Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 216 of 240
Found at i:65144096 original size:18 final size:17
Alignment explanation
Indices: 65144075--65144109 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65144065 TTATTATTAA
65144075 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
65144093 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
65144110 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:65144172 original size:17 final size:16
Alignment explanation
Indices: 65144150--65144196 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
65144140 ACTCAAATCA
65144150 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
65144167 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
65144181 TAAATATATGATTTAA
1 T-AATATATGATTTAA
65144197 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:65144197 original size:17 final size:17
Alignment explanation
Indices: 65144169--65144202 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65144159 ATTATAACTA
*
65144169 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
65144186 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
65144203 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:65152397 original size:210 final size:210
Alignment explanation
Indices: 65152035--65152434 Score: 579
Period size: 210 Copynumber: 1.9 Consensus size: 210
65152025 AAGACTGCTC
* * * * **
65152035 AGATTTCCGATTGAAATAGGTAGCTCTTTAATGCCCGTCCCATCTAAATAAAGCTCTAGCAGGCA
1 AGATTTCCGATCGAAATAGGTAGCTCTTTAATGCCCGTCCCATCTAAACAAAGCTCCAACAAACA
* *
65152100 TTCCATTTTGCCATCAATCTCTGGAAAGCTTTTAAGATTGGAGCAACCTGAAAGAATTAACTTTT
66 TTCCATTTTCCCATCAATCTCTGGAAAGCTTTGAAGATTGGAGCAACCTGAAAGAATTAACTTTT
* * * *
65152165 CAAGAGATTCCATTCCAATTTTGATTGGAAGACTCCTAAGACTTTTGCAGTCTTTTAAATTCAAT
131 CAAGAGATTCCATACCAATTTTGATTGGAAAACTCCTAAGACTTTTGCAGCCTCTTAAATTCAAT
65152230 AGTTCAAGTCTTCTG
196 AGTTCAAGTCTTCTG
***
65152245 AGATTTCCGATCGAAGA-AGGTAGCTCTTTAATGTTTGTCCCATC-AAGACAAAGCTCCAACAAA
1 AGATTTCCGATCGAA-ATAGGTAGCTCTTTAATGCCCGTCCCATCTAA-ACAAAGCTCCAACAAA
* *
65152308 CATTCCATTTTCCCATCAATCTCTGGAAAGCTTTGAAGTTTTGAGCAACCTGAAAGAATTAACTT
64 CATTCCATTTTCCCATCAATCTCTGGAAAGCTTTGAAGATTGGAGCAACCTGAAAGAATTAACTT
* * * *
65152373 TTCAAGAGGTTCCATACCAATTTTGGTTGGAAAACTCCTCAGATTTTTGCAGCCTCTTAAAT
129 TTCAAGAGATTCCATACCAATTTTGATTGGAAAACTCCTAAGACTTTTGCAGCCTCTTAAAT
65152435 CCAAAAGCTT
Statistics
Matches: 167, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
209 2 0.01
210 164 0.98
211 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (210 bp):
AGATTTCCGATCGAAATAGGTAGCTCTTTAATGCCCGTCCCATCTAAACAAAGCTCCAACAAACA
TTCCATTTTCCCATCAATCTCTGGAAAGCTTTGAAGATTGGAGCAACCTGAAAGAATTAACTTTT
CAAGAGATTCCATACCAATTTTGATTGGAAAACTCCTAAGACTTTTGCAGCCTCTTAAATTCAAT
AGTTCAAGTCTTCTG
Found at i:65162412 original size:3 final size:3
Alignment explanation
Indices: 65162404--65162469 Score: 64
Period size: 3 Copynumber: 22.3 Consensus size: 3
65162394 AAAATGTATT
* ** *
65162404 TAA TAA TAA TAA TAA TAA TAG TTT TAA TAA CAA TATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
*
65162450 -AA -AA CAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
65162470 TATTATTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:65162474 original size:3 final size:3
Alignment explanation
Indices: 65162468--65162529 Score: 108
Period size: 3 Copynumber: 20.7 Consensus size: 3
65162458 AATAATAATA
65162468 ATT ATT ATT ATT ATT ATT -TAT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
65162513 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
65162530 ACTCCTCAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 1 0.02
3 55 0.96
4 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:65166577 original size:210 final size:210
Alignment explanation
Indices: 65166189--65166577 Score: 564
Period size: 210 Copynumber: 1.9 Consensus size: 210
65166179 CAATTGAAAT
* * * * ** *
65166189 AGGTAGCTCTTTAATGCCCGTCCCATCTAAATAAAGCTCTAGCAGGCATTCCATTTTTCCATCAA
1 AGGTAGCTCTTTAATGCCCGTCCCATCAAAACAAAGCTCCAACAAACATTCCATTTTCCCATCAA
*
65166254 TCTCTGGAAAGCTTTCAAGATTTGAGCAACCTGAAAGAATTAACTTTTCAAGAGATTCCATTCCA
66 TCTCTGGAAAGCTTTCAAGATTTGAGCAACCTGAAAGAATTAACCTTTCAAGAGATTCCATTCCA
* * * * **
65166319 ATTTTGATTGGAAGACCTTTAAGACTTTTGCAGTCTTTTAAATTCAAAACTTTAAGTCTTTTGAG
131 ATTCTGATTGGAAAACCTCTAAGACTTTTGCAGCCTCCTAAATTCAAAACTTTAAGTCTTTTGAG
65166384 ACTTCCGATCAAAGA
196 ACTTCCGATCAAAGA
***
65166399 AGGTAGCTCTTTAATGTTTGTCCCATCAAAACAAAGCTCCAACAAACATTCCATTTTCCCATCAA
1 AGGTAGCTCTTTAATGCCCGTCCCATCAAAACAAAGCTCCAACAAACATTCCATTTTCCCATCAA
* *
65166464 TCTCTGGAAAGCTTTCAAGTTTTGAGCAACCTGAAAGAGTTAACCTTTCAAGAGATTCCATTCCA
66 TCTCTGGAAAGCTTTCAAGATTTGAGCAACCTGAAAGAATTAACCTTTCAAGAGATTCCATTCCA
* * *
65166529 ATTCTGGTTGGAAAA-CTCCTCAGACTTTTGCAGCCTCCTAACTTCAAAA
131 ATTCTGATTGGAAAACCT-CTAAGACTTTTGCAGCCTCCTAAATTCAAAA
65166578 GCTTAAGCCT
Statistics
Matches: 156, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
209 2 0.01
210 154 0.99
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (210 bp):
AGGTAGCTCTTTAATGCCCGTCCCATCAAAACAAAGCTCCAACAAACATTCCATTTTCCCATCAA
TCTCTGGAAAGCTTTCAAGATTTGAGCAACCTGAAAGAATTAACCTTTCAAGAGATTCCATTCCA
ATTCTGATTGGAAAACCTCTAAGACTTTTGCAGCCTCCTAAATTCAAAACTTTAAGTCTTTTGAG
ACTTCCGATCAAAGA
Found at i:65167628 original size:42 final size:42
Alignment explanation
Indices: 65167569--65167653 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
65167559 AAAAAAAAAA
65167569 CAACAACATTAAAATTATATATAGATATATATGTCATCTTAC
1 CAACAACATTAAAATTATATATAGATATATATGTCATCTTAC
65167611 CAACAACATTAAAATTATATATAGATATATATGTCATCTTAC
1 CAACAACATTAAAATTATATATAGATATATATGTCATCTTAC
65167653 C
1 C
65167654 TTTTATTGTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (42 bp):
CAACAACATTAAAATTATATATAGATATATATGTCATCTTAC
Found at i:65176838 original size:21 final size:23
Alignment explanation
Indices: 65176796--65176839 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
65176786 ATGTCTACAT
**
65176796 AATTCAATATAAACATTTTAAAA
1 AATTCAATATAAACATACTAAAA
65176819 AATTCAATA-AAA-ATACTAAAA
1 AATTCAATATAAACATACTAAAA
65176840 TTAACATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
AATTCAATATAAACATACTAAAA
Found at i:65182671 original size:25 final size:25
Alignment explanation
Indices: 65182643--65182698 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
65182633 ATACGTTTAT
65182643 ATATAA-CA-AATATTAAATAAGAATA
1 ATATAAGCATAATATT--ATAAGAATA
* *
65182668 ATATAAGCATAATGTTATATGAATA
1 ATATAAGCATAATATTATAAGAATA
65182693 ATATAA
1 ATATAA
65182699 TAAGAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 20 0.74
26 2 0.07
27 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (25 bp):
ATATAAGCATAATATTATAAGAATA
Found at i:65186249 original size:90 final size:89
Alignment explanation
Indices: 65186141--65186345 Score: 252
Period size: 91 Copynumber: 2.3 Consensus size: 89
65186131 CCTTAATTTT
* * * *
65186141 TTTTAAAAAAAAGTAATTAAACACCT-CTATT-TTTTTTCCACTCAATTGAGCATTTGAACTTTC
1 TTTTAAAAAAAAGCAATTAAAC-CCTGCT-TTCTTTTTTCCACTCAATTGAGAACTTGAAATTTC
* * *
65186204 AAAATGCATCAAAAAGGCTCTCAAAC
64 AAAATGCATCAAAAAGACCCTCAAAA
* * * *
65186230 TTCTTCAAAAAAAGCAATTAAGTCCCTGCTTTCTTTTTTTCACTCAATTGGGAACTTGAAATTTC
1 TT-TTAAAAAAAAGCAATTAA-ACCCTGCTTTCTTTTTTCCACTCAATTGAGAACTTGAAATTTC
65186295 AAAATGCATCAAAAAGACCCTCAAAA
64 AAAATGCATCAAAAAGACCCTCAAAA
*
65186321 TTTTAAAAAAAATCAATTAAACCCT
1 TTTTAAAAAAAAGCAATTAAACCCT
65186346 TGCTCTTATT
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
89 6 0.06
90 37 0.38
91 55 0.56
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (89 bp):
TTTTAAAAAAAAGCAATTAAACCCTGCTTTCTTTTTTCCACTCAATTGAGAACTTGAAATTTCAA
AATGCATCAAAAAGACCCTCAAAA
Found at i:65186384 original size:18 final size:19
Alignment explanation
Indices: 65186361--65186400 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
65186351 TTATTAAGAA
65186361 TTAGAAAA-ATAATAAATT
1 TTAGAAAACATAATAAATT
* *
65186379 TTAGAAAACTTATTAAATT
1 TTAGAAAACATAATAAATT
65186398 TTA
1 TTA
65186401 ATACAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (19 bp):
TTAGAAAACATAATAAATT
Found at i:65186511 original size:10 final size:10
Alignment explanation
Indices: 65186408--65186511 Score: 63
Period size: 10 Copynumber: 10.7 Consensus size: 10
65186398 TTAATACAAA
65186408 TATAAAAAAT
1 TATAAAAAAT
*
65186418 T-T-AAAATT
1 TATAAAAAAT
*
65186426 TATTAAAAAT
1 TATAAAAAAT
* *
65186436 TAGAAAAAAA
1 TATAAAAAAT
65186446 TAT-AAAAAT
1 TATAAAAAAT
**
65186455 CGTAAAAAAT
1 TATAAAAAAT
* *
65186465 AAAAAAAAAT
1 TATAAAAAAT
* **
65186475 TGTAAAATTT
1 TATAAAAAAT
65186485 TAT-AAAAAT
1 TATAAAAAAT
*
65186494 CATAAAAAAAT
1 TAT-AAAAAAT
65186505 TATAAAA
1 TATAAAA
65186512 TGCATCAAAA
Statistics
Matches: 67, Mismatches: 22, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
8 6 0.09
9 14 0.21
10 39 0.58
11 8 0.12
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:65188276 original size:17 final size:16
Alignment explanation
Indices: 65188246--65188288 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
65188236 TATATTTTTC
65188246 TTATAAAAATATAAAA
1 TTATAAAAATATAAAA
*
65188262 TTATAAAATTCATAAAA
1 TTATAAAAAT-ATAAAA
*
65188279 ATATACAAAA
1 TTATA-AAAA
65188289 ACTTAACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 9 0.41
17 10 0.45
18 3 0.14
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (16 bp):
TTATAAAAATATAAAA
Found at i:65189477 original size:8 final size:7
Alignment explanation
Indices: 65189447--65189542 Score: 52
Period size: 8 Copynumber: 12.4 Consensus size: 7
65189437 TAAAGAATGC
65189447 ATAAACAT
1 ATAAA-AT
* *
65189455 ATAGACT
1 ATAAAAT
65189462 ATAAAAT
1 ATAAAAT
65189469 ATGAAAAT
1 AT-AAAAT
65189477 ATAAATATT
1 ATAAA-A-T
65189486 ATAAAAAT
1 AT-AAAAT
65189494 ATAAATGTAT
1 ATAAA---AT
65189504 ATAAAAT
1 ATAAAAT
65189511 ATAAAAACT
1 AT-AAAA-T
*
65189520 ATGAAA-
1 ATAAAAT
65189526 ATAAAAT
1 ATAAAAT
65189533 A-AAATAT
1 ATAAA-AT
65189540 ATA
1 ATA
65189543 CATACTATGT
Statistics
Matches: 70, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
6 8 0.11
7 22 0.31
8 23 0.33
9 7 0.10
10 10 0.14
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (7 bp):
ATAAAAT
Found at i:65189494 original size:17 final size:17
Alignment explanation
Indices: 65189472--65189533 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
65189462 ATAAAATATG
*
65189472 AAAATATAAATATTATA
1 AAAATATAAATACTATA
*
65189489 AAAATATAAAT-GTATA
1 AAAATATAAATACTATA
* *
65189505 TAAAATATAAAAACTATG
1 -AAAATATAAATACTATA
65189523 AAAATA-AAATA
1 AAAATATAAATA
65189534 AAATATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.21
17 27 0.71
18 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAATATAAATACTATA
Found at i:65189540 original size:34 final size:35
Alignment explanation
Indices: 65189462--65189540 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
65189452 CATATAGACT
* *
65189462 ATAAAATATGAAAATATAAATATTATAAAAATATAA
1 ATAAAATAT-AAAATATAAAAACTATAAAAATATAA
** *
65189498 AT-GTATATAAAATATAAAAACTATGAAAATA-AA
1 ATAAAATATAAAATATAAAAACTATAAAAATATAA
65189531 ATAAAATATA
1 ATAAAATATA
65189541 TACATACTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
33 4 0.11
34 25 0.71
35 4 0.11
36 2 0.06
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (35 bp):
ATAAAATATAAAATATAAAAACTATAAAAATATAA
Found at i:65191515 original size:18 final size:18
Alignment explanation
Indices: 65191494--65191550 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
65191484 ACATTATCAT
65191494 TTATTTTTATTAAACTTA
1 TTATTTTTATTAAACTTA
65191512 TTATTTTTA-T---CTTA
1 TTATTTTTATTAAACTTA
65191526 TTATTTTTATTAAACTTA
1 TTATTTTTATTAAACTTA
65191544 TTATTTT
1 TTATTTT
65191551 CACTGCCCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 13 0.37
15 1 0.03
17 1 0.03
18 20 0.57
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATTTTTATTAAACTTA
Found at i:65191527 original size:14 final size:14
Alignment explanation
Indices: 65191508--65191535 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65191498 TTTTATTAAA
65191508 CTTATTATTTTTAT
1 CTTATTATTTTTAT
65191522 CTTATTATTTTTAT
1 CTTATTATTTTTAT
65191536 TAAACTTATT
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:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
CTTATTATTTTTAT
Found at i:65194705 original size:47 final size:47
Alignment explanation
Indices: 65194636--65194729 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
65194626 TCAGCAAAGT
*
65194636 CATGTCAAGCATATCCGATTGTCCATCATGATGAGTTAGTTGGAATC
1 CATGTCAAACATATCCGATTGTCCATCATGATGAGTTAGTTGGAATC
*
65194683 CATGTCAAACATATCCGATTGTCCATCATGATGAGTTGGTTGGAATC
1 CATGTCAAACATATCCGATTGTCCATCATGATGAGTTAGTTGGAATC
65194730 AGTCTATGCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (47 bp):
CATGTCAAACATATCCGATTGTCCATCATGATGAGTTAGTTGGAATC
Found at i:65201735 original size:23 final size:22
Alignment explanation
Indices: 65201682--65201742 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
65201672 ATTGATTTTA
* *
65201682 TTTCTTTTATTTTTAGTTTTCTT
1 TTTCTATT-TTTTTAGTTCTCTT
65201705 TTTCTATTTTTTTAGTTGCTCTAT
1 TTTCTATTTTTTTAGTT-CTCT-T
*
65201729 TTT-TATTTTCTTAG
1 TTTCTATTTTTTTAG
65201743 ACTTTTCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 9 0.27
23 20 0.61
24 4 0.12
ACGTcount: A:0.11, C:0.10, G:0.07, T:0.72
Consensus pattern (22 bp):
TTTCTATTTTTTTAGTTCTCTT
Found at i:65203370 original size:9 final size:9
Alignment explanation
Indices: 65203356--65203392 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
65203346 TATAGTTTGA
65203356 TATTCGAAT
1 TATTCGAAT
65203365 TATTCGAAT
1 TATTCGAAT
*
65203374 TATTCGAGT
1 TATTCGAAT
65203383 TATTCGAAT
1 TATTCGAAT
65203392 T
1 T
65203393 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:65203463 original size:9 final size:9
Alignment explanation
Indices: 65203446--65203476 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
65203436 TCGAGTTGAT
65203446 TCGAATAAC
1 TCGAATAAC
*
65203455 TCGATTAAC
1 TCGAATAAC
65203464 TCGAATAAC
1 TCGAATAAC
65203473 TCGA
1 TCGA
65203477 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:65208891 original size:65 final size:65
Alignment explanation
Indices: 65208809--65208938 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
65208799 AGCTCCAATG
65208809 TTGCACCTCAAGCAGTGTTGCTGCTGTTTCTGAGTTGAGTTACTGTTGGTTGTTTGTTGCACTGC
1 TTGCACCTCAAGCAGTGTTGCTGCTGTTTCTGAGTTGAGTTACTGTTGGTTGTTTGTTGCACTGC
* *
65208874 TTGCACTTCAAGCAGTGTTGCTGCTGTTTCTGAGTTGAGTTATTGTTGGTTGTTTGTTGCACTGC
1 TTGCACCTCAAGCAGTGTTGCTGCTGTTTCTGAGTTGAGTTACTGTTGGTTGTTTGTTGCACTGC
65208939 AGGCCAAAGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.43
Consensus pattern (65 bp):
TTGCACCTCAAGCAGTGTTGCTGCTGTTTCTGAGTTGAGTTACTGTTGGTTGTTTGTTGCACTGC
Found at i:65213019 original size:13 final size:13
Alignment explanation
Indices: 65213003--65213027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65212993 GCATTAAACA
65213003 AAACAAAAACAAC
1 AAACAAAAACAAC
65213016 AAACAAAAACAA
1 AAACAAAAACAA
65213028 TGAAATCGAA
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:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACAAAAACAAC
Found at i:65223510 original size:24 final size:22
Alignment explanation
Indices: 65223483--65223527 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
65223473 GTACTCATTT
65223483 TACTATATCAATATTTAAAACAAA
1 TACTATAT-AAT-TTTAAAACAAA
* *
65223507 TACTTTATTATTTTAAAACAA
1 TACTATATAATTTTAAAACAA
65223528 TAAAAACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 2 0.11
24 7 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
TACTATATAATTTTAAAACAAA
Found at i:65237642 original size:18 final size:17
Alignment explanation
Indices: 65237619--65237652 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65237609 CCGAATATAG
65237619 CTTTCTTCTACTTTTTCC
1 CTTTCTT-TACTTTTTCC
*
65237637 CTTTCTTTTCTTTTTC
1 CTTTCTTTACTTTTTC
65237653 TTATGATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (17 bp):
CTTTCTTTACTTTTTCC
Found at i:65240805 original size:25 final size:25
Alignment explanation
Indices: 65240771--65240836 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
65240761 ATCAATATTT
65240771 AAAATAAACACTTTATTATTTTTTA
1 AAAATAAACACTTTATTATTTTTTA
65240796 AAAATAAACACTTTATTATTTTTTA
1 AAAATAAACACTTTATTATTTTTTA
65240821 AAAATAAACACTTTAT
1 AAAATAAACACTTTAT
65240837 AAATATAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAATAAACACTTTATTATTTTTTA
Found at i:65241843 original size:28 final size:28
Alignment explanation
Indices: 65241812--65241871 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
65241802 TATTTTTGAA
* * *
65241812 TTAGAATTTTGAGTTTAGCGTTTAATGT
1 TTAGAATTTGGAGTTTAGAGTTTAAGGT
* * *
65241840 TTAGAGTTTGGGGTTTGGAGTTTAAGGT
1 TTAGAATTTGGAGTTTAGAGTTTAAGGT
65241868 TTAG
1 TTAG
65241872 GGTTTAGTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.47
Consensus pattern (28 bp):
TTAGAATTTGGAGTTTAGAGTTTAAGGT
Found at i:65241855 original size:14 final size:14
Alignment explanation
Indices: 65241824--65241877 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
65241814 AGAATTTTGA
* *
65241824 GTTTAGCGTTTAAT
1 GTTTAGAGTTTAAG
**
65241838 GTTTAGAGTTTGGG
1 GTTTAGAGTTTAAG
*
65241852 GTTTGGAGTTTAAG
1 GTTTAGAGTTTAAG
*
65241866 GTTTAGGGTTTA
1 GTTTAGAGTTTA
65241878 GTATTTAAGA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (14 bp):
GTTTAGAGTTTAAG
Found at i:65241937 original size:7 final size:7
Alignment explanation
Indices: 65241925--65242026 Score: 75
Period size: 7 Copynumber: 14.7 Consensus size: 7
65241915 AATATCTATA
65241925 TTTAGGG
1 TTTAGGG
65241932 TTTAGGG
1 TTTAGGG
* *
65241939 TGTA-TG
1 TTTAGGG
*
65241945 TTTATGG
1 TTTAGGG
* *
65241952 TTTAAGA
1 TTTAGGG
65241959 TTTAGGG
1 TTTAGGG
65241966 TTTAGGG
1 TTTAGGG
65241973 TTTTAGGG
1 -TTTAGGG
*
65241981 TTTAGTG
1 TTTAGGG
*
65241988 TTTAGTG
1 TTTAGGG
*
65241995 TTTACGG
1 TTTAGGG
* *
65242002 TGTA-TG
1 TTTAGGG
65242008 TTT-GTGG
1 TTTAG-GG
65242015 TTTAGGG
1 TTTAGGG
65242022 TTTAG
1 TTTAG
65242027 TATTTAAGAT
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
6 7 0.09
7 60 0.80
8 8 0.11
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:65241979 original size:15 final size:15
Alignment explanation
Indices: 65241959--65241990 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65241949 TGGTTTAAGA
65241959 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
*
65241974 TTTAGGGTTTAGTGT
1 TTTAGGGTTTAGGGT
65241989 TT
1 TT
65241991 AGTGTTTACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.34, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:65242017 original size:49 final size:49
Alignment explanation
Indices: 65241925--65242024 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 49
65241915 AATATCTATA
* *
65241925 TTTAGGGTTTAGGGTGTATGTTTATGGTTTAAGATTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGTGTATGTTTACGGTGTAAGATTTAGGGTTTAGGGT
* * *
65241974 TTTAGGGTTTAGTGTTTAGTGTTTACGGTGTATG-TTT-GTGGTTTAGGGT
1 TTTAGGGTTTAGGGTGTA-TGTTTACGGTGTAAGATTTAG-GGTTTAGGGT
65242023 TT
1 TT
65242025 AGTATTTAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
48 1 0.02
49 31 0.70
50 12 0.27
ACGTcount: A:0.15, C:0.01, G:0.34, T:0.50
Consensus pattern (49 bp):
TTTAGGGTTTAGGGTGTATGTTTACGGTGTAAGATTTAGGGTTTAGGGT
Found at i:65242027 original size:34 final size:33
Alignment explanation
Indices: 65241925--65242026 Score: 104
Period size: 34 Copynumber: 3.2 Consensus size: 33
65241915 AATATCTATA
* * *
65241925 TTTAGGGTTTAGGGTGTATGTTTATGGTTTAAGA
1 TTTAGGGTTTA-GGTGTATGTTTGTGGTTTAGGG
* *
65241959 TTTAGGGTTTAGG-GT-T-TTAG-GGTTTAGTG
1 TTTAGGGTTTAGGTGTATGTTTGTGGTTTAGGG
*
65241988 TTTAGTGTTTACGGTGTATGTTTGTGGTTTAGGG
1 TTTAGGGTTTA-GGTGTATGTTTGTGGTTTAGGG
65242022 TTTAG
1 TTTAG
65242027 TATTTAAGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
29 16 0.29
30 4 0.07
31 3 0.05
32 3 0.05
33 5 0.09
34 24 0.44
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.49
Consensus pattern (33 bp):
TTTAGGGTTTAGGTGTATGTTTGTGGTTTAGGG
Found at i:65242059 original size:149 final size:150
Alignment explanation
Indices: 65241865--65242178 Score: 506
Period size: 156 Copynumber: 2.1 Consensus size: 150
65241855 TGGAGTTTAA
65241865 GGTTTAGGGTTTAGTATTTAAGATTCTTTTTAATTACTTTTGTCCCCTATAATATCTATATTTAG
1 GGTTTAGGGTTTAGTATTTAAGATTCTTTTTAATTACTTTTGTCCCCTATAATATCTATATTTAG
** *
65241930 GGTTTAGGGTGTATGTTTA-T-GGTTTAAGATTTAGGGTTTAGGGTTTTAGGGTTTAGTGTTTAG
66 GGTTTAGGGTGTATGTTTAGTAGGTTTAAGATTTAAAGTTTAGGGTTTTAGGGTTTAGAGTTTAG
65241993 TGTTTACGGTGTATGTTTGT
131 TGTTTACGGTGTATGTTTGT
65242013 GGTTTAGGGTTTAGTATTTAAGATTCTTTTTTAATTACTTTTGTCCCCTATAATATCTATATTTA
1 GGTTTAGGGTTTAGTATTTAAGATTC-TTTTTAATTACTTTTGTCCCCTATAATATCTATATTTA
*
65242078 GGGTTTAGGGTGTATGTTTACGGTTTGAGGTTTAAGGTTTAAAGTTTAGGGTTTTAGGGTTTAGA
65 GGGTTTAGGGTGTATGTTTA--G--T-AGGTTTAAGATTTAAAGTTTAGGGTTTTAGGGTTTAGA
*
65242143 GTTTAGTGTTTAGGGTGTATGTTTGT
125 GTTTAGTGTTTACGGTGTATGTTTGT
*
65242169 GGTTTTGGGT
1 GGTTTAGGGT
65242179 CTTGGGTTTA
Statistics
Matches: 152, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
148 26 0.17
149 58 0.38
154 1 0.01
156 67 0.44
ACGTcount: A:0.19, C:0.05, G:0.26, T:0.49
Consensus pattern (150 bp):
GGTTTAGGGTTTAGTATTTAAGATTCTTTTTAATTACTTTTGTCCCCTATAATATCTATATTTAG
GGTTTAGGGTGTATGTTTAGTAGGTTTAAGATTTAAAGTTTAGGGTTTTAGGGTTTAGAGTTTAG
TGTTTACGGTGTATGTTTGT
Found at i:65242086 original size:7 final size:7
Alignment explanation
Indices: 65242074--65242264 Score: 88
Period size: 7 Copynumber: 27.0 Consensus size: 7
65242064 AATATCTATA
65242074 TTTAGGG
1 TTTAGGG
65242081 TTTAGGG
1 TTTAGGG
* *
65242088 TGTA-TG
1 TTTAGGG
*
65242094 TTTACGG
1 TTTAGGG
65242101 TTT-GAGG
1 TTTAG-GG
*
65242108 TTTAAGG
1 TTTAGGG
**
65242115 TTTAAAG
1 TTTAGGG
65242122 TTTAGGG
1 TTTAGGG
65242129 TTTTAGGG
1 -TTTAGGG
*
65242137 TTTAGAG
1 TTTAGGG
*
65242144 TTTAGTG
1 TTTAGGG
65242151 TTTAGGG
1 TTTAGGG
* *
65242158 TGTA-TG
1 TTTAGGG
65242164 TTT-GTGG
1 TTTAG-GG
*
65242171 TTTTGGG
1 TTTAGGG
65242178 TCTT-GGG
1 T-TTAGGG
65242185 TTTAGGG
1 TTTAGGG
65242192 TTTAGGG
1 TTTAGGG
* **
65242199 ATTAATG
1 TTTAGGG
65242206 TTTAGAGG
1 TTTAG-GG
*
65242214 TATAGAGG
1 TTTAG-GG
*
65242222 -CTAGGG
1 TTTAGGG
**
65242228 TTTAAAG
1 TTTAGGG
* *
65242235 TTTATGA
1 TTTAGGG
65242242 TTTAAGGG
1 TTT-AGGG
65242250 TTTTAGGG
1 -TTTAGGG
65242258 TTTAGGG
1 TTTAGGG
65242265 GGTTTTTGGT
Statistics
Matches: 139, Mismatches: 32, Indels: 26
0.71 0.16 0.13
Matches are distributed among these distances:
6 11 0.08
7 101 0.73
8 24 0.17
9 3 0.02
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:65242719 original size:39 final size:39
Alignment explanation
Indices: 65242663--65242740 Score: 113
Period size: 41 Copynumber: 2.0 Consensus size: 39
65242653 CATTATATTC
*
65242663 AATTTTAAAATTGAACAATT-AAATAATGTCATATTAAA
1 AATTTTAAAATTGAACAATTAAAAAAATGTCATATTAAA
*
65242701 AATTTTAAAAATTTAACAATTAAAAAAAATGTCATATTAA
1 AATTTT-AAAATTGAACAATT-AAAAAAATGTCATATTAA
65242741 TGTATCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 6 0.17
39 13 0.37
41 16 0.46
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (39 bp):
AATTTTAAAATTGAACAATTAAAAAAATGTCATATTAAA
Found at i:65243062 original size:124 final size:124
Alignment explanation
Indices: 65242838--65243236 Score: 482
Period size: 125 Copynumber: 3.2 Consensus size: 124
65242828 ATCGTTAGCA
* * * **
65242838 GCGTTTTTCAT-AGAAACGCCACAAAAGGTAAACAATAGTGGCGTTTGGACTAAAAATGCCGCAA
1 GCGTTTTTC-TCAAAAACGCCGCAAAAGGTAAGCAATAGTGGCGTTTGTTCTAAAAATGCCGCAA
* * * *
65242902 CAATGTATTAAAAATTATACAAAATGGCGCCGTTTGGTTATTGGAATTTGATTTTTAGTG
65 CAATGTATTAAAAATTGTACAAAATGGCGCCATTTGGTTATAGGAATTTAATTTTTAGTG
* * *
65242962 GCGTTTTTCTCCAAAACGCCGCAAAAGGTATGCAATAGTGGCGTTTGTTCTAAAAACGCCGCAAC
1 GCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGTGGCGTTTGTTCTAAAAATGCCGCAAC
* * *
65243027 AATGTATTAAAAAGTGTACAAAATGACGCCATTTGGTTACAGGAATTTAACTTTTTAGTG
66 AATGTATTAAAAATTGTACAAAATGGCGCCATTTGGTTATAGGAATTTAA-TTTTTAGTG
* * * ** *
65243087 GCATTTTTCTCAAAAATGCCGCAAAAGGTAAGCATTAGCAGTGTTT-TGTCTAAAAATGCCGCAA
1 GCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGTGGCGTTTGT-TCTAAAAATGCCGCAA
* * *
65243151 CAATGTATTAAAAATTGTACAAAACGGCGCCATTTTGTT-TCAGGAAATTAATTTTGTAGTG
65 CAATGTATTAAAAATTGTACAAAATGGCGCCATTTGGTTAT-AGGAATTTAATTTT-TAGTG
* *
65243212 TCGTTTTTGCT-GAAAACGCCGCAAA
1 GCGTTTTT-CTCAAAAACGCCGCAAA
65243237 TATTTCAATA
Statistics
Matches: 235, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
123 1 0.00
124 103 0.44
125 129 0.55
126 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (124 bp):
GCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGTGGCGTTTGTTCTAAAAATGCCGCAAC
AATGTATTAAAAATTGTACAAAATGGCGCCATTTGGTTATAGGAATTTAATTTTTAGTG
Found at i:65246165 original size:5 final size:5
Alignment explanation
Indices: 65246155--65246184 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
65246145 AATGAGAACG
65246155 ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
65246185 CCATTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:65247936 original size:27 final size:27
Alignment explanation
Indices: 65247898--65247949 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
65247888 AAGGAAAGCC
65247898 TTTTAGAACGTCCTAGATTTTATAAAA
1 TTTTAGAACGTCCTAGATTTTATAAAA
65247925 TTTTAGAACGTCCTAGATTTTATAA
1 TTTTAGAACGTCCTAGATTTTATAA
65247950 TATTCAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (27 bp):
TTTTAGAACGTCCTAGATTTTATAAAA
Found at i:65255501 original size:24 final size:24
Alignment explanation
Indices: 65255473--65255557 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 24
65255463 AAAAATTAAA
*
65255473 TTAGGGTATTATGTTTTTAATTGT
1 TTAGGGTATTAGGTTTTTAATTGT
* * **
65255497 TTAGGGTTTTAAGGTTTATGAAAAATTAAA
1 TTAGGGTATT-AGGTTT-T---TAATT-GT
65255527 TTAGGGTATTAGGTTTTTAATTGT
1 TTAGGGTATTAGGTTTTTAATTGT
65255551 TTAGGGT
1 TTAGGGT
65255558 TTCTGGGCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
24 16 0.35
25 9 0.20
26 1 0.02
28 1 0.02
29 10 0.22
30 9 0.20
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (24 bp):
TTAGGGTATTAGGTTTTTAATTGT
Found at i:65255516 original size:54 final size:54
Alignment explanation
Indices: 65255457--65255625 Score: 203
Period size: 54 Copynumber: 2.9 Consensus size: 54
65255447 TTGATTAGGT
*
65255457 TTTATGAAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTAAGG
1 TTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTAAGG
65255511 TTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTCTGGGCTTGATTAGGG
1 TTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGG--T-T----TT-A--A-GG
* * *
65255576 TTTAAGAAAAATTAAATCAAGGTATTAGGTTTTTAATTGTTTAGGGTTTT
1 TTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTT
65255626 GGGGTTTGAT
Statistics
Matches: 100, Mismatches: 4, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
54 45 0.45
56 1 0.01
57 1 0.01
58 2 0.02
61 2 0.02
62 2 0.02
63 1 0.01
64 1 0.01
65 45 0.45
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (54 bp):
TTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTAAGG
Found at i:65255585 original size:65 final size:65
Alignment explanation
Indices: 65255509--65255677 Score: 250
Period size: 65 Copynumber: 2.6 Consensus size: 65
65255499 AGGGTTTTAA
*
65255509 GGTTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTCT-GGGCTTGATTA
1 GGTTTAAGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTT-TGGGGCTTGATTA
65255573 G
65 G
* * *
65255574 GGTTTAAGAAAAATTAAATCAAGGTATTAGGTTTTTAATTGTTTAGGGTTTTGGGGTTTGATTAG
1 GGTTTAAGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTGGGGCTTGATTAG
* * * *
65255639 GGTTTAGGAAAATTTAAGTTAGGGTATTAAGTTTTTAAT
1 GGTTTAAGAAAAATTAAATTAGGGTATTAGGTTTTTAAT
65255678 AGGACTGAAG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
64 1 0.01
65 92 0.99
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.44
Consensus pattern (65 bp):
GGTTTAAGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTGGGGCTTGATTAG
Found at i:65258731 original size:18 final size:17
Alignment explanation
Indices: 65258708--65258741 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65258698 CCGAATATAG
65258708 CTTTCTTCTACTTTTTCC
1 CTTTCTT-TACTTTTTCC
*
65258726 CTTTCTTTTCTTTTTC
1 CTTTCTTTACTTTTTC
65258742 TTATGATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (17 bp):
CTTTCTTTACTTTTTCC
Found at i:65260073 original size:17 final size:17
Alignment explanation
Indices: 65260053--65260091 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
65260043 TTTTTTATTT
*
65260053 TTTTTAAATTTTAAGAG
1 TTTTTAAATTTTAACAG
* *
65260070 TTTTTAATTTTTCACAG
1 TTTTTAAATTTTAACAG
65260087 TTTTT
1 TTTTT
65260092 TTATATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (17 bp):
TTTTTAAATTTTAACAG
Found at i:65274198 original size:21 final size:21
Alignment explanation
Indices: 65274157--65274199 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
65274147 AATAAAGTAG
*
65274157 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
65274178 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
65274199 A
1 A
65274200 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:65274538 original size:16 final size:16
Alignment explanation
Indices: 65274487--65274532 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
65274477 TAAATTACTG
* * *
65274487 ATTACAGTTTTATTCC
1 ATTACAGCTCTATTCA
65274503 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
65274519 ATTACAGCTCTATT
1 ATTACAGCTCTATT
65274533 TTATTATAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:65285278 original size:18 final size:18
Alignment explanation
Indices: 65285255--65285299 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
65285245 AAACAATTTT
65285255 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
65285273 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
*
65285291 TAACTTATA
1 TAAATTATA
65285300 AATATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTATATAACTTACA
Found at i:65285284 original size:9 final size:9
Alignment explanation
Indices: 65285259--65285299 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
65285249 AATTTTTAAA
65285259 TTATATAAC
1 TTATATAAC
* *
65285268 TTACATAAA
1 TTATATAAC
65285277 TTATATAAC
1 TTATATAAC
*
65285286 TTACATAAC
1 TTATATAAC
65285295 TTATA
1 TTATA
65285300 AATATTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (9 bp):
TTATATAAC
Found at i:65285496 original size:9 final size:9
Alignment explanation
Indices: 65285482--65285516 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
65285472 CTAGCATAGC
65285482 TTATATAAA
1 TTATATAAA
*
65285491 TTATATAAC
1 TTATATAAA
*
65285500 TTACATAAA
1 TTATATAAA
65285509 TTATATAA
1 TTATATAA
65285517 CTTACCTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (9 bp):
TTATATAAA
Found at i:65285507 original size:18 final size:18
Alignment explanation
Indices: 65285481--65285531 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
65285471 ACTAGCATAG
*
65285481 CTTATATAAATTATATAA
1 CTTACATAAATTATATAA
65285499 CTTACATAAATTATATAA
1 CTTACATAAATTATATAA
* *
65285517 CTTACCTAACTTATA
1 CTTACATAAATTATA
65285532 AATATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (18 bp):
CTTACATAAATTATATAA
Found at i:65285561 original size:13 final size:13
Alignment explanation
Indices: 65285528--65285565 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
65285518 TTACCTAACT
*
65285528 TATAAATATTT-A
1 TATAAATTTTTAA
*
65285540 TATACATTTTTAA
1 TATAAATTTTTAA
65285553 TATAAATTTTTAA
1 TATAAATTTTTAA
65285566 AATCTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TATAAATTTTTAA
Found at i:65285669 original size:232 final size:232
Alignment explanation
Indices: 65285255--65285684 Score: 799
Period size: 232 Copynumber: 1.9 Consensus size: 232
65285245 AAACAATTTT
65285255 TAAATTATATAACTTACATAAATTATATAACTTACATAACTTATAAATATTTATATACATTTTTA
1 TAAATTATATAACTTACATAAATTATATAACTTACATAACTTATAAATATTTATATACATTTTTA
* *
65285320 ATATATATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAATCATAGCATAACTTACATAACT
66 ATATAAATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACT
*
65285385 CAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATGCATAACTTAAATAACATAC
131 CAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATAACTTAAATAACATAC
65285450 AATTCATAAACTTATATATAAACTAGCATAGCTTATA
196 AATTCATAAACTTATATATAAACTAGCATAGCTTATA
*
65285487 TAAATTATATAACTTACATAAATTATATAACTTACCTAACTTATAAATATTTATATACATTTTTA
1 TAAATTATATAACTTACATAAATTATATAACTTACATAACTTATAAATATTTATATACATTTTTA
65285552 ATATAAATTTTTAAAATCTATA-TTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACT
66 ATATAAATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACT
*
65285616 CAAATTTATCAATCATATCATAAACTTATATATAAACTTGCATAATACATAACTTAAATAACATA
131 CAAATTTATCAATCATATCAT-AACTTATATATAAACTTACATAATACATAACTTAAATAACATA
65285681 CAAT
195 CAAT
65285685 ACTTAAATAA
Statistics
Matches: 192, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
231 62 0.32
232 130 0.68
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (232 bp):
TAAATTATATAACTTACATAAATTATATAACTTACATAACTTATAAATATTTATATACATTTTTA
ATATAAATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACT
CAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATAACTTAAATAACATAC
AATTCATAAACTTATATATAAACTAGCATAGCTTATA
Found at i:65285703 original size:9 final size:9
Alignment explanation
Indices: 65285661--65286047 Score: 380
Period size: 9 Copynumber: 42.9 Consensus size: 9
65285651 ACTTGCATAA
65285661 TACATAACT
1 TACATAACT
* *
65285670 TAAATAACA
1 TACATAACT
65285679 TACA-ATACT
1 TACATA-ACT
*
65285688 TAAATAACT
1 TACATAACT
65285697 TACATAA--
1 TACATAACT
65285704 TACATAACCT
1 TACATAA-CT
*
65285714 T-CCTAACT
1 TACATAACT
* * *
65285722 TAAATTATT
1 TACATAACT
65285731 TACATAA--
1 TACATAACT
65285738 TACATAACTT
1 TACATAAC-T
65285748 AGTACATAACT
1 --TACATAACT
*
65285759 TACATAATTTT
1 TACATAA--CT
*
65285770 TTC-TAAATTGCT
1 TACAT-AA---CT
65285782 TACATAACT
1 TACATAACT
*
65285791 TACATAAAT
1 TACATAACT
*
65285800 TAAATAACT
1 TACATAACT
65285809 TACATAACT
1 TACATAACT
*
65285818 TAAATAACT
1 TACATAACT
*
65285827 TACATATCT
1 TACATAACT
65285836 TACATAACT
1 TACATAACT
*
65285845 TACATAAAT
1 TACATAACT
*
65285854 TAAATAACT
1 TACATAACT
*
65285863 TACATAAAT
1 TACATAACT
*
65285872 TAAATAACT
1 TACATAACT
65285881 TACATAACT
1 TACATAACT
65285890 TACATAACT
1 TACATAACT
*
65285899 TAAATAACT
1 TACATAACT
*
65285908 TACATATCT
1 TACATAACT
65285917 TACATAACT
1 TACATAACT
*
65285926 TACATAAAT
1 TACATAACT
*
65285935 TAAATAACT
1 TACATAACT
*
65285944 TACATAAAT
1 TACATAACT
*
65285953 TAAATAACT
1 TACATAACT
65285962 TACATAACT
1 TACATAACT
65285971 TACATAACT
1 TACATAACT
*
65285980 TACATAAAT
1 TACATAACT
65285989 TACATAACT
1 TACATAACT
*
65285998 TACATAAAT
1 TACATAACT
65286007 TACATAACT
1 TACATAACT
65286016 TACATAACT
1 TACATAACT
65286025 TACAT-ACT
1 TACATAACT
65286033 TACATAA--
1 TACATAACT
65286040 TACATAAC
1 TACATAAC
65286048 CTTCCTTACT
Statistics
Matches: 310, Mismatches: 50, Indels: 37
0.78 0.13 0.09
Matches are distributed among these distances:
7 21 0.07
8 12 0.04
9 253 0.82
10 3 0.01
11 6 0.02
12 14 0.05
13 1 0.00
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:65285760 original size:231 final size:232
Alignment explanation
Indices: 65285255--65285748 Score: 725
Period size: 232 Copynumber: 2.1 Consensus size: 232
65285245 AAACAATTTT
* *
65285255 TAAATTATATAACTTACATAAATTATATAACTTACATAACTTATAAATATTTATATACATTTTTA
1 TAAATTAAATAACTTACATAAATTACATAACTTACATAACTTATAAATATTTATATACATTTTTA
* *
65285320 ATATATATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAATCATAGCATAACTTACATAACT
66 ATATAAATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACT
*
65285385 CAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATGCATAACTTAAATAACATAC
131 CAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATAACTTAAATAACATAC
* * * * *
65285450 AATTCATAAACTTATATATAAACTAGCATAGCTTATA
196 AATACATAAACTAATACATAAACTAGCATACCTTACA
* * *
65285487 TAAATTATATAACTTACATAAATTATATAACTTACCTAACTTATAAATATTTATATACATTTTTA
1 TAAATTAAATAACTTACATAAATTACATAACTTACATAACTTATAAATATTTATATACATTTTTA
65285552 ATATAAATTTTTAAAATCTATA-TTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACT
66 ATATAAATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACT
*
65285616 CAAATTTATCAATCATATCATAAACTTATATATAAACTTGCATAATACATAACTTAAATAACATA
131 CAAATTTATCAATCATATCAT-AACTTATATATAAACTTACATAATACATAACTTAAATAACATA
* *
65285681 CAATACTTAAA-TAACTTACAT-AA-TA-CATAACCTT-CC
195 CAATACATAAACTAA--TACATAAACTAGCAT-ACCTTACA
* * *
65285717 TAACTTAAATTATTTACAT-AA-TACATAACTTA
1 TAAATTAAATAACTTACATAAATTACATAACTTA
65285749 GTACATAACT
Statistics
Matches: 241, Mismatches: 17, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
228 10 0.04
229 2 0.01
230 18 0.07
231 70 0.29
232 137 0.57
233 4 0.02
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (232 bp):
TAAATTAAATAACTTACATAAATTACATAACTTACATAACTTATAAATATTTATATACATTTTTA
ATATAAATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACT
CAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATAACTTAAATAACATAC
AATACATAAACTAATACATAAACTAGCATACCTTACA
Found at i:65287574 original size:9 final size:9
Alignment explanation
Indices: 65287562--65287616 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
65287552 ATAAACTTGC
65287562 ATAACTTAT
1 ATAACTTAT
*
65287571 ATAAATTAT
1 ATAACTTAT
*
65287580 ATAACTTAC
1 ATAACTTAT
*
65287589 ATAAATTAT
1 ATAACTTAT
*
65287598 ATAACTTAC
1 ATAACTTAT
65287607 ATAACTTAT
1 ATAACTTAT
65287616 A
1 A
65287617 AATATTTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAACTTAT
Found at i:65287585 original size:18 final size:18
Alignment explanation
Indices: 65287562--65287616 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
65287552 ATAAACTTGC
*
65287562 ATAACTTATATAAATTAT
1 ATAACTTACATAAATTAT
65287580 ATAACTTACATAAATTAT
1 ATAACTTACATAAATTAT
*
65287598 ATAACTTACATAACTTAT
1 ATAACTTACATAAATTAT
65287616 A
1 A
65287617 AATATTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAACTTACATAAATTAT
Found at i:65287591 original size:27 final size:27
Alignment explanation
Indices: 65287549--65287614 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
65287539 TATAAACTTA
* *
65287549 TATATAAACTTGCATAACTTATATAAAT
1 TATAT-AACTTACATAAATTATATAAAT
*
65287577 TATATAACTTACATAAATTATATAACT
1 TATATAACTTACATAAATTATATAAAT
*
65287604 TACATAACTTA
1 TATATAACTTA
65287615 TAAATATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 29 0.85
28 5 0.15
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (27 bp):
TATATAACTTACATAAATTATATAAAT
Found at i:65287658 original size:17 final size:18
Alignment explanation
Indices: 65287638--65287671 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
65287628 ACATTTTTAA
65287638 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
65287655 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
65287672 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:65287858 original size:17 final size:18
Alignment explanation
Indices: 65287826--65287859 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
65287816 TGATTGATAA
65287826 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
65287844 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
65287860 TTAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:65287897 original size:9 final size:9
Alignment explanation
Indices: 65287883--65287933 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
65287873 TAAATATTTA
65287883 TAAGTTATG
1 TAAGTTATG
*
65287892 TAAGTTATA
1 TAAGTTATG
65287901 TAAGTTATG
1 TAAGTTATG
* *
65287910 TAATTTATT
1 TAAGTTATG
65287919 TAAGTTATG
1 TAAGTTATG
*
65287928 CAAGTT
1 TAAGTT
65287934 TATATATAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:65287904 original size:18 final size:18
Alignment explanation
Indices: 65287881--65287939 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
65287871 TATAAATATT
65287881 TATAAGTTATGTAAGTTA
1 TATAAGTTATGTAAGTTA
*
65287899 TATAAGTTATGTAATTTA
1 TATAAGTTATGTAAGTTA
* *
65287917 TTTAAGTTATGCAAGTTTA
1 TATAAGTTATGTAAG-TTA
65287936 TATA
1 TATA
65287940 TAAGTTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
18 29 0.83
19 6 0.17
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (18 bp):
TATAAGTTATGTAAGTTA
Found at i:65290310 original size:24 final size:24
Alignment explanation
Indices: 65290283--65290334 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
65290273 TTAGTAAGTC
*
65290283 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
65290307 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
65290331 AAAT
1 AAAT
65290335 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:65290536 original size:9 final size:9
Alignment explanation
Indices: 65290520--65290574 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
65290510 TATAAATATT
65290520 TATAAGTTA
1 TATAAGTTA
*
65290529 TGTAAGTTA
1 TATAAGTTA
*
65290538 TATAATTTA
1 TATAAGTTA
*
65290547 TGTAAGTTA
1 TATAAGTTA
*
65290556 TATAATTTA
1 TATAAGTTA
65290565 TATAAGTTA
1 TATAAGTTA
65290574 T
1 T
65290575 GCAAGTTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (9 bp):
TATAAGTTA
Found at i:65290547 original size:18 final size:18
Alignment explanation
Indices: 65290520--65290574 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
65290510 TATAAATATT
*
65290520 TATAAGTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
65290538 TATAATTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
*
65290556 TATAATTTATATAAGTTA
1 TATAATTTATGTAAGTTA
65290574 T
1 T
65290575 GCAAGTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TATAATTTATGTAAGTTA
Found at i:65290555 original size:27 final size:27
Alignment explanation
Indices: 65290522--65290587 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
65290512 TAAATATTTA
* *
65290522 TAAGTTATGTAAGTTATATAATTTATG
1 TAAGTTATATAAGTTATATAAGTTATG
*
65290549 TAAGTTATATAATTTATATAAGTTATG
1 TAAGTTATATAAGTTATATAAGTTATG
*
65290576 CAAGTTTATATA
1 TAAG-TTATATA
65290588 TAAGTTTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 27 0.79
28 7 0.21
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (27 bp):
TAAGTTATATAAGTTATATAAGTTATG
Found at i:65290716 original size:9 final size:9
Alignment explanation
Indices: 65290702--65290736 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
65290692 TAAATATTTA
65290702 TAAGTTATG
1 TAAGTTATG
*
65290711 TAAGTTATA
1 TAAGTTATG
*
65290720 TAATTTATG
1 TAAGTTATG
65290729 TAAGTTAT
1 TAAGTTAT
65290737 ATAATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (9 bp):
TAAGTTATG
Found at i:65290727 original size:18 final size:18
Alignment explanation
Indices: 65290700--65290744 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
65290690 TATAAATATT
*
65290700 TATAAGTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
65290718 TATAATTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
65290736 TATAATTTA
1 TATAATTTA
65290745 AAAATTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TATAATTTATGTAAGTTA
Found at i:65293941 original size:15 final size:15
Alignment explanation
Indices: 65293904--65293941 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
65293894 AATCATAGAA
65293904 CATATAAACCCTAAAT
1 CATA-AAACCCTAAAT
65293920 C-TAAAACCCTAAAT
1 CATAAAACCCTAAAT
65293934 CATAAAAC
1 CATAAAAC
65293942 ATATATAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.57
15 8 0.38
16 1 0.05
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAAAACCCTAAAT
Found at i:65302290 original size:26 final size:26
Alignment explanation
Indices: 65302260--65302313 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
65302250 GTCTTGTTAC
65302260 TTAGTTGGATTTGAACTAAGTTGTCA
1 TTAGTTGGATTTGAACTAAGTTGTCA
*
65302286 TTAGTTTGATTTGAACTAAGTTGTCA
1 TTAGTTGGATTTGAACTAAGTTGTCA
65302312 TT
1 TT
65302314 GTACTTGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.46
Consensus pattern (26 bp):
TTAGTTGGATTTGAACTAAGTTGTCA
Found at i:65307081 original size:18 final size:18
Alignment explanation
Indices: 65307058--65307146 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
65307048 CGTTTACGAT
*
65307058 ACTATTCACGTATATAGC
1 ACTATTCACGTATACAGC
*
65307076 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGC
* *
65307094 ACTATTCATGTATACGGC
1 ACTATTCACGTATACAGC
* *
65307112 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGC
*
65307130 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
65307147 TAGTTGGGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:65307107 original size:36 final size:36
Alignment explanation
Indices: 65307057--65307146 Score: 135
Period size: 36 Copynumber: 2.5 Consensus size: 36
65307047 CCGTTTACGA
*
65307057 TACTATTCACGTATATAGCACTATTCACGTATACAG
1 TACTATTCACGTATACAGCACTATTCACGTATACAG
* * *
65307093 TACTATTCATGTATACGGCACTATTCACGTATACGG
1 TACTATTCACGTATACAGCACTATTCACGTATACAG
*
65307129 TACTGTTCACGTATACAG
1 TACTATTCACGTATACAG
65307147 TAGTTGGGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (36 bp):
TACTATTCACGTATACAGCACTATTCACGTATACAG
Found at i:65325330 original size:12 final size:12
Alignment explanation
Indices: 65325315--65325361 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
65325305 TTATTTTTCT
65325315 TTACTTTATTTA
1 TTACTTTATTTA
65325327 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
65325340 TT-TTATTATTTA
1 TTACT-TTATTTA
65325352 TTAC-TTATTT
1 TTACTTTATTT
65325362 GGATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:65325339 original size:17 final size:17
Alignment explanation
Indices: 65325298--65325353 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
65325288 CAACCTAATT
65325298 TTTATTTTTATTT-TT-C
1 TTTA-TTTTATTTATTAC
*
65325314 TTTACTTTATTTATTAC
1 TTTATTTTATTTATTAC
65325331 TTTATTTTATTTTATTA-
1 TTTATTTTA-TTTATTAC
65325348 TTTATT
1 TTTATT
65325354 ACTTATTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 7 0.20
16 6 0.17
17 15 0.43
18 7 0.20
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTTATTTATTAC
Found at i:65325344 original size:22 final size:21
Alignment explanation
Indices: 65325297--65325353 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
65325287 GCAACCTAAT
*
65325297 TTTTATTTTTATTTTTCTTTA
1 TTTTATTTTTATTTATCTTTA
*
65325318 CTTTATTTATTACTTTAT-TTTA
1 TTTTATTT-TTA-TTTATCTTTA
65325340 TTTTATTATTTATT
1 TTTTATT-TTTATT
65325354 ACTTATTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 9 0.30
22 16 0.53
23 5 0.17
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTATTTTTATTTATCTTTA
Found at i:65326401 original size:103 final size:101
Alignment explanation
Indices: 65326211--65326401 Score: 269
Period size: 103 Copynumber: 1.9 Consensus size: 101
65326201 TAAGAACATT
* *
65326211 CTGGGCTGAGTAACCCGGGTGGGGTGCTTGGATGTCATCTCTCTTCGCGTCAAAAGGTTCGATGT
1 CTGGGCTGAGTAACCCGGGTGGGGTGCTTGGATGTCATCTCTCTTCCCGTCAAAAGGTTCGATAT
*
65326276 GCTCTTAAGGAAAAAATTTATAATAAATTAGGAGTCTG
66 -CTCTTAAGCAAAAAA-TTATAATAAATTAGGAGTCTG
* *
65326314 CTGGGCTGAGTAACCGGGGTGGGGTGCTTGGTTGTCATCTCTCTTCCCGTCAAAAGGTTCAGTAT
1 CTGGGCTGAGTAACCCGGGTGGGGTGCTTGGATGTCATCTCTCTTCCCGTCAAAAGGTTC-G-AT
65326379 AT-TCTTAAAGCATAAAAA-TATAA
64 ATCTCTT-AAGCA-AAAAATTATAA
65326402 ATAATAAATC
Statistics
Matches: 79, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
103 66 0.84
104 5 0.06
105 8 0.10
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (101 bp):
CTGGGCTGAGTAACCCGGGTGGGGTGCTTGGATGTCATCTCTCTTCCCGTCAAAAGGTTCGATAT
CTCTTAAGCAAAAAATTATAATAAATTAGGAGTCTG
Found at i:65326415 original size:19 final size:18
Alignment explanation
Indices: 65326390--65326446 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
65326380 TTCTTAAAGC
65326390 ATAAAAATATAAATAATAA
1 ATAAAAATATAAATAA-AA
*
65326409 ATCAAAATCA-AAATAAAA
1 ATAAAAAT-ATAAATAAAA
*
65326427 ATAAAAAAATAAAATAAAA
1 ATAAAAATAT-AAATAAAA
65326446 A
1 A
65326447 AATTATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.03
18 8 0.25
19 22 0.69
20 1 0.03
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (18 bp):
ATAAAAATATAAATAAAA
Found at i:65326433 original size:6 final size:6
Alignment explanation
Indices: 65326390--65326446 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
65326380 TTCTTAAAGC
* * * *
65326390 ATAAAA ATATAA ATAATAA ATCAAA ATCAAA ATAAAA ATAAAA AAATAAA
1 ATAAAA ATAAAA ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA ATA-AAA
65326440 ATAAAA A
1 ATAAAA A
65326447 AATTATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
6 33 0.77
7 10 0.23
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:65326440 original size:25 final size:25
Alignment explanation
Indices: 65326390--65326446 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
65326380 TTCTTAAAGC
* *
65326390 ATAAAAATATAAATAATAAATCAAA
1 ATAAAAATAAAAATAAAAAATCAAA
*
65326415 ATCAAAATAAAAATAAAAAAAT-AAA
1 ATAAAAATAAAAAT-AAAAAATCAAA
65326440 ATAAAAA
1 ATAAAAA
65326447 AATTATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (25 bp):
ATAAAAATAAAAATAAAAAATCAAA
Found at i:65326444 original size:13 final size:13
Alignment explanation
Indices: 65326392--65326449 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
65326382 CTTAAAGCAT
65326392 AAAAATATAAAT-A
1 AAAAATA-AAATAA
* *
65326405 ATAAATCAAAATCA
1 AAAAAT-AAAATAA
*
65326419 AAATA-AAAATAA
1 AAAAATAAAATAA
65326431 AAAAATAAAATAA
1 AAAAATAAAATAA
65326444 AAAAAT
1 AAAAAT
65326450 TATAATTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 10 0.27
13 22 0.59
14 5 0.14
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:65336234 original size:18 final size:19
Alignment explanation
Indices: 65336211--65336246 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
65336201 GAATTATTTT
65336211 AGTTTACTTTT-TTTATTG
1 AGTTTACTTTTGTTTATTG
65336229 AGTTTACTTTTGTTTATT
1 AGTTTACTTTTGTTTATT
65336247 AATTTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.67
Consensus pattern (19 bp):
AGTTTACTTTTGTTTATTG
Found at i:65336253 original size:19 final size:18
Alignment explanation
Indices: 65336211--65336253 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
65336201 GAATTATTTT
*
65336211 AGTTTACTTTTTTTATTG
1 AGTTTACTTTTTTTATTA
65336229 AGTTTACTTTTGTTTATTA
1 AGTTTACTTTT-TTTATTA
*
65336248 ATTTTA
1 AGTTTA
65336254 ATCAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.21, C:0.05, G:0.09, T:0.65
Consensus pattern (18 bp):
AGTTTACTTTTTTTATTA
Found at i:65340639 original size:17 final size:17
Alignment explanation
Indices: 65340617--65340650 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65340607 ATCCACTAAT
*
65340617 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
65340634 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
65340651 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:65345278 original size:17 final size:17
Alignment explanation
Indices: 65345256--65345289 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65345246 ATCCACTAAT
*
65345256 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
65345273 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
65345290 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:65346711 original size:6 final size:6
Alignment explanation
Indices: 65346700--65346726 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
65346690 CACGTTACCT
65346700 TTAGGA TTAGGA TTAGGA TTAGGA TTA
1 TTAGGA TTAGGA TTAGGA TTAGGA TTA
65346727 TATATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (6 bp):
TTAGGA
Found at i:65351273 original size:21 final size:21
Alignment explanation
Indices: 65351247--65351289 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
65351237 TGATTTGATT
65351247 TTTTTTCCGAATCGAGTCGAG
1 TTTTTTCCGAATCGAGTCGAG
*
65351268 TTTTTTCCGAATCGAGTTGAG
1 TTTTTTCCGAATCGAGTCGAG
65351289 T
1 T
65351290 GAAATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (21 bp):
TTTTTTCCGAATCGAGTCGAG
Found at i:65351622 original size:9 final size:9
Alignment explanation
Indices: 65351608--65351635 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
65351598 AATATAAATG
65351608 TTTTAATTT
1 TTTTAATTT
65351617 TTTTAATTT
1 TTTTAATTT
65351626 TTTTAATTT
1 TTTTAATTT
65351635 T
1 T
65351636 AAAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTAATTT
Found at i:65354371 original size:41 final size:41
Alignment explanation
Indices: 65354326--65354480 Score: 129
Period size: 41 Copynumber: 3.8 Consensus size: 41
65354316 TTTAAACAAA
* *
65354326 CGCCGCTAATGTTATGGTTTTTAGTGGCGTTTTTTCCTGA-G
1 CGCCGCTAATGTTA-GGTTTTTAGTGGCGTTTTTTCATAATG
* * * *
65354367 CGCCGCTAATTTTAGGGCTTTTAGCGGCG-TTTTTGATAATG
1 CGCCGCTAATGTTA-GGTTTTTAGTGGCGTTTTTTCATAATG
* *
65354408 CGCCGCTAAAGTTGAGGTTTTTAGTGGCGTTTGTTT-ATAAAG
1 CGCCGCTAATGTT-AGGTTTTTAGTGGCGTTT-TTTCATAATG
* * * *
65354450 CGCCACTAGTGTT-GGAGTTTTAGCGGCGTTT
1 CGCCGCTAATGTTAGG-TTTTTAGTGGCGTTT
65354481 CGATGGAAAC
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
40 9 0.10
41 62 0.67
42 18 0.20
43 3 0.03
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.39
Consensus pattern (41 bp):
CGCCGCTAATGTTAGGTTTTTAGTGGCGTTTTTTCATAATG
Found at i:65354471 original size:82 final size:82
Alignment explanation
Indices: 65354326--65354480 Score: 192
Period size: 82 Copynumber: 1.9 Consensus size: 82
65354316 TTTAAACAAA
* * * * *
65354326 CGCCGCTAATGTTATGGTTTTTAGTGGCGTTTTTTCCTGAGCGCCGCTAATTTTAGGGCTTTTAG
1 CGCCGCTAAAGTTATGGTTTTTAGTGGCGTTTTTTCATAAGCGCCACTAATGTTAGGGCTTTTAG
65354391 CGGCGTTTTTGATAATG
66 CGGCGTTTTTGATAATG
*
65354408 CGCCGCTAAAGTTGA-GGTTTTTAGTGGCGTTTGTTT-ATAAAGCGCCACTAGTGTT-GGAG-TT
1 CGCCGCTAAAGTT-ATGGTTTTTAGTGGCGTTT-TTTCAT-AAGCGCCACTAATGTTAGG-GCTT
65354469 TTAGCGGCGTTT
62 TTAGCGGCGTTT
65354481 CGATGGAAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
82 46 0.73
83 17 0.27
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.39
Consensus pattern (82 bp):
CGCCGCTAAAGTTATGGTTTTTAGTGGCGTTTTTTCATAAGCGCCACTAATGTTAGGGCTTTTAG
CGGCGTTTTTGATAATG
Found at i:65354494 original size:82 final size:81
Alignment explanation
Indices: 65354323--65354495 Score: 176
Period size: 82 Copynumber: 2.1 Consensus size: 81
65354313 GTTTTTAAAC
* * * * *
65354323 AAACGCCGCTAATGTTATGGTTTTTAGTGGCGTTTTTTCCTGAGCGCCGCTAATTTTAGGGCTTT
1 AAACGCCGCTAAAGTTATGGTTTTTAGTGGCGTTTTTTCATAAGCGCCACTAATGTTAGGGCTTT
*
65354388 TAGCGGCGTTTTTGAT
66 TAGCGGCGTTTTCGAT
* *
65354404 AATGCGCCGCTAAAGTTGA-GGTTTTTAGTGGCGTTTGTTT-ATAAAGCGCCACTAGTGTT-GGA
1 AA-ACGCCGCTAAAGTT-ATGGTTTTTAGTGGCGTTT-TTTCAT-AAGCGCCACTAATGTTAGG-
65354466 G-TTTTAGCGGCG-TTTCGAT
61 GCTTTTAGCGGCGTTTTCGAT
65354485 GGAAACGCCGC
1 --AAACGCCGC
65354496 AAAATACATT
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
81 8 0.11
82 49 0.64
83 19 0.25
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.36
Consensus pattern (81 bp):
AAACGCCGCTAAAGTTATGGTTTTTAGTGGCGTTTTTTCATAAGCGCCACTAATGTTAGGGCTTT
TAGCGGCGTTTTCGAT
Found at i:65355116 original size:7 final size:7
Alignment explanation
Indices: 65355104--65355160 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
65355094 GGTTAGGAAT
65355104 TTAGGGG
1 TTAGGGG
65355111 TTAGGGG
1 TTAGGGG
**
65355118 TTAGTGAT
1 TTAG-GGG
*
65355126 TTGGGGG
1 TTAGGGG
65355133 TTAGGGG
1 TTAGGGG
**
65355140 TTAAGGAT
1 TT-AGGGG
65355148 TTAGGGG
1 TTAGGGG
65355155 TTAGGG
1 TTAGGG
65355161 TGTCAAGGGT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
7 29 0.76
8 9 0.24
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:65355121 original size:22 final size:21
Alignment explanation
Indices: 65355082--65355160 Score: 106
Period size: 22 Copynumber: 3.7 Consensus size: 21
65355072 GGGATTAAGG
*
65355082 TTTAGGGG-TATGGGTTAGGAA
1 TTTAGGGGTTAGGGGTTAGG-A
65355103 TTTAGGGGTTAGGGGTTAGTGA
1 TTTAGGGGTTAGGGGTTAG-GA
*
65355125 TTTGGGGGTTAGGGGTTAAGGA
1 TTTAGGGGTTAGGGGTT-AGGA
65355147 TTTAGGGGTTAGGG
1 TTTAGGGGTTAGGG
65355161 TGTCAAGGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
21 8 0.15
22 41 0.79
23 3 0.06
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (21 bp):
TTTAGGGGTTAGGGGTTAGGA
Found at i:65356695 original size:24 final size:22
Alignment explanation
Indices: 65356666--65356711 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
65356656 ATCAGTTTTC
65356666 TCCCCAAAAATTCCCCCCAAATTT
1 TCCCCAAAAA-T-CCCCCAAATTT
65356690 TCCCCAAAAATCCCCCAAATTT
1 TCCCCAAAAATCCCCCAAATTT
65356712 AGAACCCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
23 1 0.05
24 10 0.45
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (22 bp):
TCCCCAAAAATCCCCCAAATTT
Found at i:65357734 original size:31 final size:32
Alignment explanation
Indices: 65357699--65357758 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
65357689 TTTTAGCTAG
* *
65357699 ATTTGGTCATTAACCTTTT-AAAAAGAGTCGA
1 ATTTGATCATCAACCTTTTAAAAAAGAGTCGA
*
65357730 ATTTGATTATCAACCTTTTAAAAAAGAGT
1 ATTTGATCATCAACCTTTTAAAAAAGAGT
65357759 TGAAGTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (32 bp):
ATTTGATCATCAACCTTTTAAAAAAGAGTCGA
Found at i:65361454 original size:10 final size:11
Alignment explanation
Indices: 65361421--65361454 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
65361411 CGACCTGCCC
65361421 ATATTAATTTTT
1 ATATTAA-TTTT
65361433 ATATTAATTTT
1 ATATTAATTTT
65361444 ATATT-ATTTT
1 ATATTAATTTT
65361454 A
1 A
65361455 AAATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 6 0.27
11 9 0.41
12 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:65361602 original size:30 final size:30
Alignment explanation
Indices: 65361566--65361628 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
65361556 ACTTAACAAG
65361566 CAAATGTCTTTAAAATAATAACAAAAATAA
1 CAAATGTCTTTAAAATAATAACAAAAATAA
*
65361596 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAAATAA
65361626 CAA
1 CAA
65361629 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAAATAA
Found at i:65368363 original size:24 final size:24
Alignment explanation
Indices: 65368336--65368381 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
65368326 AATAAATTAT
* *
65368336 ATATATATATAGATTTAAAAGAAG
1 ATATATAAACAGATTTAAAAGAAG
*
65368360 ATATATAAACATATTTAAAAGA
1 ATATATAAACAGATTTAAAAGA
65368382 GAATTTAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (24 bp):
ATATATAAACAGATTTAAAAGAAG
Found at i:65368675 original size:28 final size:25
Alignment explanation
Indices: 65368635--65368696 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
65368625 AATCATAGAC
* *
65368635 GATAAATTTTAAA-ATAATAATACAT
1 GATAAA-TTTAAATAAAAAAATACAT
*
65368660 GATGAATTTAAATAAAAAAATACAT
1 GATAAATTTAAATAAAAAAATACAT
65368685 GATAAATTTAAA
1 GATAAATTTAAA
65368697 ATATGTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (25 bp):
GATAAATTTAAATAAAAAAATACAT
Found at i:65368711 original size:22 final size:23
Alignment explanation
Indices: 65368683--65368765 Score: 98
Period size: 22 Copynumber: 3.7 Consensus size: 23
65368673 AAAAAAATAC
*
65368683 ATGATAAATTTAAAAT-ATGTTT
1 ATGATAAATTTAAAATAATATTT
*
65368705 ATGATAAATTTAAAATAATAATAT
1 ATGATAAATTTAAAATAAT-ATTT
* *
65368729 ATTATAAA-TTAAAATAATATTG
1 ATGATAAATTTAAAATAATATTT
*
65368751 ATGATAATTTTAAAA
1 ATGATAAATTTAAAA
65368766 ATATATTAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
22 24 0.47
23 18 0.35
24 9 0.18
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATATTT
Found at i:65368756 original size:46 final size:47
Alignment explanation
Indices: 65368635--65368766 Score: 133
Period size: 46 Copynumber: 2.8 Consensus size: 47
65368625 AATCATAGAC
* *
65368635 GATAAATTTTAAAATAATAATACATGATGAATTTAAATAAAAAAATACAT
1 GATAAA-TTTAAAATAAT-ATTCATGATAAATTTAAA-AAAAAAATACAT
* * * * *
65368685 GATAAATTTAAAAT-ATGTTTATGATAAATTTAAAATAATAATATAT
1 GATAAATTTAAAATAATATTCATGATAAATTTAAAAAAAAAATACAT
* * *
65368731 TATAAA-TTAAAATAATATTGATGATAATTTTAAAAA
1 GATAAATTTAAAATAATATTCATGATAAATTTAAAAA
65368767 TATATTAAGC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
45 7 0.10
46 32 0.46
47 14 0.20
48 2 0.03
49 8 0.12
50 6 0.09
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (47 bp):
GATAAATTTAAAATAATATTCATGATAAATTTAAAAAAAAAATACAT
Found at i:65377714 original size:54 final size:54
Alignment explanation
Indices: 65377619--65377721 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
65377609 ACTCTCTGAA
* *
65377619 ATATTTTCAAACCATGGGATGGATGCCTCTAATCCATCAGGAACCTCAATGGTC
1 ATATTTTCAAACCATGGGATGGATGCATCTAATCCAGCAGGAACCTCAATGGTC
* ** *
65377673 ATATTTTCAAACCATGGGATGGATGTATCTTCTCCAGCAGGAAGCTCAA
1 ATATTTTCAAACCATGGGATGGATGCATCTAATCCAGCAGGAACCTCAA
65377722 CACCATCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (54 bp):
ATATTTTCAAACCATGGGATGGATGCATCTAATCCAGCAGGAACCTCAATGGTC
Found at i:65382221 original size:52 final size:52
Alignment explanation
Indices: 65382164--65382270 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
65382154 TATAATGTTG
*
65382164 CATTTTCAATTGGTATCAAAGCCATACACATAAAGCATTTTATGAGATCTTA
1 CATTTTCAATTGGTATCAAAGCCATACACATAAAGCATTTTATGAGATCTCA
*
65382216 CATTTTCAATTGGTATCAAAGCCATACACATAAAGTATTTTATGAGATCTCA
1 CATTTTCAATTGGTATCAAAGCCATACACATAAAGCATTTTATGAGATCTCA
65382268 CAT
1 CAT
65382271 CTGATAGCCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (52 bp):
CATTTTCAATTGGTATCAAAGCCATACACATAAAGCATTTTATGAGATCTCA
Found at i:65383104 original size:108 final size:108
Alignment explanation
Indices: 65382915--65383130 Score: 405
Period size: 108 Copynumber: 2.0 Consensus size: 108
65382905 GGACTGGACC
*
65382915 CAATAGTAGAATTTATATTGGATTTGTTTATGGATTTATTCACTTGTAGCGCTCATGGTGTGACT
1 CAATAGTAGAATTTATATTGGATTTGTTTATGGATTTATTCACTTGTAACGCTCATGGTGTGACT
65382980 TACCTCGATGCTGAGTAAGTAACTGACCATGTGTACCTAATAG
66 TACCTCGATGCTGAGTAAGTAACTGACCATGTGTACCTAATAG
*
65383023 CAATAGTAGAATTTATATTGGGTTTGTTTATGGATTTATTCACTTGTAACGCTCATGGTGTGACT
1 CAATAGTAGAATTTATATTGGATTTGTTTATGGATTTATTCACTTGTAACGCTCATGGTGTGACT
*
65383088 TACCTCGATTCTGAGTAAGTAACTGACCATGTGTACCTAATAG
66 TACCTCGATGCTGAGTAAGTAACTGACCATGTGTACCTAATAG
65383131 GGGTGAGCAA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (108 bp):
CAATAGTAGAATTTATATTGGATTTGTTTATGGATTTATTCACTTGTAACGCTCATGGTGTGACT
TACCTCGATGCTGAGTAAGTAACTGACCATGTGTACCTAATAG
Found at i:65384480 original size:19 final size:20
Alignment explanation
Indices: 65384447--65384493 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
65384437 AGTTGAGAAT
*
65384447 TTTTTTATTATTTTAATTAA
1 TTTTTGATTATTTTAATTAA
65384467 TTTTTGATTA-TTTAATTAA
1 TTTTTGATTATTTTAATTAA
65384486 TATTTTGA
1 T-TTTTGA
65384494 GAATAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTTGATTATTTTAATTAA
Found at i:65385237 original size:18 final size:18
Alignment explanation
Indices: 65385216--65385250 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65385206 TCTCTCTCTC
*
65385216 TTTTTTATTTCCTTTTTA
1 TTTTTTATTTCATTTTTA
65385234 TTTTTTATTTCATTTTT
1 TTTTTTATTTCATTTTT
65385251 CTCATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTATTTCATTTTTA
Found at i:65385326 original size:20 final size:21
Alignment explanation
Indices: 65385300--65385359 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
65385290 ATATTAAAAA
65385300 TATATTTTTATAATTAAATTT
1 TATATTTTTATAATTAAATTT
*
65385321 TA-ATTTTTTTAA--AAATATT
1 TATATTTTTATAATTAAAT-TT
65385340 TATATTATTTA-AATTAAATT
1 TATATT-TTTATAATTAAATT
65385360 CGGATCGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
18 4 0.12
19 4 0.12
20 14 0.44
21 6 0.19
22 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATTTTTATAATTAAATTT
Found at i:65392305 original size:21 final size:22
Alignment explanation
Indices: 65392276--65392322 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
65392266 CAGAAGGAGT
*
65392276 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65392298 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65392319 GAGT
1 GAGT
65392323 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:65399833 original size:57 final size:57
Alignment explanation
Indices: 65399759--65399866 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 57
65399749 AAAATTCAAT
* **
65399759 ATAGTTGAGTGATTATTTTGTAACTTTTCATAATTAGGTGACCAAAAAAATTTACTA
1 ATAGTTGAGTGACTATTTTGTAACTTTTCATAATTAGGTGAAAAAAAAAATTTACTA
* ** *
65399816 ATAGTTTGA-TGACTATTTTGTAATTTTTTGTAATTGGGTGAAAAAAAAAAT
1 ATAG-TTGAGTGACTATTTTGTAACTTTTCATAATTAGGTGAAAAAAAAAAT
65399867 CATAATTAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 39 0.91
58 4 0.09
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.42
Consensus pattern (57 bp):
ATAGTTGAGTGACTATTTTGTAACTTTTCATAATTAGGTGAAAAAAAAAATTTACTA
Found at i:65427633 original size:21 final size:22
Alignment explanation
Indices: 65427609--65427658 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
65427599 ATCTGTTTTT
*
65427609 ATATT-TTTAATATATTATATA
1 ATATTATTTAATATATGATATA
*
65427630 ATATTACTTTTATATATGATATA
1 ATATTA-TTTAATATATGATATA
65427653 AT-TTAT
1 ATATTAT
65427659 AACACATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 6 0.24
22 3 0.12
23 16 0.64
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTATTTAATATATGATATA
Found at i:65428373 original size:17 final size:17
Alignment explanation
Indices: 65428351--65428384 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
65428341 TCGAGACTTA
65428351 TATATTATTAT-ATAATT
1 TATATTA-TATGATAATT
65428368 TATATTATATGATAATT
1 TATATTATATGATAATT
65428385 AAAAAGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TATATTATATGATAATT
Found at i:65432732 original size:23 final size:23
Alignment explanation
Indices: 65432706--65432758 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
65432696 TACTCATGCA
65432706 ATTCAATACTTCATTTCCATTTC
1 ATTCAATACTTCATTTCCATTTC
*
65432729 ATTCAATGCTTCATTTCCATTTC
1 ATTCAATACTTCATTTCCATTTC
65432752 ATTCAAT
1 ATTCAAT
65432759 TCGCAATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.26, C:0.25, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTCAATACTTCATTTCCATTTC
Found at i:65432760 original size:28 final size:26
Alignment explanation
Indices: 65432699--65432760 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
65432689 CGATACATAC
*
65432699 TCATGCAATTCAATACTTCATTTCCA
1 TCATTCAATTCAATACTTCATTTCCA
*
65432725 T--TTC-ATTCAATGCTTCATTTCCA
1 TCATTCAATTCAATACTTCATTTCCA
65432748 TTTCATTCAATTC
1 --TCATTCAATTC
65432761 GCAATTTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 18 0.62
24 2 0.07
25 1 0.03
26 1 0.03
27 3 0.10
28 4 0.14
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (26 bp):
TCATTCAATTCAATACTTCATTTCCA
Found at i:65433216 original size:46 final size:46
Alignment explanation
Indices: 65433132--65433361 Score: 408
Period size: 46 Copynumber: 5.0 Consensus size: 46
65433122 TACTTGTCCC
*
65433132 TGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
65433177 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
65433223 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
* *
65433269 TGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATCACT
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
65433315 TGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
65433361 T
1 T
65433362 TTCACTGATC
Statistics
Matches: 178, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
45 19 0.11
46 159 0.89
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (46 bp):
TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
Found at i:65438056 original size:21 final size:20
Alignment explanation
Indices: 65438023--65438061 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
65438013 AAAAATCAGA
*
65438023 AAATATTAGTAATAAATTAC
1 AAATATTACTAATAAATTAC
*
65438043 AAATATTAACTAATTAATT
1 AAATATT-ACTAATAAATT
65438062 TTGATAGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATATTACTAATAAATTAC
Found at i:65440589 original size:40 final size:40
Alignment explanation
Indices: 65440498--65440667 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
65440488 TCCTCGTTCA
* * * * *
65440498 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65440537 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
65440577 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTTGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65440617 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
65440657 AAGGCCTTCGG
1 AATGCCTTCGG
65440668 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65440704 original size:80 final size:80
Alignment explanation
Indices: 65440540--65440720 Score: 195
Period size: 80 Copynumber: 2.3 Consensus size: 80
65440530 CTCACACCAT
* * * * *
65440540 GCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGCTTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
*
65440605 ATAACTTGCACGAAT
66 ATAACTTGCACGAAA
** * **
65440620 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* **
65440684 ATTCGCTTAGCAC-AAA
65 AATAACTT-GCACGAAA
*
65440700 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
65440721 CAGCATTCAA
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.04
80 77 0.92
81 4 0.05
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTTGCACGAAA
Found at i:65453519 original size:28 final size:27
Alignment explanation
Indices: 65453440--65453521 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 27
65453430 GAATTGGTAT
* * *
65453440 TTAAATTA-TTTTTTTCATATTAATAT
1 TTAAATTATTTTTTTTCAAATTACTAC
* *
65453466 TTAAATT-TTTTTTGATTAAAAGTACTAC
1 TTAAATTATTTTTT--TTCAAATTACTAC
65453494 TTAAATTATTTTTTTCTCAAATTACTAC
1 TTAAATTATTTTTTT-TCAAATTACTAC
65453522 CTCTATTAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
26 12 0.27
27 1 0.02
28 25 0.57
29 6 0.14
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (27 bp):
TTAAATTATTTTTTTTCAAATTACTAC
Found at i:65454457 original size:19 final size:20
Alignment explanation
Indices: 65454420--65454457 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65454410 AATTACTATA
65454420 TTTAATTAAAAAGTAATTTT
1 TTTAATTAAAAAGTAATTTT
*
65454440 TTTAATTAATAA-TAATTT
1 TTTAATTAAAAAGTAATTT
65454458 AATTAATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTAATTAAAAAGTAATTTT
Found at i:65454463 original size:19 final size:20
Alignment explanation
Indices: 65454421--65454466 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
65454411 ATTACTATAT
**
65454421 TTAATTAAAAAGTAATTTTT
1 TTAATTAAAAAGTAATTTAA
*
65454441 TTAATTAATAA-TAATTTAA
1 TTAATTAAAAAGTAATTTAA
65454460 TTAATTA
1 TTAATTA
65454467 CTTATTTAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAATTAAAAAGTAATTTAA
Found at i:65454849 original size:23 final size:25
Alignment explanation
Indices: 65454808--65454854 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
65454798 AATATTTTAA
*
65454808 TTTTAGAAATAAATTTATA-AATAT
1 TTTTAGAAATAAATGTATATAATAT
65454832 TTTTAGAAAT-AATGTATATAATA
1 TTTTAGAAATAAATGTATATAATA
65454855 CACTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (25 bp):
TTTTAGAAATAAATGTATATAATAT
Done.