACATATTTTAAGTGTAGTGATTTATAGAAGTGAAGTGAATTTCAAAG
TGAAAATATAATGATTAATGAAAAGGGATTAAATTGCACAAGATGCAAAAAAAGTTAGAATTAAG
ATAAATTTATGTTCTGATGTGGGAAATGAAGTATGATGAGATAGTGCGTTATATATCTTATGTGT
AAATGAATCATAATT
Found at i:46190038 original size:29 final size:29
Alignment explanation
Indices: 46189946--46190048 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 29
46189936 CAGCGCTTTT
46189946 TGTTCTAATACTGCACTTCGGTGCCACTC
1 TGTTCTAATACTGCACTTCGGTGCCACTC
* * ** * ****
46189975 TGTTATGATAAAGCAGTTCGGTGTTGTTC
1 TGTTCTAATACTGCACTTCGGTGCCACTC
*
46190004 TATTCTAATACTGCACTTCGGTGCCACTC
1 TGTTCTAATACTGCACTTCGGTGCCACTC
* *
46190033 TGTTCTATTATTGCAC
1 TGTTCTAATACTGCAC
46190049 CTAAGTGCAA
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (29 bp):
TGTTCTAATACTGCACTTCGGTGCCACTC
Found at i:46193721 original size:19 final size:20
Alignment explanation
Indices: 46193677--46193713 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
46193667 AAAATAAGCA
46193677 AAAG-AAGACAAAGAGAAAT
1 AAAGAAAGACAAAGAGAAAT
*
46193696 AAAGAAAGA-AAAGGGAAA
1 AAAGAAAGACAAAGAGAAA
46193714 AAATGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.70, C:0.03, G:0.24, T:0.03
Consensus pattern (20 bp):
AAAGAAAGACAAAGAGAAAT
Found at i:46196603 original size:19 final size:19
Alignment explanation
Indices: 46196576--46196620 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
46196566 CTCGTTTATG
* *
46196576 ATGTTTGATTTGTGGAACC
1 ATGTGTGATTAGTGGAACC
*
46196595 ATGTGTGATTAGTGGAATC
1 ATGTGTGATTAGTGGAACC
46196614 ATGTGTG
1 ATGTGTG
46196621 CATAAAAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.31, T:0.40
Consensus pattern (19 bp):
ATGTGTGATTAGTGGAACC
Found at i:46200790 original size:51 final size:51
Alignment explanation
Indices: 46200735--46200870 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 51
46200725 TGGAAACATG
*
46200735 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * ** *
46200786 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
46200837 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
46200871 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:46203593 original size:51 final size:51
Alignment explanation
Indices: 46203538--46203673 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 51
46203528 TGGAAACATG
*
46203538 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * ** *
46203589 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
46203640 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
46203674 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:46206635 original size:98 final size:98
Alignment explanation
Indices: 46206466--46206652 Score: 252
Period size: 98 Copynumber: 1.9 Consensus size: 98
46206456 TAAGCAAACA
* ** *
46206466 GTTTGAATGGAATTGCGATCCTAAATTGATGAACTCTAAATGAGTTTTTCATGATCGTAAATTAA
1 GTTTGAATGGAATTGCGATCCTAAATTCAACAACTCTAAATGAGTTTTTCATGATCGTAAATCAA
46206531 TAAACTAAAGCTGTGATCATAAATAAAAAAATT
66 TAAACTAAAGCTGTGATCATAAATAAAAAAATT
* * *
46206564 GTTTGAATGGATTTGCGATCGTAAA-TCAACACACTCTAAATGAGTTGTTT-ATGATTGTAAATC
1 GTTTGAATGGAATTGCGATCCTAAATTCAACA-ACTCTAAATGAGTT-TTTCATGATCGTAAATC
* * *
46206627 AATGAACTAAAGTTGTGATCGTAAAT
64 AATAAACTAAAGCTGTGATCATAAAT
46206653 CAATGAGGTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
97 3 0.04
98 71 0.92
99 3 0.04
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (98 bp):
GTTTGAATGGAATTGCGATCCTAAATTCAACAACTCTAAATGAGTTTTTCATGATCGTAAATCAA
TAAACTAAAGCTGTGATCATAAATAAAAAAATT
Found at i:46217564 original size:22 final size:23
Alignment explanation
Indices: 46217530--46217573 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
46217520 GTATCCTAAT
* *
46217530 AAAAATAAGTTAAGATCTTTAAC
1 AAAAACAAGTTAACATCTTTAAC
46217553 AAAAACAA-TTAACATCTTTAA
1 AAAAACAAGTTAACATCTTTAA
46217574 TGGCAAGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.30
Consensus pattern (23 bp):
AAAAACAAGTTAACATCTTTAAC
Found at i:46220881 original size:51 final size:51
Alignment explanation
Indices: 46220786--46220883 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
46220776 AGTTTATACG
* * *
46220786 TTCTATCAATTTAGTATTGATTTAATAAATTTATCCCACGATATTTACGTA
1 TTCTATCAATTTAGTATTGATTTAACAAATTTAGCCCACAATATTTACGTA
* * * *
46220837 TTCTATCAATTTGGTCTTGATTTAACAAATTTAGCTCATAATATTTA
1 TTCTATCAATTTAGTATTGATTTAACAAATTTAGCCCACAATATTTA
46220884 TATATTTTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (51 bp):
TTCTATCAATTTAGTATTGATTTAACAAATTTAGCCCACAATATTTACGTA
Found at i:46228384 original size:18 final size:19
Alignment explanation
Indices: 46228344--46228384 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
46228334 AAAATTACTG
46228344 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
46228363 AAAAGTTC-AAAT-ATTTT
1 AAAAATTCAAAATAATTTT
46228380 AAAAA
1 AAAAA
46228385 ATTGAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
18 4 0.20
19 7 0.35
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:46234260 original size:15 final size:14
Alignment explanation
Indices: 46234225--46234262 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
46234215 ACCCCCCCCC
46234225 CAAAA-AAAAAAAA
1 CAAAAGAAAAAAAA
46234238 CAAAAGAAAAAAAA
1 CAAAAGAAAAAAAA
*
46234252 GAAAGAGAAAA
1 CAAA-AGAAAA
46234263 TGGAAGAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.23
14 11 0.50
15 6 0.27
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (14 bp):
CAAAAGAAAAAAAA
Found at i:46235642 original size:16 final size:15
Alignment explanation
Indices: 46235617--46235646 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46235607 CGCCATTGAC
46235617 GGTGGCGGAGGTGGA
1 GGTGGCGGAGGTGGA
46235632 GGTGAGCGGAGGTGG
1 GGTG-GCGGAGGTGG
46235647 GTTCAACTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.07, G:0.67, T:0.13
Consensus pattern (15 bp):
GGTGGCGGAGGTGGA
Found at i:46237233 original size:7 final size:7
Alignment explanation
Indices: 46237221--46237245 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46237211 TTTGTTTTAA
46237221 AAAAGGG
1 AAAAGGG
46237228 AAAAGGG
1 AAAAGGG
46237235 AAAAGGG
1 AAAAGGG
46237242 AAAA
1 AAAA
46237246 ATGAAAAAAA
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:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (7 bp):
AAAAGGG
Found at i:46237513 original size:50 final size:50
Alignment explanation
Indices: 46237371--46237630 Score: 303
Period size: 50 Copynumber: 5.2 Consensus size: 50
46237361 CTATTTTCGC
* * *
46237371 AGTACTACACACATGATCAA-TTTTACTGTTCACGTAGTAGCCTTTACAT
1 AGTACTACACACATGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACAT
* * *
46237420 AGTACTACACACATGATC-AGTTTTACTGTTCACGTAGTAGCCTTTACAT
1 AGTACTACACACATGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACAT
** *
46237469 AGTACTACACATGTGGTCAAGTTTTACGGCTCACGTAGTAGCCTTCACAT
1 AGTACTACACACATGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACAT
* *
46237519 AGTACTGCACACGTGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACAT
1 AGTACTACACACATGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACAT
* * * * * * *
46237569 AGTACTACATACGTGACCAAAGCTTTT-CGG-TACCCATTGTAGCCTTCACTT
1 AGTACTACACACATGATC-AAG-TTTTACGGCT-CACGTAGTAGCCTTCACAT
46237620 AGTACTACACA
1 AGTACTACACA
46237631 TGTAACCATA
Statistics
Matches: 189, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.01
49 62 0.33
50 91 0.48
51 31 0.16
52 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (50 bp):
AGTACTACACACATGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACAT
Found at i:46237624 original size:51 final size:51
Alignment explanation
Indices: 46237405--46237787 Score: 265
Period size: 51 Copynumber: 7.6 Consensus size: 51
46237395 ACTGTTCACG
* * * * *
46237405 TAGTAGCCTTTACATAGTACTACACACATGATC--AG-TTTTACTG-TTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-C-GATACACA
* * ** * *
46237454 TAGTAGCCTTTACATAGTACTACACATGTGGTC-AAG-TTTTACGGCT-CACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-C-GATACACA
* * * *
46237504 TAGTAGCCTTCACATAGTACTGCACACGTGATC-AAG-TTTTACGGCT-CACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-C-GATACACA
* * *
46237554 TAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGGTACCCA
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGATACACA
* * * * * *
46237605 TTGTAGCCTTCACTTAGTACTACACATGTAACCATAG-TTTATCGATACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTT-TCGATACACA
* * *
46237656 TAGTAGCATTCACACAATACTACACACGTG-CTCAAAGCTTTTCGATACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGCTTTTCGATACACA
* * * *
46237707 TAGTAGCCTTCACTTAGTACTA-AGCATGTGACCATTA--TTTATCGATACACG
1 TAGTAGCCTTCACATAGTACTACA-CACGTGACCA-AAGCTTT-TCGATACACA
* *
46237758 TAGTAGCATTCACACAGTACTACACACGTG
1 TAGTAGCCTTCACATAGTACTACACACGTG
46237788 TTCATCGACA
Statistics
Matches: 278, Mismatches: 43, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
49 30 0.11
50 99 0.36
51 139 0.50
52 10 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (51 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGATACACA
Found at i:46237668 original size:102 final size:102
Alignment explanation
Indices: 46237550--46237787 Score: 356
Period size: 102 Copynumber: 2.3 Consensus size: 102
46237540 TTTTACGGCT
* * * * * *
46237550 CACGTAGTAGCCTTCACATAGTACTACATACGTGAC-CAAAGCTTTTCGGTACCCATTGTAGCCT
1 CACGTAGTAGCATTCACACAGTACTACACACGTG-CTCAAAGCTTTTCGATACACATAGTAGCCT
46237614 TCACTTAGTACTACA-CATGTAACCA-TAGTTTATCGATA
65 TCACTTAGTACTA-AGCATGTAACCATTA-TTTATCGATA
*
46237652 CACGTAGTAGCATTCACACAATACTACACACGTGCTCAAAGCTTTTCGATACACATAGTAGCCTT
1 CACGTAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTTTCGATACACATAGTAGCCTT
*
46237717 CACTTAGTACTAAGCATGTGACCATTATTTATCGATA
66 CACTTAGTACTAAGCATGTAACCATTATTTATCGATA
46237754 CACGTAGTAGCATTCACACAGTACTACACACGTG
1 CACGTAGTAGCATTCACACAGTACTACACACGTG
46237788 TTCATCGACA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
101 2 0.02
102 120 0.97
103 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
CACGTAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTTTCGATACACATAGTAGCCTT
CACTTAGTACTAAGCATGTAACCATTATTTATCGATA
Found at i:46245109 original size:50 final size:50
Alignment explanation
Indices: 46244995--46245383 Score: 396
Period size: 51 Copynumber: 7.7 Consensus size: 50
46244985 TATCATTCGA
*
46244995 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
* *
46245044 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGGTCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
*
46245094 CT-CACGTAGTAGCCTTCACATAGTACTGCACACGTGATCAAGTTTTACGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
* *
46245144 CT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT-CGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGG
* * * * * * * *
46245195 TACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCATAG-TTTACCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AGTTTTA-CGG
* * *
46245246 TACACGTAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTTT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGG
* * * * * * *
46245297 TACACATAGTAGCCTTCACTTAGTACTACGCATGTGA-CCATTATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGG
* * *
46245348 TACACATAGTAGCCTTCACACAGTACTACATACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
46245384 TTCATCGACA
Statistics
Matches: 284, Mismatches: 42, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.00
49 44 0.15
50 94 0.33
51 137 0.48
52 5 0.02
53 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
Found at i:46248961 original size:13 final size:13
Alignment explanation
Indices: 46248945--46248969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46248935 GCTGCAAGAG
46248945 GGGAGCAATTGTA
1 GGGAGCAATTGTA
46248958 GGGAGCAATTGT
1 GGGAGCAATTGT
46248970 TATGGAACGA
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:0.28, C:0.08, G:0.40, T:0.24
Consensus pattern (13 bp):
GGGAGCAATTGTA
Found at i:46258003 original size:27 final size:25
Alignment explanation
Indices: 46257966--46258030 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
46257956 AATAGAGAAA
*
46257966 ATAATCAGGAAGCACACTCTAGAGCCAT
1 ATAA-CAGGAAGCACA-TAT-GAGCCAT
* *
46257994 ATAACGGGAAGCTCATATGAGCCAT
1 ATAACAGGAAGCACATATGAGCCAT
46258019 ATAACAGGAAGC
1 ATAACAGGAAGC
46258031 TTATCTGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 18 0.55
26 2 0.06
27 9 0.27
28 4 0.12
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (25 bp):
ATAACAGGAAGCACATATGAGCCAT
Found at i:46258017 original size:25 final size:25
Alignment explanation
Indices: 46257987--46258060 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 25
46257977 GCACACTCTA
*
46257987 GAGCCATATAACGGGAAGCTCATAT
1 GAGCCATATAACAGGAAGCTCATAT
* *
46258012 GAGCCATATAACAGGAAGCTTATCT
1 GAGCCATATAACAGGAAGCTCATAT
* * *
46258037 GGGCCGTATAACAGAAAGCTCATA
1 GAGCCATATAACAGGAAGCTCATA
46258061 CAAGTTTATA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAT
Found at i:46259783 original size:28 final size:28
Alignment explanation
Indices: 46259751--46259815 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
46259741 TTATAAATTG
46259751 ATTAATTGAATTTAG-TAACTCATGATAA
1 ATTAATTGAATTTAGATAACTCAT-ATAA
* **
46259779 ATTAATT-AATTTTGATAACTCATATTG
1 ATTAATTGAATTTAGATAACTCATATAA
46259806 ATTAATTGAA
1 ATTAATTGAA
46259816 CCTGTTGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 15 0.47
28 17 0.53
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (28 bp):
ATTAATTGAATTTAGATAACTCATATAA
Found at i:46265004 original size:40 final size:39
Alignment explanation
Indices: 46264952--46265135 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 39
46264942 TAACTCATAC
*
46264952 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
* * *
46264992 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTA-AAACTCGCACA
*
46265032 AAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
** * ** *
46265072 AATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-AAAC-TCGCACA
*
46265113 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46265136 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 6 0.05
40 105 0.86
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:46265056 original size:80 final size:80
Alignment explanation
Indices: 46264950--46265135 Score: 238
Period size: 80 Copynumber: 2.3 Consensus size: 80
46264940 AGTAACTCAT
* *
46264950 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-TTTAATAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
46265013 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
46265029 ACAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
46265094 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
46265110 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
46265136 CAGCATTCAA
Statistics
Matches: 95, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
79 12 0.13
80 72 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:46273027 original size:41 final size:41
Alignment explanation
Indices: 46272861--46273082 Score: 215
Period size: 40 Copynumber: 5.5 Consensus size: 41
46272851 CTCGTTCAAG
* * * **
46272861 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTTAGTAACTCGCACAAA
* * *
46272900 TACCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTTAGTAACTCGCACAAA
* *
46272940 TGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTTAGTAACTCGCACAAA
* *
46272980 GGCCTTCGGGACTTAACCCGGATTTTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTTAGTAACTCGCACAAA
** * * *
46273021 TGCCTTC-GGATCTTAGTCCGGA-TATAGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAACCCGGATTTTAGTAAC-TCGCACAAA
*
46273062 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
46273083 CAGCATTCAA
Statistics
Matches: 152, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
39 28 0.18
40 83 0.55
41 41 0.27
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (41 bp):
TGCCTTCGGGACTTAACCCGGATTTTAGTAACTCGCACAAA
Found at i:46273066 original size:81 final size:80
Alignment explanation
Indices: 46272902--46273082 Score: 244
Period size: 81 Copynumber: 2.2 Consensus size: 80
46272892 TCATACAATA
*
46272902 CCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGAATTAG
1 CCTTCGGGACTTAACCCGGATTTTAAAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAG
*
46272967 TATCTCGCACAAAGG
66 TATCTAGCACAAAGG
**
46272982 CCTTCGGGACTTAACCCGGATTTTAATAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG-ATA
1 CCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAAT-
46273045 TAGTCA-CTTAGCACAAA-G
63 TAGT-ATC-TAGCACAAAGG
*
46273063 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
46273083 CAGCATTCAA
Statistics
Matches: 91, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
80 31 0.34
81 51 0.56
82 9 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATTTTAAAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAG
TATCTAGCACAAAGG
Found at i:46275911 original size:25 final size:25
Alignment explanation
Indices: 46275863--46275911 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
46275853 CATAATTGAA
* * *
46275863 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
46275888 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
46275912 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:46278393 original size:14 final size:14
Alignment explanation
Indices: 46278374--46278401 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46278364 CATGTATATA
46278374 TTTATTTTTTAAAT
1 TTTATTTTTTAAAT
46278388 TTTATTTTTTAAAT
1 TTTATTTTTTAAAT
46278402 CATATCATAT
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTTTAAAT
Found at i:46279487 original size:24 final size:22
Alignment explanation
Indices: 46279432--46279532 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 22
46279422 AAATTAAATC
* *
46279432 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTGC-ATATCATATCT
46279455 TCTAAGATTGCATATCATATCAT
1 TCTAAGATTGCATATCATATC-T
46279478 ATCTAAGATTGCATATCATA--T
1 -TCTAAGATTGCATATCATATCT
*
46279499 T-TAAGATTACATATCATA---
1 TCTAAGATTGCATATCATATCT
46279517 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
46279533 CTTGAAGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
18 1 0.01
19 29 0.41
20 1 0.01
21 1 0.01
22 9 0.13
23 11 0.15
24 19 0.27
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (22 bp):
TCTAAGATTGCATATCATATCT
Found at i:46279494 original size:19 final size:19
Alignment explanation
Indices: 46279470--46279532 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
46279460 GATTGCATAT
46279470 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
* *
46279489 CATATCATATTTAAGATTA
1 CATATCATATCTAAGATTG
46279508 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
46279527 CATATC
1 CATATC
46279533 CTTGAAGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:46280130 original size:45 final size:44
Alignment explanation
Indices: 46280051--46280547 Score: 193
Period size: 44 Copynumber: 11.4 Consensus size: 44
46280041 CACTCCATTA
* * * *
46280051 CAACTTTAGGGAGATGAGATTTGTTTCTTTAGTCTGCCCCACTG
1 CAACTTCAGGGAGATAAGACTTGTTTCTTGAGTCTGCCCCACTG
* * * *
46280095 CAATTTTAGGGGGATAAGACTTGATTTCTTGAGTCTGCCCCACTA
1 CAACTTCAGGGAGATAAGACTTG-TTTCTTGAGTCTGCCCCACTG
* * * * * *
46280140 CAACTTCAGGAAGATAAGACTCGCTTTATTGGGTCTTCTCCACTG
1 CAACTTCAGGGAGATAAGACTTG-TTTCTTGAGTCTGCCCCACTG
** * * * * * *
46280185 CAACTTCAGGGAGATAAGACCCGATGC---AATTTG-CTCTCTG
1 CAACTTCAGGGAGATAAGACTTGTTTCTTGAGTCTGCCCCACTG
* * * * * *
46280225 CAACTTCAGAGAGGTAAGATCTGTGATT-TT-AATC-ACTCCACTG
1 CAACTTCAGGGAGATAAGA-CT-TGTTTCTTGAGTCTGCCCCACTG
* * * * * * *
46280268 CAACTTCAGGGAGATAGGA-TTATTGGCTTTAATCTGCTCCACTA
1 CAACTTCAGGGAGATAAGACTTGTT-TCTTGAGTCTGCCCCACTG
** * ** *
46280312 CAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTCTGCCTTACTA
1 CAACTTCAGGGAGATAAGACTT-G-TTTCTTGAGTCTGCCCCACTG
* * * *
46280357 CAACTTCA-GAAGGATAAGGCTTGCTTACTT-AGTCTGCTCCACTG
1 CAACTTCAGGGA-GATAAGACTTG-TTTCTTGAGTCTGCCCCACTG
* * * *
46280401 CAACTTCAGGGAGATAAGACTAGATGC--GA-TCTG-CCCTCTG
1 CAACTTCAGGGAGATAAGACTTGTTTCTTGAGTCTGCCCCACTG
** * * * * *
46280441 CAACTTCAAAGAGATAAGATCTGTGATT-TT-AATCCGCTCTACTG
1 CAACTTCAGGGAGATAAGA-CT-TGTTTCTTGAGTCTGCCCCACTG
* * * * * * *
46280485 CGACTTCAGGGAGATAGGA-TTATTGGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGACTTGTT-TCTTGAGTCTGCCCCACTG
46280529 CAACTTCAGGGAGATAAGA
1 CAACTTCAGGGAGATAAGA
46280548 TTCGCCTTAT
Statistics
Matches: 336, Mismatches: 92, Indels: 50
0.70 0.19 0.10
Matches are distributed among these distances:
40 45 0.13
41 12 0.04
42 11 0.03
43 34 0.10
44 124 0.37
45 108 0.32
46 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGACTTGTTTCTTGAGTCTGCCCCACTG
Found at i:46280461 original size:216 final size:218
Alignment explanation
Indices: 46280121--46280564 Score: 662
Period size: 217 Copynumber: 2.0 Consensus size: 218
46280111 AGACTTGATT
* * *
46280121 TCTTGAGTCTGCCCCACTACAACTTCAGGAAGATAAGACTCGCTTTATTGGGTCTTCTCCACTGC
1 TCTTCAGTCTGCCCCACTACAACTTCAGGAAGATAAGACTCGCTTTATTGAGTCTGCTCCACTGC
* * * * *
46280186 AACTTCAGGGAGATAAGACCCGATGCAATTTGCTCTCTGCAACTTCAGAGAGGTAAGATCTGTGA
66 AACTTCAGGGAGATAAGACCAGATGCAATCTGCCCTCTGCAACTTCAAAGAGATAAGATCTGTGA
46280251 TTTTAAT-CACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAA
131 TTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAA
46280315 CTTCAGGGAGATAAGATTCGCCA
196 CTTCAGGGAGATAAGATTCGCCA
** * *
46280338 TCTTCAGTCTGCCTTACTACAACTTCA-GAAGGATAAGGCTTGC-TTACTT-AGTCTGCTCCACT
1 TCTTCAGTCTGCCCCACTACAACTTCAGGAA-GATAAGACTCGCTTTA-TTGAGTCTGCTCCACT
* *
46280400 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCCCTCTGCAACTTCAAAGAGATAAGATCTGT
64 GCAACTTCAGGGAGATAAGACCAGATGCAATCTGCCCTCTGCAACTTCAAAGAGATAAGATCTGT
* * * *
46280465 GATTTTAATCCGCTCTACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
129 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTAC
*
46280530 AACTTCAGGGAGATAAGATTCGCCT
194 AACTTCAGGGAGATAAGATTCGCCA
*
46280555 TATTCAGTCT
1 TCTTCAGTCT
46280565 TTTAAATTGC
Statistics
Matches: 204, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
216 84 0.41
217 120 0.59
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (218 bp):
TCTTCAGTCTGCCCCACTACAACTTCAGGAAGATAAGACTCGCTTTATTGAGTCTGCTCCACTGC
AACTTCAGGGAGATAAGACCAGATGCAATCTGCCCTCTGCAACTTCAAAGAGATAAGATCTGTGA
TTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAA
CTTCAGGGAGATAAGATTCGCCA
Found at i:46280963 original size:44 final size:44
Alignment explanation
Indices: 46280913--46281120 Score: 251
Period size: 44 Copynumber: 4.7 Consensus size: 44
46280903 ATCTGCTATT
*
46280913 TTCAACCTACTCCACTGTTG-CTCAAGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGTTGAC-CAAGGAGATAGGACTT-ACAATC
* *
46280957 TTCAACCTATTCCACT-TCTGACCAGGGAGATATGACTTACAATC
1 TTCAACCTATTCCACTGT-TGACCAAGGAGATAGGACTTACAATC
* * * *
46281001 TTCAACCTATTCCACTGCTAACCAAGGAAATAGGACTTAGAATC
1 TTCAACCTATTCCACTGTTGACCAAGGAGATAGGACTTACAATC
* * *
46281045 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATT
1 TTCAACCTATTCCACTGTTGACCAAGGAGATAGGACTTACAATC
* * *
46281089 TTCAACATATTCCACTGCTGACCAGGGAGATA
1 TTCAACCTATTCCACTGTTGACCAAGGAGATA
46281121 AAGCTTTGTG
Statistics
Matches: 145, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.01
44 141 0.97
45 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGTTGACCAAGGAGATAGGACTTACAATC
Found at i:46281066 original size:88 final size:88
Alignment explanation
Indices: 46280913--46281112 Score: 278
Period size: 88 Copynumber: 2.3 Consensus size: 88
46280903 ATCTGCTATT
* ** * *
46280913 TTCAACCTACTCCACTG-TTGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTTCTG
1 TTCAACCTATTCCACTGCTAAC-CAAGGAAATAGGATTCACAATCTTCAACCTATTCCACTGCTG
*
46280977 ACCAGGGAGATATGACTTACAATC
65 ACCAGGGAGATAGGACTTACAATC
*
46281001 TTCAACCTATTCCACTGCTAACCAAGGAAATAGGACTT-AGAATCTTCAACCTATTCCACTGCTG
1 TTCAACCTATTCCACTGCTAACCAAGGAAATAGGA-TTCACAATCTTCAACCTATTCCACTGCTG
*
46281065 ACCAGGGAGATAGGACTTACAATT
65 ACCAGGGAGATAGGACTTACAATC
* *
46281089 TTCAACATATTCCACTGCTGACCA
1 TTCAACCTATTCCACTGCTAACCA
46281113 GGGAGATAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
88 96 0.96
89 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (88 bp):
TTCAACCTATTCCACTGCTAACCAAGGAAATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAGGACTTACAATC
Found at i:46282387 original size:10 final size:10
Alignment explanation
Indices: 46282363--46282400 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
46282353 TGGCCTCTCA
*
46282363 TTTTC-TTCC
1 TTTTCTTTCT
46282372 TTTTCTTTCT
1 TTTTCTTTCT
46282382 TTTTCTTTTCT
1 TTTTC-TTTCT
46282393 TTTTCTTT
1 TTTTCTTT
46282401 TCCTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 5 0.19
10 11 0.42
11 10 0.38
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:46282393 original size:11 final size:11
Alignment explanation
Indices: 46282372--46282408 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
46282362 ATTTTCTTCC
46282372 TTTTC-TTTCT
1 TTTTCTTTTCT
46282382 TTTTCTTTTCT
1 TTTTCTTTTCT
46282393 TTTTCTTTTCCT
1 TTTTCTTTT-CT
46282405 TTTT
1 TTTT
46282409 TCCATCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 5 0.20
11 14 0.56
12 6 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:46287646 original size:23 final size:22
Alignment explanation
Indices: 46287616--46287659 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46287606 AAATTAAATC
46287616 TCTAAGATTACAAAATCATATCT
1 TCTAAGATT-CAAAATCATATCT
*
46287639 TCTAAGATTCAATATCATATC
1 TCTAAGATTCAAAATCATATC
46287660 ACATCTAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (22 bp):
TCTAAGATTCAAAATCATATCT
Found at i:46287670 original size:24 final size:24
Alignment explanation
Indices: 46287616--46287702 Score: 82
Period size: 19 Copynumber: 3.9 Consensus size: 24
46287606 AAATTAAATC
* *
46287616 TCTAAGATTACAAAATCATAT-CT
1 TCTAAGATTACAATATCATATCCA
46287639 TCTAAGATT-CAATATCATATCACA
1 TCTAAGATTACAATATCATATC-CA
*
46287663 TCTAAGATTGC-ATATC--AT--A
1 TCTAAGATTACAATATCATATCCA
46287682 TCTAAGATTAC-ATATCATATC
1 TCTAAGATTACAATATCATATC
46287703 TAAGATTGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
19 16 0.29
21 2 0.04
22 12 0.22
23 9 0.16
24 15 0.27
25 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.36
Consensus pattern (24 bp):
TCTAAGATTACAATATCATATCCA
Found at i:46287678 original size:19 final size:19
Alignment explanation
Indices: 46287654--46287716 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
46287644 GATTCAATAT
*
46287654 CATATCACATCTAAGATTG
1 CATATCATATCTAAGATTG
*
46287673 CATATCATATCTAAGATTA
1 CATATCATATCTAAGATTG
46287692 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
46287711 CATATC
1 CATATC
46287717 CTTGAAGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:46289147 original size:31 final size:29
Alignment explanation
Indices: 46289112--46289177 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 29
46289102 ATTCAAAAAT
46289112 TATACACGAACTGTGATTTAATGTGCAATTG
1 TATACACGAACTGTGATTT--TGTGCAATTG
* * *
46289143 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACACGAACTGTGATTTTGTGCAATTG
46289172 TATACA
1 TATACA
46289178 TGAAATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 15 0.47
31 17 0.53
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (29 bp):
TATACACGAACTGTGATTTTGTGCAATTG
Found at i:46289166 original size:29 final size:30
Alignment explanation
Indices: 46289112--46289191 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
46289102 ATTCAAAAAT
* *
46289112 TATACACGAACTGTGATTTAATGTGCAATTG
1 TATACATGAACTTTGATTT-ATGTGCAATTG
*
46289143 TATACATGAACTTTGATTT-TGTGCAATTT
1 TATACATGAACTTTGATTTATGTGCAATTG
*
46289172 TATACATGAAATTTTGATTT
1 TATACATG-AACTTTGATTT
46289192 CATACAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 17 0.39
30 10 0.23
31 17 0.39
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATGTGCAATTG
Found at i:46289200 original size:30 final size:29
Alignment explanation
Indices: 46289137--46289200 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
46289127 ATTTAATGTG
** *
46289137 CAATTGTATACATGAACTTTGATTTTGTG
1 CAATTGTATACATGAACTTTGATTTCATA
* *
46289166 CAATTTTATACATGAAATTTTGATTTCATA
1 CAATTGTATACATG-AACTTTGATTTCATA
46289196 CAATT
1 CAATT
46289201 CTTTTAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (29 bp):
CAATTGTATACATGAACTTTGATTTCATA
Found at i:46292586 original size:25 final size:25
Alignment explanation
Indices: 46292558--46292624 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
46292548 CCAATAAATG
*
46292558 GCTCGCAAGAGCTTCCCGTTATGCA
1 GCTCGCAAGAGCTTCCCGTTATACA
* * **
46292583 GCTCACATGAGCTTCCCGTTATATG
1 GCTCGCAAGAGCTTCCCGTTATACA
*
46292608 GCTCGAAAGAGCTTCCC
1 GCTCGCAAGAGCTTCCC
46292625 ATTTACATGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.25
Consensus pattern (25 bp):
GCTCGCAAGAGCTTCCCGTTATACA
Found at i:46295510 original size:11 final size:11
Alignment explanation
Indices: 46295494--46295532 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
46295484 TATATTAACT
46295494 TAAAATATTAA
1 TAAAATATTAA
46295505 TAAAATATTTAAA
1 TAAAATA-TT-AA
*
46295518 TAAAATATTAT
1 TAAAATATTAA
46295529 TAAA
1 TAAA
46295533 TAATATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 12 0.48
12 4 0.16
13 9 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATATTAA
Found at i:46295521 original size:24 final size:25
Alignment explanation
Indices: 46295485--46295545 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
46295475 CCTTTCTTTT
*
46295485 ATATTAACTTAAAATATTAATAAAAT-
1 ATATTAA-ATAAAATATT-ATAAAATA
*
46295511 AT-TTAAATAAAATATTATTAAATA
1 ATATTAAATAAAATATTATAAAATA
46295535 ATATTAAATAA
1 ATATTAAATAA
46295546 TTTCACCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 6 0.19
24 11 0.35
25 12 0.39
26 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
ATATTAAATAAAATATTATAAAATA
Found at i:46295533 original size:15 final size:14
Alignment explanation
Indices: 46295484--46295535 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
46295474 TCCTTTCTTT
* *
46295484 TATATTAACTTAAA
1 TATATTAAATAAAA
46295498 -ATATT-AATAAAA
1 TATATTAAATAAAA
46295510 TAT-TTAAATAAAA
1 TATATTAAATAAAA
46295523 TATTATTAAATAA
1 TA-TATTAAATAA
46295536 TATTAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 7 0.22
13 16 0.50
14 1 0.03
15 8 0.25
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATTAAATAAAA
Found at i:46296079 original size:18 final size:18
Alignment explanation
Indices: 46296047--46296088 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
46296037 GTTTAGCAAT
46296047 TATTTTTATCATAA-TAA
1 TATTTTTATCATAATTAA
46296064 TAATTTTTAT-AGTAATTAA
1 T-ATTTTTATCA-TAATTAA
46296083 TATTTT
1 TATTTT
46296089 AAAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.09
18 16 0.73
19 4 0.18
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTTTATCATAATTAA
Found at i:46296435 original size:3 final size:3
Alignment explanation
Indices: 46296427--46296463 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
46296417 AGGTAAAGTC
46296427 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
46296464 CCAATCACTG
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:46298314 original size:25 final size:26
Alignment explanation
Indices: 46298264--46298323 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
46298254 AATTTTCTCG
*
46298264 AAATTTTATCGAGGGTAAAATCGTCA
1 AAATTTTATCCAGGGTAAAATCGTCA
* *
46298290 AAATTTTA-CCAGGGTAGAATTGTCA
1 AAATTTTATCCAGGGTAAAATCGTCA
46298315 AAATTTTAT
1 AAATTTTAT
46298324 TGGGGTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (26 bp):
AAATTTTATCCAGGGTAAAATCGTCA
Found at i:46298329 original size:25 final size:25
Alignment explanation
Indices: 46298264--46298335 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
46298254 AATTTTCTCG
46298264 AAATTTTATCGAGGGTAAAATCGTCA
1 AAATTTTATCG-GGGTAAAATCGTCA
* * * *
46298290 AAATTTTACCAGGGTAGAATTGTCA
1 AAATTTTATCGGGGTAAAATCGTCA
*
46298315 AAATTTTATTGGGGTGAAAAT
1 AAATTTTATCGGGGT-AAAAT
46298336 GAAGTGAGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 24 0.65
26 13 0.35
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (25 bp):
AAATTTTATCGGGGTAAAATCGTCA
Found at i:46303259 original size:20 final size:20
Alignment explanation
Indices: 46303234--46303274 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
46303224 GTGTATCGTA
46303234 TAGGAATGCAAATTAGTTGG
1 TAGGAATGCAAATTAGTTGG
46303254 TAGGAATGCAAATTAGTTGG
1 TAGGAATGCAAATTAGTTGG
46303274 T
1 T
46303275 TTAACAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (20 bp):
TAGGAATGCAAATTAGTTGG
Found at i:46304951 original size:174 final size:174
Alignment explanation
Indices: 46304654--46305001 Score: 615
Period size: 174 Copynumber: 2.0 Consensus size: 174
46304644 GTCATTCCGA
* ***
46304654 AATCCTCGAGTAAGAAGGGGAAAGACAAGGTTGACGTCGAGTAGCTCGAAATATATGGTTTGTGT
1 AATCCTCGAGTAAGAAGGGGAAAGACAAGGTTGACATCGAGTAGCTCGAAATATACAATTTGTGT
46304719 TTCTATAATCCAAACTAAATTATGAATTATTGCATATTGAATTGATTGTGTATGGTAAGTATTTG
66 TTCTATAATCCAAACTAAATTATGAATTATTGCATATTGAATTGATTGTGTATGGTAAGTATTTG
* * *
46304784 AGGTGAGAACTCTTGTACATTTGGATTGACTTGAATTTAATGAT
131 AAGTGAGAACTCTTGTACATTTGGATTAAATTGAATTTAATGAT
* *
46304828 AATCCTTGAGTAAGAAGGGGAAAGACAAGGTTGACATCTAGTAGCTCGAAATATACAATTTGTGT
1 AATCCTCGAGTAAGAAGGGGAAAGACAAGGTTGACATCGAGTAGCTCGAAATATACAATTTGTGT
46304893 TTCTATAATCCAAACTAAATTATGAATTATTGCATATTGAATTGATTGTGTATGGTAAGTATTTG
66 TTCTATAATCCAAACTAAATTATGAATTATTGCATATTGAATTGATTGTGTATGGTAAGTATTTG
46304958 AAGTGAGAACTCTTGTACATTTGGATTAAATTGAATTTAATGAT
131 AAGTGAGAACTCTTGTACATTTGGATTAAATTGAATTTAATGAT
46305002 GATTGAAATG
Statistics
Matches: 165, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 165 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (174 bp):
AATCCTCGAGTAAGAAGGGGAAAGACAAGGTTGACATCGAGTAGCTCGAAATATACAATTTGTGT
TTCTATAATCCAAACTAAATTATGAATTATTGCATATTGAATTGATTGTGTATGGTAAGTATTTG
AAGTGAGAACTCTTGTACATTTGGATTAAATTGAATTTAATGAT
Found at i:46305507 original size:18 final size:19
Alignment explanation
Indices: 46305481--46305517 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
46305471 AATGACTAAG
46305481 GATGAGAAATGGAA-ATGA
1 GATGAGAAATGGAATATGA
*
46305499 GATGTGAAATGGAATATGA
1 GATGAGAAATGGAATATGA
46305518 AATGGTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.22
Consensus pattern (19 bp):
GATGAGAAATGGAATATGA
Found at i:46309400 original size:21 final size:22
Alignment explanation
Indices: 46309354--46309400 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
46309344 TCTTAACGAA
* * *
46309354 ATTCCAATTTCCCTATTTCTTC
1 ATTCCAATTCCCCCATTTCATC
46309376 -TTCC-ATTCCCCCATTTCATC
1 ATTCCAATTCCCCCATTTCATC
46309396 ATTCC
1 ATTCC
46309401 TAACCTTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.17, C:0.38, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTCCAATTCCCCCATTTCATC
Found at i:46316539 original size:27 final size:27
Alignment explanation
Indices: 46316501--46316576 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
46316491 GTATTCTTCG
46316501 TGTTTACTGTCCTAACGGATTACCCCA
1 TGTTTACTGTCCTAACGGATTACCCCA
* * * * *
46316528 TGTTTATTGTCCTCACGAACTACCCTA
1 TGTTTACTGTCCTAACGGATTACCCCA
* *
46316555 TGTTTACTGTCCTGACTGATTA
1 TGTTTACTGTCCTAACGGATTA
46316577 TACTGATTGC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.38
Consensus pattern (27 bp):
TGTTTACTGTCCTAACGGATTACCCCA
Found at i:46318321 original size:19 final size:19
Alignment explanation
Indices: 46318280--46318328 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
46318270 TTCACATCCA
*
46318280 ATTTCACGATTTCATATTAC
1 ATTTCAC-ATCTCATATTAC
* *
46318300 ATTTCACATCTCATTTTCC
1 ATTTCACATCTCATATTAC
*
46318319 ATTTCTCATC
1 ATTTCACATC
46318329 CTTATCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTTCACATCTCATATTAC
Found at i:46319517 original size:3 final size:3
Alignment explanation
Indices: 46319509--46319539 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
46319499 TACCATTACC
46319509 TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
46319540 ACATTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:46321548 original size:18 final size:16
Alignment explanation
Indices: 46321524--46321567 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 16
46321514 AAATGACTCA
46321524 GAAATTAATTTATATAT
1 GAAATTAATTTA-ATAT
46321541 GTAAATTATTATTTAATAT
1 G-AAATTA--ATTTAATAT
46321560 GAAATTAA
1 GAAATTAA
46321568 ATAATTGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.04
17 1 0.04
18 12 0.50
19 5 0.21
20 5 0.21
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (16 bp):
GAAATTAATTTAATAT
Found at i:46325392 original size:13 final size:13
Alignment explanation
Indices: 46325374--46325398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46325364 ATATACATAA
46325374 AAAATTATTAAAT
1 AAAATTATTAAAT
46325387 AAAATTATTAAA
1 AAAATTATTAAA
46325399 AAATTATATT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATTATTAAAT
Found at i:46325408 original size:13 final size:11
Alignment explanation
Indices: 46325371--46325405 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
46325361 GTTATATACA
46325371 TAAAAAATTAT
1 TAAAAAATTAT
46325382 TAAATAAAATTAT
1 T-AA-AAAATTAT
46325395 TAAAAAATTAT
1 TAAAAAATTAT
46325406 ATTGACAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.41
12 4 0.18
13 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAAAATTAT
Found at i:46325528 original size:17 final size:17
Alignment explanation
Indices: 46325508--46325542 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46325498 TAACAAGCAC
46325508 ATTAA-TTATTTTATTTT
1 ATTAACTTA-TTTATTTT
46325525 ATTAACTTATTTATTTT
1 ATTAACTTATTTATTTT
46325542 A
1 A
46325543 AGTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTAACTTATTTATTTT
Found at i:46344361 original size:18 final size:18
Alignment explanation
Indices: 46344308--46344361 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
46344298 CAATAAGAAA
46344308 AATGTTTT-GAAATTGAAT
1 AATGTTTTGGAAA-TGAAT
* * *
46344326 AACGATTTGTAAATGAAT
1 AATGTTTTGGAAATGAAT
*
46344344 AATGTTTTGGAAACGAAT
1 AATGTTTTGGAAATGAAT
46344362 GGCGCGATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.37
Consensus pattern (18 bp):
AATGTTTTGGAAATGAAT
Found at i:46345434 original size:3 final size:3
Alignment explanation
Indices: 46345426--46345490 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
46345416 AAACTAACCA
46345426 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46345474 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
46345491 CTACTACTAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:46346151 original size:20 final size:20
Alignment explanation
Indices: 46346126--46346163 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
46346116 GATGCAAAAT
46346126 AGAGGCACAGATGTGCAAAC
1 AGAGGCACAGATGTGCAAAC
46346146 AGAGGCACAGATGTGCAA
1 AGAGGCACAGATGTGCAA
46346164 GCATAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.18, G:0.32, T:0.11
Consensus pattern (20 bp):
AGAGGCACAGATGTGCAAAC
Found at i:46348597 original size:38 final size:39
Alignment explanation
Indices: 46348516--46348597 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 39
46348506 TTAAATTTAA
*
46348516 TATTAAGATAATCACTTTAATATTAAATTAATAAAATAC
1 TATTAAGATAATCACTTTAATATTAAACTAATAAAATAC
* * * *
46348555 TATTAAGATAAGT-A-TTTACTATTGAACTATTAAAATAT
1 TATTAAGATAA-TCACTTTAATATTAAACTAATAAAATAC
46348593 TATTA
1 TATTA
46348598 TTTTTGGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 24 0.65
39 12 0.32
40 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (39 bp):
TATTAAGATAATCACTTTAATATTAAACTAATAAAATAC
Found at i:46352993 original size:20 final size:20
Alignment explanation
Indices: 46352970--46353008 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46352960 TTTGCTATTG
46352970 TTTCCATTATTTTGCTGCTA
1 TTTCCATTATTTTGCTGCTA
* * *
46352990 TTTCTATTGTTTTGTTGCT
1 TTTCCATTATTTTGCTGCT
46353009 GTGTTTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.10, C:0.15, G:0.13, T:0.62
Consensus pattern (20 bp):
TTTCCATTATTTTGCTGCTA
Found at i:46353028 original size:21 final size:23
Alignment explanation
Indices: 46352976--46353029 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
46352966 ATTGTTTCCA
46352976 TTATTTTGCTGCTATTTCTATTG
1 TTATTTTGCTGCTATTTCTATTG
* *
46352999 TT-TTGTTGCTG-TGTTT-TTTTG
1 TTATT-TTGCTGCTATTTCTATTG
46353020 TTATTTTGCT
1 TTATTTTGCT
46353030 ATTATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 11 0.41
22 8 0.30
23 8 0.30
ACGTcount: A:0.07, C:0.09, G:0.17, T:0.67
Consensus pattern (23 bp):
TTATTTTGCTGCTATTTCTATTG
Found at i:46353880 original size:19 final size:20
Alignment explanation
Indices: 46353847--46353885 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
46353837 AAATGTGTAA
46353847 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
46353867 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
46353886 GCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:46353894 original size:19 final size:20
Alignment explanation
Indices: 46353848--46353886 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
46353838 AATGTGTAAT
*
46353848 AATAATAAACATATGTATTT
1 AATAATAAACATATGTATTG
46353868 AATAATAAA-ATATGTATTG
1 AATAATAAACATATGTATTG
46353887 CTTAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (20 bp):
AATAATAAACATATGTATTG
Found at i:46354743 original size:24 final size:24
Alignment explanation
Indices: 46354707--46354753 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
46354697 ATTAAAATAG
46354707 ATTGATTTAATATGTGA-TGAATTT
1 ATTGATTTAATAT-TGATTGAATTT
46354731 ATTGAATTT-ATATTGATTGAATT
1 ATTG-ATTTAATATTGATTGAATT
46354754 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 14 0.67
25 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGATTTAATATTGATTGAATTT
Found at i:46355033 original size:40 final size:40
Alignment explanation
Indices: 46354912--46355046 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 40
46354902 GACTTTGAGT
* * * **
46354912 CGATGAGACATTGGGTGTCAATTTATTACTTCGAATTAATT
1 CGATGAGACACTAGGTGTCAAATTATTACTTCGAATT-ACC
* * * ** *
46354953 TGATGAGGCACTAGGTG-CCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTAGGTGTCAAATTATTACTTCGAATTACC
46354990 CGATGAGACACTAGGTGTCAAATTATTACTTCGAATTACC
1 CGATGAGACACTAGGTGTCAAATTATTACTTCGAATTACC
* *
46355030 CGATGAGGCACTGGGTG
1 CGATGAGACACTAGGTG
46355047 AAAAACTGGT
Statistics
Matches: 73, Mismatches: 18, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
37 16 0.22
38 13 0.18
39 2 0.03
40 29 0.40
41 13 0.18
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTAGGTGTCAAATTATTACTTCGAATTACC
Found at i:46359327 original size:27 final size:27
Alignment explanation
Indices: 46359289--46359403 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
46359279 ATTCATAGGC
*
46359289 AAATGACAGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
46359316 AAATAACCGAAATACCTTCGAAGGATA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
46359343 AAATGACTGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
46359370 AAATGATCGAAATACCC-CCATAAGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
46359397 AAATGAC
1 AAATGAC
46359404 TGTTATACCC
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.03
27 71 0.97
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:46359413 original size:54 final size:54
Alignment explanation
Indices: 46359289--46359405 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
46359279 ATTCATAGGC
* * **
46359289 AAATGACAGAAATACCCTCGAAGGGTAAAATAACCGAAATACCTTCGAAGGATA
1 AAATGACTGAAATACCCCCGAAGGGTAAAATAACCGAAATACCCCCGAAGGATA
* * *
46359343 AAATGACTGAAATACCCCCGAAGGGTAAAATGATCGAAATACCCCCATAAGG-TA
1 AAATGACTGAAATACCCCCGAAGGGTAAAATAACCGAAATACCCCC-GAAGGATA
46359397 AAATGACTG
1 AAATGACTG
46359406 TTATACCCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 51 0.93
55 4 0.07
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (54 bp):
AAATGACTGAAATACCCCCGAAGGGTAAAATAACCGAAATACCCCCGAAGGATA
Found at i:46359824 original size:28 final size:28
Alignment explanation
Indices: 46359790--46359856 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
46359780 CTCATTTTAC
46359790 ACTGTTACTGCTTAAGGCTAAGGCCCAG
1 ACTGTTACTGCTTAAGGCTAAGGCCCAG
*
46359818 ACTGTTACTGCTTAAGGCTCAGGCCCAG
1 ACTGTTACTGCTTAAGGCTAAGGCCCAG
*
46359846 ACTATTACTGC
1 ACTGTTACTGC
46359857 ATGTCGTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (28 bp):
ACTGTTACTGCTTAAGGCTAAGGCCCAG
Found at i:46362304 original size:41 final size:41
Alignment explanation
Indices: 46362259--46362338 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
46362249 TTATATAAAA
* *
46362259 CACCGGCATAAAGCCTGCTAGACACAAAGTCTGATACATTT
1 CACCGGCACAAAGCCTGCTAGACACAAAGCCTGATACATTT
* * *
46362300 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGATACAT
1 CACCGGCACAAAGCCTGCTAGACACAAAGCCTGATACAT
46362339 GAGCCTGCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.19
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGACACAAAGCCTGATACATTT
Found at i:46362330 original size:16 final size:16
Alignment explanation
Indices: 46362311--46362361 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
46362301 ACCGGCACAG
46362311 AGCCTGCTAGGCATAA
1 AGCCTGCTAGGCATAA
* *
46362327 AGCCTGATA--CAT-G
1 AGCCTGCTAGGCATAA
46362340 AGCCTGCTAGGCATAA
1 AGCCTGCTAGGCATAA
46362356 AGCCTG
1 AGCCTG
46362362 ATACATTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 8 0.29
14 3 0.11
15 3 0.11
16 14 0.50
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.20
Consensus pattern (16 bp):
AGCCTGCTAGGCATAA
Found at i:46362352 original size:29 final size:29
Alignment explanation
Indices: 46362310--46362367 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
46362300 CACCGGCACA
46362310 GAGCCTGCTAGGCATAAAGCCTGATACAT
1 GAGCCTGCTAGGCATAAAGCCTGATACAT
46362339 GAGCCTGCTAGGCATAAAGCCTGATACAT
1 GAGCCTGCTAGGCATAAAGCCTGATACAT
46362368 TTCATCGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (29 bp):
GAGCCTGCTAGGCATAAAGCCTGATACAT
Found at i:46362363 original size:70 final size:70
Alignment explanation
Indices: 46362270--46362408 Score: 233
Period size: 70 Copynumber: 2.0 Consensus size: 70
46362260 ACCGGCATAA
* *
46362270 AGCCTGCTAGACACAAAGTCTGATACATTTCACCGGCACAGAGCCTGCTAGGCATAAAGCCTGAT
1 AGCCTGCTAGACACAAAGCCTGATACATTTCACCGGCACAGAGCCTGCTAGGCATAAAGCCTAAT
46362335 ACATG
66 ACATG
* * *
46362340 AGCCTGCTAGGCATAAAGCCTGATACATTTCATCGGCACAGAGCCTGCTAGGCATAAAGCCTAAT
1 AGCCTGCTAGACACAAAGCCTGATACATTTCACCGGCACAGAGCCTGCTAGGCATAAAGCCTAAT
46362405 ACAT
66 ACAT
46362409 TTCACCGGCA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (70 bp):
AGCCTGCTAGACACAAAGCCTGATACATTTCACCGGCACAGAGCCTGCTAGGCATAAAGCCTAAT
ACATG
Found at i:46362385 original size:41 final size:41
Alignment explanation
Indices: 46362339--46362482 Score: 243
Period size: 41 Copynumber: 3.5 Consensus size: 41
46362329 CCTGATACAT
* *
46362339 GAGCCTGCTAGGCATAAAGCCTGATACATTTCATCGGCACA
1 GAGCCTGCTAGGCATAAAGCCTAATACATTTCACCGGCACA
46362380 GAGCCTGCTAGGCATAAAGCCTAATACATTTCACCGGCACA
1 GAGCCTGCTAGGCATAAAGCCTAATACATTTCACCGGCACA
* *
46362421 GAGCCTGCTAGGCATAAAGCCCAATACATTTCACCGACACA
1 GAGCCTGCTAGGCATAAAGCCTAATACATTTCACCGGCACA
*
46362462 GAGCTTGCTAGGCATAAAGCC
1 GAGCCTGCTAGGCATAAAGCC
46362483 CGAACTTACA
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.19
Consensus pattern (41 bp):
GAGCCTGCTAGGCATAAAGCCTAATACATTTCACCGGCACA
Found at i:46362698 original size:47 final size:49
Alignment explanation
Indices: 46362622--46362732 Score: 127
Period size: 47 Copynumber: 2.3 Consensus size: 49
46362612 ATATATATAT
* * * * **
46362622 ATATATATATATATTCGGCCATAGTTTAATTCATTTCTCTGCATAAC-A
1 ATATACATATACATTCAGCCATAGATTAATTCATTTCAATGCATAACAA
* *
46362670 AT-TACATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAA
1 ATATACATATACATTCAGCCATAGATTAATTCATTTCAATGCATAACAA
*
46362718 ATATATATATACATT
1 ATATACATATACATT
46362733 GGTAGTTAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
47 36 0.69
48 5 0.10
49 11 0.21
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (49 bp):
ATATACATATACATTCAGCCATAGATTAATTCATTTCAATGCATAACAA
Found at i:46362961 original size:91 final size:91
Alignment explanation
Indices: 46362806--46362987 Score: 355
Period size: 91 Copynumber: 2.0 Consensus size: 91
46362796 GCTATTCGAC
*
46362806 CACTTTGTCTTTCCCTGATCCAAATTTGACTTCTTTAATTCTTGATCTAAATAAATTCAAATTAA
1 CACTTTGTCTTTCCCCGATCCAAATTTGACTTCTTTAATTCTTGATCTAAATAAATTCAAATTAA
46362871 ACTTATTTAAACATTATTCCATCAAA
66 ACTTATTTAAACATTATTCCATCAAA
46362897 CACTTTGTCTTTCCCCGATCCAAATTTGACTTCTTTAATTCTTGATCTAAATAAATTCAAATTAA
1 CACTTTGTCTTTCCCCGATCCAAATTTGACTTCTTTAATTCTTGATCTAAATAAATTCAAATTAA
46362962 ACTTATTTAAACATTATTCCATCAAA
66 ACTTATTTAAACATTATTCCATCAAA
46362988 TTTAGCCTAA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.41
Consensus pattern (91 bp):
CACTTTGTCTTTCCCCGATCCAAATTTGACTTCTTTAATTCTTGATCTAAATAAATTCAAATTAA
ACTTATTTAAACATTATTCCATCAAA
Found at i:46369122 original size:20 final size:21
Alignment explanation
Indices: 46369081--46369134 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
46369071 ACACACCTTT
* *
46369081 AATTAGAA-AAGAGATTATATA
1 AATTAGAATAA-AAATTAAATA
46369102 AATTA-AATAAAAATTAAATA
1 AATTAGAATAAAAATTAAATA
46369122 AATTAGAATAAAA
1 AATTAGAATAAAA
46369135 TTTATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (21 bp):
AATTAGAATAAAAATTAAATA
Found at i:46386448 original size:21 final size:20
Alignment explanation
Indices: 46386424--46386463 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
46386414 AAATAATTTA
*
46386424 ATATAAATTATATATGTATAT
1 ATATAAATAATAT-TGTATAT
46386445 ATATAAATAATATTGTATA
1 ATATAAATAATATTGTATA
46386464 AAAACATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATAAATAATATTGTATAT
Found at i:46387403 original size:18 final size:18
Alignment explanation
Indices: 46387376--46387410 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46387366 TTATAGCCGA
*
46387376 AAAATGAAAAAAGAAAAT
1 AAAATCAAAAAAGAAAAT
*
46387394 AAAATCAAAAAATAAAA
1 AAAATCAAAAAAGAAAA
46387411 GGAAATCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.03, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAATCAAAAAAGAAAAT
Found at i:46398048 original size:3 final size:3
Alignment explanation
Indices: 46398040--46398108 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
46398030 AAAATGAGGA
* * * * *
46398040 AAT AAT AAT AAT AAT AGT AGT AGT AAT AAT AAT AGT -GT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
46398086 AGT AAT AAT AAT ATT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
46398109 TAATTTAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
2 6 0.11
3 49 0.89
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:46398086 original size:13 final size:15
Alignment explanation
Indices: 46398048--46398098 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
46398038 GAAATAATAA
*
46398048 TAATAATAGTAGTAG
1 TAATAATAATAGTAG
46398063 TAATAATAATAGT-G
1 TAATAATAATAGTAG
*
46398077 TAAT-ATAATAGTAA
1 TAATAATAATAGTAG
46398091 TAATAATA
1 TAATAATA
46398099 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
TAATAATAATAGTAG
Found at i:46399932 original size:40 final size:40
Alignment explanation
Indices: 46399888--46400039 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
46399878 GTGTTTTTAG
*
46399888 TCTGCTCCACTACTATTTAGGGAGATAAGACTGGATGTGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGA
*
46399928 TCTGCTCCACTACTACTTAGGGAGATAAGATCTATGG-TTTCG-
1 TCTGCTCCACTACTACTTAGGGAGATAAGA-C--TGGATGT-GA
* * ** *
46399970 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTAATGCGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGA
* *
46400010 TCTACTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGA
46400040 TTGTAATCTT
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
39 2 0.02
40 58 0.60
41 2 0.02
42 30 0.31
43 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGA
Found at i:46399990 original size:82 final size:82
Alignment explanation
Indices: 46399887--46400040 Score: 236
Period size: 82 Copynumber: 1.9 Consensus size: 82
46399877 TGTGTTTTTA
* * * *
46399887 GTCTGCTCCACTACTATTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACTACTTAGGGAG
1 GTCTGCTCCACTACTACTTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGGAG
46399952 ATAAGATCTATGGTTTC
66 ATAAGATCTATGGTTTC
* * * *
46399969 GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTAATGCGATCTACTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTACTTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGGAG
46400034 ATAAGAT
66 ATAAGAT
46400041 TGTAATCTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (82 bp):
GTCTGCTCCACTACTACTTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGGAG
ATAAGATCTATGGTTTC
Found at i:46400291 original size:130 final size:131
Alignment explanation
Indices: 46400014--46400661 Score: 846
Period size: 130 Copynumber: 5.0 Consensus size: 131
46400004 ATGCGATCTA
* * ** *
46400014 CTCCACTACTGCTTAGGGAGATAAGAT-TGTAATCTT-AGATCTATTCTACTG--TTTCCCAGGG
1 CTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCA-ATCTATTCCACTGCAAAT-ACAGGG
** * * * *
46400075 A-AGTAGAACTACCAGCTTTAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCAA
64 AGA-TAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCGTCTTCAA
46400139 CCTG
128 CCTG
46400143 CTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGA
1 CTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTG-CAAATACAGGGA
* ** **
46400208 GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGTGGT-TTC-GTC
65 GATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCGTCTTCAACC
46400271 TG
130 TG
* *
46400273 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTCAAATACAGGGA
1 CTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTG-CAAATACAGGGA
*
46400338 GATAGAGTTATCAGCTTCAATGTACTTCACTGTAGTCACAGGGAGGTAAAATCTGCCGTCTTCAA
65 GATAGAGTTATCAGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCGTCTTCAA
46400403 CCTG
128 CCTG
* * *****
46400407 CTCCACTATTGCTTAGGGAGAT-AGATCTATAATCTTCGATCTATTCCACTG-TTGCCCAGGGAG
1 CTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCAAATACAGGGAG
** * * * *
46400470 ATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCGACCT
66 ATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCGTCTTCAACCT
46400535 G
131 G
46400536 CTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGA
1 CTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTG-CAAATACAGGGA
* * *
46400601 GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAACTCTGCCATCTTC
65 GATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCGTCTTC
46400662 GATCTTCAAT
Statistics
Matches: 452, Mismatches: 54, Indels: 23
0.85 0.10 0.04
Matches are distributed among these distances:
129 77 0.17
130 147 0.33
131 41 0.09
132 130 0.29
133 33 0.07
134 24 0.05
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (131 bp):
CTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCAAATACAGGGAG
ATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCGTCTTCAACCT
G
Found at i:46400498 original size:43 final size:43
Alignment explanation
Indices: 46400331--46400501 Score: 110
Period size: 43 Copynumber: 3.9 Consensus size: 43
46400321 ACTGTCAAAT
** * * * *
46400331 ACAGGGAGATAGAGTTATCAGCTTCAATGTACTTCACTGTAGTC
1 ACAGGGAGATAGAACTACCAGCTTCAATCTACTCCACTGTTG-C
* * * * * *
46400375 ACAGGGAGGTAAAATCTGCC-GTCTTCAACCTGCTCCACTATTGC
1 ACAGGGAGATAGAA-CTACCAG-CTTCAATCTACTCCACTGTTGC
** * ** * * *
46400419 TTAGGGAGATAGATCTATAATCTTCGATCTATTCCACTGTTGC
1 ACAGGGAGATAGAACTACCAGCTTCAATCTACTCCACTGTTGC
* *
46400462 CCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGT
1 ACAGGGAGATAGAACTACCAGCTTCAATCTACTCCACTGT
46400502 AATCAGGGAG
Statistics
Matches: 89, Mismatches: 35, Indels: 7
0.68 0.27 0.05
Matches are distributed among these distances:
43 50 0.56
44 22 0.25
45 17 0.19
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
ACAGGGAGATAGAACTACCAGCTTCAATCTACTCCACTGTTGC
Found at i:46400565 original size:263 final size:261
Alignment explanation
Indices: 46400014--46400661 Score: 887
Period size: 263 Copynumber: 2.5 Consensus size: 261
46400004 ATGCGATCTA
* * * *
46400014 CTCCACTACTGCTTAGGGAGATAAGAT-TGTAATCTTAGATCTATTCTACTGT---TTCCCAGGG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTCAAAT-ACAGGG
** * * * *
46400075 A-AGTAGAACTACCAGCTTTAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCAA
65 AGA-TAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCGTCTTCAA
* *
46400139 CCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACA
129 CCTGCTCCACTATTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTG-CAAACACA
** * * * * **
46400204 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGTGGTTTCG
193 GGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTTTCG
*
46400269 TCTG
258 CCTG
46400273 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTCAAATACAGGGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTCAAATACAGGGA
*
46400338 GATAGAGTTATCAGCTTCAATGTACTTCACTGTAGTCACAGGGAGGTAAAATCTGCCGTCTTCAA
66 GATAGAGTTATCAGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCGTCTTCAA
* *** *
46400403 CCTGCTCCACTATTGCTTAGGGAGAT-AGATCTATAATCTTCGATCTATTCCACTG-TTGCCCAG
129 CCTGCTCCACTATTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCAAACACAG
46400466 GGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCG
194 GGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGT-TTCG
46400531 ACCTG
258 -CCTG
* * *
46400536 CTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTCAAATACAGGGA
* * *
46400601 GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAACTCTGCCATCTTC
66 GATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCGTCTTC
46400662 GATCTTCAAT
Statistics
Matches: 346, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
259 27 0.08
260 23 0.07
261 78 0.23
262 38 0.11
263 128 0.37
264 52 0.15
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (261 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTCAAATACAGGGA
GATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCGTCTTCAACC
TGCTCCACTATTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCAAACACAGGG
AGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTTTCGCCT
G
Found at i:46400630 original size:45 final size:45
Alignment explanation
Indices: 46400570--46400725 Score: 129
Period size: 45 Copynumber: 3.4 Consensus size: 45
46400560 GATCTGTAAT
*
46400570 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
46400615 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAACTCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---A---TCG-G
*
46400665 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
46400710 CTTCAATGTACTCCAC
1 CTTCAATCTACTCCAC
46400726 CGTAGTCAGG
Statistics
Matches: 82, Mismatches: 18, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
42 11 0.13
43 3 0.04
45 30 0.37
46 4 0.05
49 4 0.05
50 16 0.20
52 3 0.04
53 11 0.13
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:46400674 original size:95 final size:95
Alignment explanation
Indices: 46400568--46400761 Score: 361
Period size: 95 Copynumber: 2.0 Consensus size: 95
46400558 AAGATCTGTA
*
46400568 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACCG
*
46400633 TAGTCAGGGAGGTAAACTCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
46400663 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACCG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACCG
*
46400728 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
46400758 ATCT
1 ATCT
46400762 GTTTCGCTGC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACCG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:46400952 original size:46 final size:46
Alignment explanation
Indices: 46400663--46401099 Score: 170
Period size: 46 Copynumber: 9.7 Consensus size: 46
46400653 GCCATCTTCG
* * *
46400663 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTA-AGATCTGCA
** * * ** * * *
46400708 GGCTTCAATGTACTCCAC--CGTAGT-CAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
** * * * * * *
46400751 ATCTTTGATCTGTTTCGCTGCCAAATACAAGAAGGCAAGATCTGCA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
* * *
46400797 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTA-AGATCTGCA
** * * * *** * *
46400842 GGCTTCAATGTACTCCATTG--TGGT-CAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
** * * * *
46400885 ATCTTTGATCTGCTT-CGCTGCCAAATACAGGAAGGCAAGATCTGCA
1 ATCTTCAATCT-ATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
* * *
46400931 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTA-AGATCTGCA
** * * * *** * * *
46400976 GGCTTCAGTGTACTCCACTG--TGGT-CAGGGAGATAAAATCTGCC
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
** * * * *
46401019 ATCTTTTGATCTGCTT-CGCTGCCAAATACAGGAAGGCAAGATCTGCA
1 ATC-TTCAATCT-ATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
46401066 ATCTTCAATCTATTCCACTGCCAAATACAGGGAG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAG
46401100 ATAGAGTTAT
Statistics
Matches: 261, Mismatches: 109, Indels: 43
0.63 0.26 0.10
Matches are distributed among these distances:
41 9 0.03
42 31 0.12
43 24 0.09
44 9 0.03
45 53 0.20
46 110 0.42
47 25 0.10
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (46 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGGTAAGATCTGCA
Found at i:46401123 original size:135 final size:134
Alignment explanation
Indices: 46400663--46401166 Score: 882
Period size: 134 Copynumber: 3.7 Consensus size: 134
46400653 GCCATCTTCG
*
46400663 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACCG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
46400728 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGTTTCGCTGCCAAATACAAGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
46400793 TGCA
131 TGCA
*
46400797 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCATTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
46400862 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
46400927 TGCA
131 TGCA
*
46400931 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
46400996 TGGTCAGGGAGATAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGAT
66 TAGTCAGGGAGGTAAAATCTGCCATC-TTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGAT
46401061 CTGCA
130 CTGCA
* *
46401066 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTTAATGTACTCTACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
46401131 TAGTCACATGGAGGTAAAATCTGCCATCTTTGATCT
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTGATCT
46401167 TCAATCTATT
Statistics
Matches: 353, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
134 217 0.61
135 108 0.31
136 8 0.02
137 20 0.06
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:46401233 original size:500 final size:487
Alignment explanation
Indices: 46400175--46401261 Score: 1358
Period size: 500 Copynumber: 2.2 Consensus size: 487
46400165 AAGATCTGTA
46400175 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*** * *** * * * *
46400240 TAGTCAGGGAGGTAAAATCTGTGGT-TTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACAAATCAAGAAGACAAGATCTG
* * * *
46400303 TAATCTTCGATCTATTCCACTGTCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTTCAC
131 CAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCAC
* * * * *
46400368 TGTAGTCACAGGGAGGTAAAATCTGCCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAGAT
196 TGTAGT-ACAGGGAGGTAAAATCTGCCATCTTCAACCTGCTCCACAAATAC-TAGGAAGATAGAT
* * *** *
46400433 CTATAATCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCA
259 CTACAATCTTCAATCTATTCCACTGAAACACAGGGAGATAGAACTACCAGCTTCAATGTACTCCA
* * * * * * *
46400498 CTGTAATCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGAT
324 CTGTAATCAGGGAGATAAAATCCGCCATCTTCGACCTGCTCCACAAATAC-TAGGAAGACAAGAT
*
46400563 CTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTC
388 CTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTC
*
46400628 CACTGTAGTCAGGGAGGTAAACTCTGCCATCTTCG
453 CACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
*
46400663 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACCG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* * * * *
46400728 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGTTTCGCTGCCAAATACAAGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT-ACAAAT-CAAGAAGACAAGATC
*
46400793 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC
129 TGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCC
* * ** * *
46400858 ATTGTGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC-AGGAAGGC
194 ACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCAACCTGC-TC-C--ACAAATACTAGGAA-G-
* * ** * * *
46400921 A-AGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGT
253 ATAGATCTACAATCTTCAATCTATTCCACTG--AAACACAGGGAGATAGAACTACCAGCTTCAAT
** * * * *
46400985 GTACTCCACTGTGGTCAGGGAGATAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATAC-A
316 GTACTCCACTGTAATCAGGGAGATAAAATCCGCCATC-TTCGACCTGC-TC-C--ACAAATACTA
*
46401049 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
376 GGAAGACAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
* * * *
46401114 TTTAATGTACTCTACTGTAGTCACATGGAGGTAAAATCTGCCATCTTTG
441 TTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCTTCG
46401163 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
46401228 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
46401262 TCAATCTATT
Statistics
Matches: 513, Mismatches: 67, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
488 86 0.17
489 3 0.01
490 36 0.07
491 4 0.01
492 81 0.16
493 27 0.05
494 5 0.01
495 54 0.11
496 8 0.02
497 2 0.00
498 82 0.16
500 125 0.24
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (487 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACAAATCAAGAAGACAAGATCTG
CAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCAC
TGTAGTACAGGGAGGTAAAATCTGCCATCTTCAACCTGCTCCACAAATACTAGGAAGATAGATCT
ACAATCTTCAATCTATTCCACTGAAACACAGGGAGATAGAACTACCAGCTTCAATGTACTCCACT
GTAATCAGGGAGATAAAATCCGCCATCTTCGACCTGCTCCACAAATACTAGGAAGACAAGATCTG
CAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCAC
TGTAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:46401348 original size:182 final size:188
Alignment explanation
Indices: 46401066--46401444 Score: 626
Period size: 182 Copynumber: 2.0 Consensus size: 188
46401056 AAGATCTGCA
* *
46401066 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTTAATGTACTCTACTG
1 ATCTTCAATCTATTCCACTGCCAAATACA-GGAG--AGAG-TATCGGCTTCAATGTACTCCACTG
*
46401131 TAGTCACATGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGA
62 TAGT-ACAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGA
46401196 GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATC-TTTG
126 GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTTG
*
46401258 ATCTTCAATCTATTCCACTGCCAAATGCA-G-G-GAG-ATCGGCTTCAATGTACTCCACTGTAGT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGAGAGAGTATCGGCTTCAATGTACTCCACTGTAGT
*
46401319 -CAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAG
66 ACAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
46401383 AGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTTG
131 AGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTTG
46401441 ATCT
1 ATCT
46401445 GCTTCGCTGC
Statistics
Matches: 181, Mismatches: 5, Indels: 11
0.92 0.03 0.06
Matches are distributed among these distances:
182 115 0.64
183 8 0.04
184 25 0.14
186 3 0.02
189 1 0.01
190 1 0.01
192 28 0.15
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (188 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGAGAGAGTATCGGCTTCAATGTACTCCACTGTAGT
ACAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
AGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTTG
Done.