Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 199 of 208
Found at i:61523359 original size:16 final size:17
Alignment explanation
Indices: 61523326--61523361 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
61523316 ATAAATTAAC
61523326 ATTATAATTATTAAATAT
1 ATTATAATTA-TAAATAT
61523344 ATTATAATTA-AAATAT
1 ATTATAATTATAAATAT
61523360 AT
1 AT
61523362 AATTTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATAATTATAAATAT
Found at i:61523362 original size:18 final size:19
Alignment explanation
Indices: 61523326--61523374 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
61523316 ATAAATTAAC
*
61523326 ATTATAATTATTAA-ATAT-
1 ATTATAATTA-AAATATATA
61523344 ATTATAATTAAAATATATA
1 ATTATAATTAAAATATATA
61523363 ATT-TAA-TAAAAT
1 ATTATAATTAAAAT
61523375 TCTTAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 8 0.29
18 17 0.61
19 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTATAATTAAAATATATA
Found at i:61523421 original size:59 final size:59
Alignment explanation
Indices: 61523238--61523421 Score: 166
Period size: 59 Copynumber: 3.1 Consensus size: 59
61523228 TAATTAAAAC
*
61523238 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
61523297 ATAT-ATGATACTATAAAATATAAATTAA-CATT-ATAATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAAT-T--CTTAATAATTAAT-ATTCTTATATGA-ATT-TACTCAAATC
61523356 AT-
57 ATA
61523358 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
61523417 ATATA
1 ATATA
61523422 TTATACTATA
Statistics
Matches: 94, Mismatches: 15, Indels: 32
0.67 0.11 0.23
Matches are distributed among these distances:
56 10 0.11
57 14 0.15
58 8 0.09
59 18 0.19
61 13 0.14
62 8 0.09
63 13 0.14
64 10 0.11
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
Found at i:61523433 original size:61 final size:61
Alignment explanation
Indices: 61523248--61523434 Score: 179
Period size: 61 Copynumber: 3.1 Consensus size: 61
61523238 ATATAATTTA
* *
61523248 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATAATACT
* * * * * * * * * *
61523309 ATAAAA-T-AT-A-AATTAACATTATAATTATTAAATATA-TTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAATAATTAATATTCTTA-TA-TGAATTTACTCA-AATCATAATATATAATACT
*
61523367 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATTATACT
1 -ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATAATACT
61523429 ATAAAA
1 ATAAAA
61523435 GATAATTTTA
Statistics
Matches: 93, Mismatches: 23, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
57 10 0.11
58 6 0.06
59 26 0.28
60 2 0.02
61 32 0.34
62 6 0.06
63 11 0.12
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATAATACT
Found at i:61523565 original size:26 final size:28
Alignment explanation
Indices: 61523536--61523596 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
61523526 TATGAATTTG
*
61523536 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
61523562 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
61523590 TAAAATT
1 TATAATT
61523597 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:61523605 original size:101 final size:93
Alignment explanation
Indices: 61523436--61523714 Score: 307
Period size: 91 Copynumber: 2.9 Consensus size: 93
61523426 ACTATAAAAG
* * * *
61523436 ATAATTTTAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATT-TAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTCT--
* * *
61523499 AATAATTATAACTAATAAATTATCTTATATGAATTTGT
63 --T-A--ATAA-T-ATAAATTTTCTTATATGAACTTAT
* * *
61523537 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTGA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
61523602 T-A-ATAAATTTTCTTATATGAACTTAT
66 TAATATAAATTTTCTTATATGAACTTAT
* * *
61523628 ACAATTTAAAATAATTAATATTAAATTTAATTTAATAATGATATATAATTTCATAAAATTCTTAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
*
61523693 TAATA-AAATATTCTTATATGAA
66 TAATATAAATTTTCTTATATGAA
61523715 TTTACTAAAA
Statistics
Matches: 157, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
91 81 0.52
92 17 0.11
93 1 0.01
94 1 0.01
95 2 0.01
98 1 0.01
100 3 0.02
101 50 0.32
102 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
TAATATAAATTTTCTTATATGAACTTAT
Found at i:61523606 original size:91 final size:91
Alignment explanation
Indices: 61523511--61523718 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 91
61523501 TAATTATAAC
* * * *
61523511 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
61523576 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
* * *
61523602 TAATAAATTTTCTTATATGAACTTATACAATTTAAAATAATTAATATTAAATTTAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
61523667 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
61523693 TAATAAAATATTCTTATATGAATTTA
1 TAATAAATTA-TCTTATATGAATTTA
61523719 CTAAAATCAA
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 90 0.87
92 14 0.13
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:61523678 original size:44 final size:44
Alignment explanation
Indices: 61523536--61523678 Score: 114
Period size: 44 Copynumber: 3.2 Consensus size: 44
61523526 TATGAATTTG
* * * *
61523536 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATTTAATTTAATAATGATA
** * *
61523580 TATAATTTCATAAAATTCTTGATAATAAATTT--TCTT-AT-ATGAACTTA
1 TATAA-TT--TAAAATAATTAATATTAAATTTAAT-TTAATAATG-A--TA
*
61523627 TACAATTTAAAATAATTAATATTAAATTTAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATTTAATTTAATAATGATA
61523671 TATAATTT
1 TATAATTT
61523679 CATAAAATTC
Statistics
Matches: 74, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
44 34 0.46
45 8 0.11
46 8 0.11
47 24 0.32
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (44 bp):
TATAATTTAAAATAATTAATATTAAATTTAATTTAATAATGATA
Found at i:61523694 original size:47 final size:47
Alignment explanation
Indices: 61523564--61523699 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 47
61523554 TTATTACATA
* *
61523564 TAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAAATT
1 TAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAAATT
* ** *
61523611 T--TCTT-AT-ATGA-ACTTATACAATT--TAAAATAATTAATATTAAATT
1 TAAT-TTAATAATGATA--TATA-ATTTCATAAAATTCTTAATAATAAATT
61523655 TAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAAA
1 TAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAAA
61523700 ATATTCTTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
43 1 0.01
44 21 0.31
45 12 0.18
46 12 0.18
47 21 0.31
48 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (47 bp):
TAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAAATT
Found at i:61527268 original size:43 final size:41
Alignment explanation
Indices: 61527221--61527326 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 41
61527211 TTATATTTTG
*
61527221 GATTTAAATGTATAGTTTTATATT-AATATTATATAATCAAAAT
1 GATTTTAAT-TATA-TTTTA-ATTAAATATTATATAATCAAAAT
*
61527264 GATTTTAATTATATTTCAATTAAAAATATTATATAATCAAAAT
1 GATTTTAATTATATTTTAATT--AAATATTATATAATCAAAAT
61527307 GATTTTAATTATATTTTAAT
1 GATTTTAATTATATTTTAAT
61527327 ATACCTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
40 3 0.05
41 4 0.07
42 4 0.07
43 46 0.81
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (41 bp):
GATTTTAATTATATTTTAATTAAATATTATATAATCAAAAT
Found at i:61527275 original size:23 final size:23
Alignment explanation
Indices: 61527248--61527320 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
61527238 TTATATTAAT
61527248 ATTATATAATCAAAATGATTTTA
1 ATTATATAATCAAAATGATTTTA
* * * ***
61527271 ATTATAT-TTC-AATTAAAAAT-
1 ATTATATAATCAAAATGATTTTA
61527291 ATTATATAATCAAAATGATTTTA
1 ATTATATAATCAAAATGATTTTA
61527314 ATTATAT
1 ATTATAT
61527321 TTTAATATAC
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
20 7 0.20
21 7 0.20
22 7 0.20
23 14 0.40
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (23 bp):
ATTATATAATCAAAATGATTTTA
Found at i:61528923 original size:21 final size:22
Alignment explanation
Indices: 61528880--61528934 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
61528870 AAGCAGATGG
61528880 AGCCACTGCAAATAAATTATAT
1 AGCCACTGCAAATAAATTATAT
* *
61528902 AGCCACTGCAAA-CAATTGTAT
1 AGCCACTGCAAATAAATTATAT
61528923 AGCCACATGCAA
1 AGCCAC-TGCAA
61528935 TGGGGGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.22
Consensus pattern (22 bp):
AGCCACTGCAAATAAATTATAT
Found at i:61535384 original size:14 final size:14
Alignment explanation
Indices: 61535356--61535417 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
61535346 GATGTCTATG
61535356 TAAA-AAAATTA-A
1 TAAATAAAATTATA
61535368 TAAATAAAATTATA
1 TAAATAAAATTATA
61535382 TAAAATTATAAA-TAT-
1 T-AAA-TA-AAATTATA
*
61535397 TAAATTAAAATAATA
1 TAAA-TAAAATTATA
61535412 TAAATA
1 TAAATA
61535418 TTTTTAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
12 4 0.10
13 10 0.24
14 12 0.29
15 8 0.19
16 5 0.12
17 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAATAAAATTATA
Found at i:61536504 original size:46 final size:46
Alignment explanation
Indices: 61536394--61536631 Score: 383
Period size: 46 Copynumber: 5.2 Consensus size: 46
61536384 CGTATGATCT
* *
61536394 CTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
* *
61536437 CTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
*
61536483 CTTATCACTTTGTCACATGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
* * *
61536529 CTTATCACTTTATCACTTGATTAGATAAGTGTAGTTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
61536575 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
61536621 CTTATCACTTT
1 CTTATCACTTT
61536632 CCACTTGTCA
Statistics
Matches: 179, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
43 8 0.04
44 5 0.03
45 20 0.11
46 146 0.82
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.34
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
Found at i:61544788 original size:16 final size:15
Alignment explanation
Indices: 61544758--61544787 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61544748 CAACACAAAA
61544758 AAAAAATTATTTTTT
1 AAAAAATTATTTTTT
*
61544773 AAAACATTATTTTTT
1 AAAAAATTATTTTTT
61544788 TTCTAATGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
AAAAAATTATTTTTT
Found at i:61547799 original size:11 final size:11
Alignment explanation
Indices: 61547783--61547813 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
61547773 ATACCCATAC
61547783 CCCATACCTTG
1 CCCATACCTTG
*
61547794 CCCATACCTTT
1 CCCATACCTTG
61547805 CCCATACCT
1 CCCATACCT
61547814 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:61548385 original size:18 final size:18
Alignment explanation
Indices: 61548364--61548414 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
61548354 CGTTTACGAT
61548364 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
61548382 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
61548400 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
61548415 AGTAGTTGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:61552483 original size:11 final size:11
Alignment explanation
Indices: 61552467--61552497 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
61552457 ATACCCATAC
61552467 CCCATACCTTG
1 CCCATACCTTG
*
61552478 CCCATACCTTT
1 CCCATACCTTG
61552489 CCCATACCT
1 CCCATACCT
61552498 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:61554867 original size:13 final size:13
Alignment explanation
Indices: 61554849--61554892 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
61554839 ATGGCATTGG
61554849 AAAGTGCTTTTGA
1 AAAGTGCTTTTGA
** *
61554862 AAAGTGCGGTGGA
1 AAAGTGCTTTTGA
*
61554875 AAAGTACTTTTGA
1 AAAGTGCTTTTGA
61554888 AAAGT
1 AAAGT
61554893 TTGATTTAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (13 bp):
AAAGTGCTTTTGA
Found at i:61555639 original size:235 final size:235
Alignment explanation
Indices: 61555223--61555664 Score: 767
Period size: 235 Copynumber: 1.9 Consensus size: 235
61555213 CTCATCTTGG
61555223 ATGGCAGATTCTTGTTTCAAAAGTTGAAGCGTTCTGAGGAGCATTTATCGACTTATTCAATGGTT
1 ATGGCAGATTCTTGTTTCAAAAGTTGAAGCGTTCTGAGGAGCATTTATCGACTTATTCAATGGTT
** *
61555288 TGGGTGAGTTATGTATAGTTTTAAATATAGTATTTATCCTCTTCTATACTTCAGCTAATGCAAGA
66 TGAATGAGTTATGTATAGTTCTAAATATAGTATTTATCCTCTTCTATACTTCAGCTAATGCAAGA
* * *
61555353 CGTAAAGCATCAATGAAGAGTTTTGTCTTTCTTTTGATTGTCACTATCCTTTCTTGTTCAGCTGA
131 CGTAAAGCATCAATGAAGAGTTTTGTCTTTCTTTTAATTGTCACAATCCTTTCTTGTTCAGCTAA
61555418 AATGAAAAAAAAAAAAACATCTTGAGGCTTATTTTAAAAT
196 AATGAAAAAAAAAAAAACATCTTGAGGCTTATTTTAAAAT
*
61555458 ATGGCAGATTCTTGTTTCAAAAGTTGAAGCGTTCTGAGGCGCATTTATCGACTTATTCAATGGTT
1 ATGGCAGATTCTTGTTTCAAAAGTTGAAGCGTTCTGAGGAGCATTTATCGACTTATTCAATGGTT
* * * *
61555523 TGAATGAGTTATGTATAGTTCTAAGTATTGTATTTATCCTCTTCTATACTTTAGCTAATGCGAGA
66 TGAATGAGTTATGTATAGTTCTAAATATAGTATTTATCCTCTTCTATACTTCAGCTAATGCAAGA
* *
61555588 CGTAAAGCATCAATGAAGATTTTTGTCTTTCTTTTAATTGTCACAATCCTTTTTTGTTCAGCTAA
131 CGTAAAGCATCAATGAAGAGTTTTGTCTTTCTTTTAATTGTCACAATCCTTTCTTGTTCAGCTAA
61555653 AATGAAAAAAAA
196 AATGAAAAAAAA
61555665 GAAGCTTAAA
Statistics
Matches: 194, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
235 194 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (235 bp):
ATGGCAGATTCTTGTTTCAAAAGTTGAAGCGTTCTGAGGAGCATTTATCGACTTATTCAATGGTT
TGAATGAGTTATGTATAGTTCTAAATATAGTATTTATCCTCTTCTATACTTCAGCTAATGCAAGA
CGTAAAGCATCAATGAAGAGTTTTGTCTTTCTTTTAATTGTCACAATCCTTTCTTGTTCAGCTAA
AATGAAAAAAAAAAAAACATCTTGAGGCTTATTTTAAAAT
Found at i:61556706 original size:16 final size:16
Alignment explanation
Indices: 61556682--61556719 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
61556672 TTTGGCTCGC
*
61556682 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
61556698 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
61556714 CGTAAT
1 TGTAAT
61556720 AGCAATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:61556762 original size:45 final size:44
Alignment explanation
Indices: 61556698--61556795 Score: 137
Period size: 44 Copynumber: 2.2 Consensus size: 44
61556688 GGAATAGAGG
61556698 TGTAATGGAATAGAGGCGTAATAGCA-ATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATA--ATATTC-ATGTGTTTGGTTGAA
*
61556743 TGTAATGGAATAGAGGCGTAATAATATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAATATTCATGTGTTTGGTTGAA
*
61556787 TGGAATGGA
1 TGTAATGGA
61556796 GGTGTAATAG
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
43 2 0.04
44 24 0.49
45 23 0.47
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAATATTCATGTGTTTGGTTGAA
Found at i:61557000 original size:22 final size:18
Alignment explanation
Indices: 61556957--61556991 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
61556947 ATTATTATTA
61556957 AATATAATTTAATAAAAT
1 AATATAATTTAATAAAAT
61556975 -ATATAATTTAATAAAAT
1 AATATAATTTAATAAAAT
61556992 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATAATTTAATAAAAT
Found at i:61557056 original size:22 final size:23
Alignment explanation
Indices: 61557024--61557067 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
61557014 ATGAATTTAC
*
61557024 TAAAATCATAATATATAATAATA
1 TAAAATCATAATATAAAATAATA
61557047 TAAAAT-ATAATATAAAATAAT
1 TAAAATCATAATATAAAATAAT
61557068 TATTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAAATCATAATATAAAATAATA
Found at i:61557131 original size:120 final size:120
Alignment explanation
Indices: 61556944--61557294 Score: 549
Period size: 120 Copynumber: 3.0 Consensus size: 120
61556934 ATATTTTAAC
61556944 ATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
61557008 TCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAATATAAA
66 TCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAATATAAA
61557063 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* * * *
61557128 TCTTATATGAATTTACTAAAATCATAATATA-AATACTACAAAATATAGT-T-TA
66 TCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAATATAAA
* *
61557180 A-AATTATTATTAAATATAA-TTAGATACAAATATATAA-TTAATAAAATTATTAATATTAAATA
1 ATAATTATTATTAAATATAATTTA-ATAAAAATATATAATTTAATAAAATTCTTAATATTAAATA
* *
61557242 TTCTTATATAAATTTACTAAAATCATAATATATAAT-A-CTAAAATCATAATATA
65 TTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAAT-ATAATATA
61557295 TATAATTTAA
Statistics
Matches: 215, Mismatches: 11, Indels: 14
0.90 0.05 0.06
Matches are distributed among these distances:
114 5 0.02
115 62 0.29
116 35 0.16
117 2 0.01
118 1 0.00
119 41 0.19
120 69 0.32
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (120 bp):
ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
TCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAATATAAA
Found at i:61557300 original size:23 final size:21
Alignment explanation
Indices: 61557256--61557296 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
61557246 TATATAAATT
61557256 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
61557277 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
61557297 TAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:61560610 original size:23 final size:23
Alignment explanation
Indices: 61560540--61560647 Score: 145
Period size: 23 Copynumber: 4.9 Consensus size: 23
61560530 CCTGATCAGT
61560540 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
61560561 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
61560581 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
*
61560604 ATACGACACATATAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
61560627 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
61560648 GACGGCAAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
20 9 0.12
21 23 0.31
23 43 0.57
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:61560820 original size:3 final size:3
Alignment explanation
Indices: 61560812--61560856 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
61560802 ATTCACACAT
61560812 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61560857 CTTACCTCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:61566065 original size:33 final size:32
Alignment explanation
Indices: 61566016--61566090 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
61566006 CATGGATGTC
*
61566016 AAATTA-ATAATTAATTAATTTTTA-AAATTCAA
1 AAATTATATAATAAATT-ATTTTTATAAATT-AA
61566048 AAATTATATAATAAATTATTTTTATAAATTAA
1 AAATTATATAATAAATTATTTTTATAAATTAA
*
61566080 AATTTAT-TAAT
1 AAATTATATAAT
61566091 CTTATTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 4 0.10
32 21 0.54
33 14 0.36
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (32 bp):
AAATTATATAATAAATTATTTTTATAAATTAA
Found at i:61571072 original size:21 final size:23
Alignment explanation
Indices: 61571048--61571094 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
61571038 ACAAAAATTA
61571048 CAAAAAATTC-AAAAT-AATTTT
1 CAAAAAATTCAAAAATAAATTTT
61571069 C-AAAAATTCAAAAATAAATTTT
1 CAAAAAATTCAAAAATAAATTTT
61571091 -AAAA
1 CAAAA
61571095 CTTAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 8 0.35
21 6 0.26
22 9 0.39
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
CAAAAAATTCAAAAATAAATTTT
Found at i:61571073 original size:20 final size:20
Alignment explanation
Indices: 61571050--61571121 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 20
61571040 AAAAATTACA
61571050 AAAAATTC-AAAATAATTTT
1 AAAAATTCAAAAATAATTTT
61571069 CAAAAATTCAAAAATAAATTTT
1 -AAAAATTCAAAAAT-AATTTT
* *
61571091 AAAACTT--AAAAT-ATTAT
1 AAAAATTCAAAAATAATTTT
*
61571108 AAAAATTCTAAAAT
1 AAAAATTCAAAAAT
61571122 TTAAATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
17 10 0.22
19 10 0.22
20 8 0.18
21 11 0.24
22 6 0.13
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAAATAATTTT
Found at i:61571144 original size:18 final size:18
Alignment explanation
Indices: 61571117--61571156 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
61571107 TAAAAATTCT
* *
61571117 AAAATTTAAATTTTTCAA
1 AAAATATAAAATTTTCAA
61571135 AAAATATAAAATTTTCAA
1 AAAATATAAAATTTTCAA
61571153 AAAA
1 AAAA
61571157 GTTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATATAAAATTTTCAA
Found at i:61571184 original size:19 final size:18
Alignment explanation
Indices: 61571160--61571202 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
61571150 CAAAAAAGTT
*
61571160 TTAAAA-ATTATAAAGAAAG
1 TTAAAACATT-TAAA-AAAA
61571179 TTAAAACATTTAAAAAAA
1 TTAAAACATTTAAAAAAA
61571197 TTAAAA
1 TTAAAA
61571203 TAATAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 9 0.41
19 10 0.45
20 3 0.14
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (18 bp):
TTAAAACATTTAAAAAAA
Found at i:61577231 original size:22 final size:20
Alignment explanation
Indices: 61577199--61577238 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
61577189 TATCCAATTT
61577199 TCTCTTATTTTTCTATTTCAC
1 TCTCTTATTTTTCT-TTTCAC
61577220 TCTCTTATTTTTTCTTTTC
1 TCTCTTA-TTTTTCTTTTC
61577239 TCTTTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.68
Consensus pattern (20 bp):
TCTCTTATTTTTCTTTTCAC
Found at i:61577242 original size:17 final size:18
Alignment explanation
Indices: 61577195--61577242 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
61577185 TTTTTATCCA
61577195 ATTTTCTCTTATTTTTCT
1 ATTTTCTCTTATTTTTCT
61577213 ATTTCACTCTCTTATTTTT-T
1 ATTT---TCTCTTATTTTTCT
*
61577233 CTTTTCTCTT
1 ATTTTCTCTT
61577243 TCAATTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 6 0.23
18 4 0.15
20 4 0.15
21 12 0.46
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTCTCTTATTTTTCT
Found at i:61577449 original size:13 final size:13
Alignment explanation
Indices: 61577409--61577500 Score: 87
Period size: 13 Copynumber: 7.1 Consensus size: 13
61577399 ATGGAGTTGG
61577409 AAAGTGCTTTTGA
1 AAAGTGCTTTTGA
* * *
61577422 AAAGTACTATGGA
1 AAAGTGCTTTTGA
*
61577435 AAAGTGTTTTTGA
1 AAAGTGCTTTTGA
* * *
61577448 AAATTGCTGTGGA
1 AAAGTGCTTTTGA
61577461 AAAGTGCTTTTGA
1 AAAGTGCTTTTGA
*
61577474 GAAGTGCTTTT-A
1 AAAGTGCTTTTGA
*
61577486 AGAAGTACTTTTGA
1 A-AAGTGCTTTTGA
61577500 A
1 A
61577501 GTTTAAAATT
Statistics
Matches: 60, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
12 1 0.02
13 57 0.95
14 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.36
Consensus pattern (13 bp):
AAAGTGCTTTTGA
Found at i:61577481 original size:26 final size:26
Alignment explanation
Indices: 61577409--61577481 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
61577399 ATGGAGTTGG
*
61577409 AAAGTGCTTTTGAAAAGTACTATGGA
1 AAAGTGCTTTTGAAAAGTGCTATGGA
* * *
61577435 AAAGTGTTTTTGAAAATTGCTGTGGA
1 AAAGTGCTTTTGAAAAGTGCTATGGA
*
61577461 AAAGTGCTTTTGAGAAGTGCT
1 AAAGTGCTTTTGAAAAGTGCT
61577482 TTTAAGAAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (26 bp):
AAAGTGCTTTTGAAAAGTGCTATGGA
Found at i:61586362 original size:21 final size:22
Alignment explanation
Indices: 61586333--61586379 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
61586323 CAGAAGGAGT
*
61586333 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
61586355 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
61586376 GAGT
1 GAGT
61586380 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:61588853 original size:26 final size:26
Alignment explanation
Indices: 61588824--61588876 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
61588814 AAGGGAAAGA
*
61588824 AACCCAGGCTGCAACCAACTTCCTTG
1 AACCCAGGCTGCAACCAACTACCTTG
61588850 AACCCAGGCTGCAACCAACTACCTTG
1 AACCCAGGCTGCAACCAACTACCTTG
61588876 A
1 A
61588877 TGGATGGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.38, G:0.15, T:0.17
Consensus pattern (26 bp):
AACCCAGGCTGCAACCAACTACCTTG
Found at i:61591970 original size:21 final size:21
Alignment explanation
Indices: 61591940--61591979 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
61591930 TTTTCATTTC
61591940 ATTTGAAAATATAAGTTACAA
1 ATTTGAAAATATAAGTTACAA
* * *
61591961 ATTTGGAAATGTCAGTTAC
1 ATTTGAAAATATAAGTTAC
61591980 CTAACTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.35
Consensus pattern (21 bp):
ATTTGAAAATATAAGTTACAA
Found at i:61603370 original size:11 final size:11
Alignment explanation
Indices: 61603356--61603382 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
61603346 ATAATACAAA
61603356 AAATATTAATT
1 AAATATTAATT
61603367 AAATATTAATT
1 AAATATTAATT
61603378 AAATA
1 AAATA
61603383 ACATTTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAATATTAATT
Found at i:61604015 original size:12 final size:12
Alignment explanation
Indices: 61603998--61604036 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
61603988 TTACAAAAAG
61603998 TTCAAAATAATT
1 TTCAAAATAATT
61604010 TTC-AAA-AA--
1 TTCAAAATAATT
61604018 TTCAAAATAATT
1 TTCAAAATAATT
61604030 TTCAAAA
1 TTCAAAA
61604037 ATTCAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 3 0.13
9 3 0.13
10 4 0.17
11 3 0.13
12 10 0.43
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (12 bp):
TTCAAAATAATT
Found at i:61604045 original size:21 final size:20
Alignment explanation
Indices: 61603991--61604121 Score: 103
Period size: 20 Copynumber: 6.4 Consensus size: 20
61603981 ACAAAAATTA
61603991 CAAAAAGTTCAAAATAATTTT
1 CAAAAA-TTCAAAATAATTTT
61604012 CAAAAATTCAAAATAATTTT
1 CAAAAATTCAAAATAATTTT
*
61604032 CAAAAATTCAAAAATAAAATTT
1 CAAAAATTC-AAAAT-AATTTT
*
61604054 --AAAACTCAAAAT-ATTTAT
1 CAAAAATTCAAAATAATTT-T
61604072 -AAAAATTCTAAAATTTATATTTTT
1 CAAAAATTC-AAAA--TA-A-TTTT
* *
61604096 CAAAAAAT-ATAA-AATTTT
1 CAAAAATTCAAAATAATTTT
61604114 CAAAAATT
1 CAAAAATT
61604122 TTTTAAAAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
17 3 0.03
18 12 0.13
19 12 0.13
20 34 0.37
21 11 0.12
22 6 0.07
23 3 0.03
24 2 0.02
25 9 0.10
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (20 bp):
CAAAAATTCAAAATAATTTT
Found at i:61604152 original size:20 final size:19
Alignment explanation
Indices: 61604127--61604169 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
61604117 AAATTTTTTA
*
61604127 AAAAAATTATAAAGAAAGTT
1 AAAAAATTATAAA-AAAATT
*
61604147 AAAAAATTTTAAAAAAATT
1 AAAAAATTATAAAAAAATT
61604166 AAAA
1 AAAA
61604170 TAATAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
AAAAAATTATAAAAAAATT
Found at i:61615583 original size:27 final size:27
Alignment explanation
Indices: 61615526--61615584 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
61615516 TTTTCTCCTA
*
61615526 TTTTT-CTATTTCACTCTCTTGTTTTT
1 TTTTTCCTATTTCAATCTCTTGTTTTT
61615552 TTTTTCCTATTTCAAT-T-TTGTTTCTT
1 TTTTTCCTATTTCAATCTCTTGTTT-TT
61615578 TCTTTTC
1 T-TTTTC
61615585 TTCCTATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.21
26 9 0.31
27 14 0.48
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.69
Consensus pattern (27 bp):
TTTTTCCTATTTCAATCTCTTGTTTTT
Found at i:61616420 original size:12 final size:12
Alignment explanation
Indices: 61616403--61616428 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61616393 GAATATTATA
61616403 AGGAAGTTAGTC
1 AGGAAGTTAGTC
61616415 AGGAAGTTAGTC
1 AGGAAGTTAGTC
61616427 AG
1 AG
61616429 TTGTCAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.23
Consensus pattern (12 bp):
AGGAAGTTAGTC
Found at i:61617255 original size:12 final size:12
Alignment explanation
Indices: 61617238--61617263 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61617228 GAATATTATA
61617238 AGGAAGTTAGTC
1 AGGAAGTTAGTC
61617250 AGGAAGTTAGTC
1 AGGAAGTTAGTC
61617262 AG
1 AG
61617264 TTGTCAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.23
Consensus pattern (12 bp):
AGGAAGTTAGTC
Found at i:61618909 original size:21 final size:21
Alignment explanation
Indices: 61618885--61618926 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61618875 CGTCGATCAC
61618885 CTTGCTCTTG-TGTCGTCACTG
1 CTTG-TCTTGATGTCGTCACTG
* *
61618906 CTTGTTTTGATGTTGTCACTG
1 CTTGTCTTGATGTCGTCACTG
61618927 ATCGGAGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.07, C:0.21, G:0.24, T:0.48
Consensus pattern (21 bp):
CTTGTCTTGATGTCGTCACTG
Found at i:61646398 original size:21 final size:21
Alignment explanation
Indices: 61646372--61646412 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61646362 AGACGAGCAA
* *
61646372 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
61646393 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
61646413 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:61651180 original size:204 final size:204
Alignment explanation
Indices: 61650921--61651333 Score: 567
Period size: 204 Copynumber: 2.0 Consensus size: 204
61650911 TCCATTTACG
** * * * * ** *
61650921 TTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACGCTACTCATGTTGGCGCCATTGAGAAG
1 TTAACATAAACATCCAAGCTACCGGAGCCAACCTTAACGCAAATCACATTGGCGCCAATGAGAAG
* * * *
61650986 ATATATCCTTTCATTCTCTTTCTCA-TCTACTATATCCGCCTCCTGCTGATTCATAGTAATAGTG
66 ATATATCCTTTCATTCTCTTTCTCAGT-TACAATATCCACCTCCTGCTGAGTCATAGTAATAGTA
* * *
61651050 ACCGAATCAGATTCAGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGCCATCCGATTCCAC
130 ACCGAATCAGATTCAGATTTCACTTCCTGGTCCTCTTCGACAATGCAATTGCCACCCGATTCCAC
* **
61651115 TACTGCTCCA
195 AACAACTCCA
* *
61651125 TTAACATAAACATCTAAGCTACCGGAGCCAACCTTAACGCAAATCGCATTGGCGCCAATGAGAAG
1 TTAACATAAACATCCAAGCTACCGGAGCCAACCTTAACGCAAATCACATTGGCGCCAATGAGAAG
* * *
61651190 ATATCTCGTTTCATTCTCTTTCTCAGTTACAATATCCACCTCCTGCTGAGTCATAGTAATTGTAA
66 ATATATCCTTTCATTCTCTTTCTCAGTTACAATATCCACCTCCTGCTGAGTCATAGTAATAGTAA
* * *
61651255 CCGAATCAGGTTCGGATTTCACTTCCTGGTCCTCTTCGACAATGCAATTGTCACCCGATTCCACA
131 CCGAATCAGATTCAGATTTCACTTCCTGGTCCTCTTCGACAATGCAATTGCCACCCGATTCCACA
61651320 ACAACTCCA
196 ACAACTCCA
61651329 TTAAC
1 TTAAC
61651334 GGAGTCGCTT
Statistics
Matches: 181, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
204 180 0.99
205 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (204 bp):
TTAACATAAACATCCAAGCTACCGGAGCCAACCTTAACGCAAATCACATTGGCGCCAATGAGAAG
ATATATCCTTTCATTCTCTTTCTCAGTTACAATATCCACCTCCTGCTGAGTCATAGTAATAGTAA
CCGAATCAGATTCAGATTTCACTTCCTGGTCCTCTTCGACAATGCAATTGCCACCCGATTCCACA
ACAACTCCA
Found at i:61651522 original size:228 final size:227
Alignment explanation
Indices: 61651125--61652351 Score: 1648
Period size: 228 Copynumber: 5.5 Consensus size: 227
61651115 TACTGCTCCA
** * * * ** *
61651125 TTAACATAAACATCTAAGCTACCGGAGCCAACCTTAACGCAAATCGCATTGGCGCCAATGAGAAG
1 TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
* * *
61651190 ATATCTCGTTTCATTCTCTTTCTCAGTTACAATATCCACCTCCTGCTGAGTCATAGTAATTGTAA
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
* * * *
61651255 CCGAATCAGGTTCGGATTTCACTTCCTGGTCCTCTTCGACAATGCAATTGTCACCCGATTCCACA
131 CCGAATCAGATTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACT
* *
61651320 ACAACTCCATTAACGGAGTCGCTTCCATTTACG
196 ACAACTCCATTAACGGAGTCG-TTCCATCTAGG
* * * *
61651353 TTAACATAAATATCCGTGCTGCCGGTGCCAACCTTAACTCTACTCGTGTTGGCGCCATTGAGAAG
1 TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
* * * * *
61651418 ATGTCTCGTTTCATTCTCTTTCTCATCTACTATATCCGCCTCCTGCTGATTCATAGTAATAGTGA
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
* * * *
61651483 CCGAATCAGATTCGGATTTCACTTCGTGGTTTTCTTCGACAATGCAATTGCCATCTGATTCCACT
131 CCGAATCAGATTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACT
* *
61651548 ACAGCTCCATTAACGGAGTCGTT---TCCA--
196 ACAACTCCATTAACGGAGTCGTTCCATCTAGG
* * * * * * * *
61651575 TTAACATAGACATCTGAGCTGCCAGAGCCAACCTTAACGCAAATCGCGTTGGCGCCAATAAGAAG
1 TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
* * *
61651640 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGTTGAGTCATAGTAATTGTAA
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
*
61651705 CCGAATCAGATTCGGATTTCACTTCGTGTTCTTCTTCGACAATGCAATTGTCACCCGATTCCACT
131 CCGAATCAGATTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACT
61651770 ACAACTCCATTAACGGAGTCGTTGCCATCTAGG
196 ACAACTCCATTAACGGAGTCGTT-CCATCTAGG
* * *** *
61651803 TTAGCATAAGCATCCGAGCCATCGGAGCCAACGTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
1 TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
*
61651868 ATATCTCGTTTCATTCTGTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
* * * *
61651933 CCGAATCAGATTCGGATTGCACTTCATGGTCTTCTTCGACAATGCAATTGTCTCCCGGTTCCACT
131 CCGAATCAGATTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACT
*
61651998 ACAACTCCATTAACAGAGTCGTTCCCATCTAGG
196 ACAACTCCATTAACGGAGTCGTT-CCATCTAGG
* *
61652031 TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCTGCTCATGTTGGCGCCATTGAGAAG
1 TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
61652096 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
* * * *
61652161 CCGAATCAGATTCGG-TTGGCACTTCGTGGTCTTCTTCGACAATGCAATTGCCATCCGATTCCAT
131 CCGAATCAGATTCGGATT-TCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCAC
* *
61652225 TACAACTCCATTATCGGAGTCGTT---TCCA--
195 TACAACTCCATTAACGGAGTCGTTCCATCTAGG
* * *
61652253 TTAACATAAACATCCGAGCTCCCGGAACCAACCTTAACGCAACTC------GCG---TTGAGAAG
1 TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
* * *
61652309 ATATTTCTTTTCATTCCCTTTCTCAGCTACAATATCCACCTCC
66 ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCC
61652352 GCGGCTACAT
Statistics
Matches: 884, Mismatches: 108, Indels: 29
0.87 0.11 0.03
Matches are distributed among these distances:
213 48 0.05
216 3 0.00
222 233 0.26
224 5 0.01
226 3 0.00
227 4 0.00
228 588 0.67
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (227 bp):
TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAG
ATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATAGTAATAGTAA
CCGAATCAGATTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACT
ACAACTCCATTAACGGAGTCGTTCCATCTAGG
Found at i:61651970 original size:450 final size:450
Alignment explanation
Indices: 61651120--61652351 Score: 1708
Period size: 450 Copynumber: 2.8 Consensus size: 450
61651110 TCCACTACTG
* * *
61651120 CTCCATTAACATAAACATCTAAGCTACCGGAGCCAACCTTAACGCAAATCGCATTGGCGCCAATG
1 CTCCATTAACATAAACATCTGAGCTGCCGGAGCCAACCTTAACGCAAATCGCGTTGGCGCCAATG
*
61651185 AGAAGATATCTCGTTTCATTCTCTTTCTCAGTTACAATATCCACCTCCTGCTGAGTCATAGTAAT
66 AGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGAGTCATAGTAAT
* * *
61651250 TGTAACCGAATCAGGTTCGGATTTCACTTCCTGGTCCTCTTCGACAATGCAATTGTCACCCGATT
131 TGTAACCGAATCAGATTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATT
* * * * ** *
61651315 CCACAACAACTCCATTAACGGAGTCGCTTCCATTTACGTTAACATAAATATCCGTGCTGCCGGTG
196 CCACTACAACTCCATTAACGGAGTCG-TTCCATCTACGTTAACATAAACATCCGAGCCACCGGAG
* * *
61651380 CCAACCTTAACTCTACTCGTGTTGGCGCCATTGAGAAGATGTCTCGTTTCATTCTCTTTCTCATC
260 CCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCAGC
* * * * *
61651445 TACTATATCCGCCTCCTGCTGATTCATAGTAATAGTGACCGAATCAGATTCGGATTTCACTTCGT
325 TACAATATCCACCTCCTGCTGATTCATAGTAATAGTAACCGAATCAGATTCGGATTGCACTTCAT
* * * *
61651510 GGTTTTCTTCGACAATGCAATTGCCAT-CTGATTCCACTACAGCTCCATTAACGGAGTCGTT
390 GGTCTTCTTCGACAATGCAATTGCC-TCCCGATTCCACTACAACTCCATTAACAGAGTCGTT
* * *
61651571 -TCCATTAACATAGACATCTGAGCTGCCAGAGCCAACCTTAACGCAAATCGCGTTGGCGCCAATA
1 CTCCATTAACATAAACATCTGAGCTGCCGGAGCCAACCTTAACGCAAATCGCGTTGGCGCCAATG
*
61651635 AGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGTTGAGTCATAGTAAT
66 AGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGAGTCATAGTAAT
*
61651700 TGTAACCGAATCAGATTCGGATTTCACTTCGTGTTCTTCTTCGACAATGCAATTGTCACCCGATT
131 TGTAACCGAATCAGATTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATT
* * * *
61651765 CCACTACAACTCCATTAACGGAGTCGTTGCCATCTAGGTTAGCATAAGCATCCGAGCCATCGGAG
196 CCACTACAACTCCATTAACGGAGTCGTT-CCATCTACGTTAACATAAACATCCGAGCCACCGGAG
* *
61651830 CCAACGTTAACGCTACTCGTGTTGGCGCCATTGAGAAGATATCTCGTTTCATTCTGTTTCTCAGC
260 CCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCAGC
61651895 TACAATATCCACCTCCTGCTGATTCATAGTAATAGTAACCGAATCAGATTCGGATTGCACTTCAT
325 TACAATATCCACCTCCTGCTGATTCATAGTAATAGTAACCGAATCAGATTCGGATTGCACTTCAT
* *
61651960 GGTCTTCTTCGACAATGCAATTGTCTCCCGGTTCCACTACAACTCCATTAACAGAGTCGTT
390 GGTCTTCTTCGACAATGCAATTGCCTCCCGATTCCACTACAACTCCATTAACAGAGTCGTT
* * *** **
61652021 CCCATCTAGGTTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCTGCTCATGTTGGCGC
1 --C-TCCA--TTAACATAAACATCTGAGCTGCCGGAGCCAACCTTAACGCAAATCGCGTTGGCGC
* *
61652086 CATTGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGATTCATA
61 CAATGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGAGTCATA
* * * *
61652151 GTAATAGTAACCGAATCAGATTCGG-TTGGCACTTCGTGGTCTTCTTCGACAATGCAATTGCCAT
126 GTAATTGTAACCGAATCAGATTCGGATT-TCACTTCGTGGTCTTCTTCGACAATGCAATTGTCAC
* * *
61652215 CCGATTCCATTACAACTCCATTATCGGAGTCGTT---TC--CATTAACATAAACATCCGAGCTC-
190 CCGATTCCACTACAACTCCATTAACGGAGTCGTTCCATCTACGTTAACATAAACATCCGAGC-CA
* * * * *
61652274 CCGGAACCAACCTTAACGCAACTC------GCG---TTGAGAAGATATTTCTTTTCATTCCCTTT
254 CCGGAGCCAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAGATATCTCGTTTCATTCTCTTT
61652330 CTCAGCTACAATATCCACCTCC
319 CTCAGCTACAATATCCACCTCC
61652352 GCGGCTACAT
Statistics
Matches: 700, Mismatches: 71, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
441 47 0.07
444 3 0.00
449 3 0.00
450 443 0.63
451 1 0.00
452 2 0.00
454 3 0.00
455 2 0.00
456 196 0.28
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (450 bp):
CTCCATTAACATAAACATCTGAGCTGCCGGAGCCAACCTTAACGCAAATCGCGTTGGCGCCAATG
AGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGAGTCATAGTAAT
TGTAACCGAATCAGATTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATT
CCACTACAACTCCATTAACGGAGTCGTTCCATCTACGTTAACATAAACATCCGAGCCACCGGAGC
CAACCTTAACGCTACTCGTGTTGGCGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCT
ACAATATCCACCTCCTGCTGATTCATAGTAATAGTAACCGAATCAGATTCGGATTGCACTTCATG
GTCTTCTTCGACAATGCAATTGCCTCCCGATTCCACTACAACTCCATTAACAGAGTCGTT
Found at i:61653210 original size:176 final size:174
Alignment explanation
Indices: 61652881--61653233 Score: 438
Period size: 176 Copynumber: 2.0 Consensus size: 174
61652871 ATTCACTTTG
* * * *
61652881 GTTTCAATTCAGTCATTCAACTTTTAAAAAATAACAAAACAATCACTAATGTTATCAAAAAGTGA
1 GTTTCAATTCAGCCACTCAACTTTCAAAAAATAACAAAACAATCACTAACGTTATCAAAAAGTGA
* * ** * *
61652946 CAAAATAGTCACCCATTAACATTTTCTGTTACAGGCCTAACGGGACAGGTGATGTGGCCAGTTAA
66 CAAAATAGTCACCCATTAACATTTTCTGTTACAGACCTAACGAGACAGGTGACATGACCAGTAAA
* * * * * *
61653011 CTAGCTGACGTGGCCAGTTAACTTGCCACGTTGGATGAGGCTAA
131 CTAGCTAACGTGACCAATTAACTTGCCACGTTAGACGAGGCAAA
* *
61653055 GTTTCAATTCAGCCACTCAACTTTACAAAAAATTAACAAATCAGTCACTAACGTTATCAAAAAGT
1 GTTTCAATTCAGCCACTCAACTTT-CAAAAAA-TAACAAAACAATCACTAACGTTATCAAAAAGT
* * * *
61653120 GACAAATTAGTCACCCATTAACATTTT-TGGTTATAGACCTAACGAGACAGGTGGCATGACTAGT
64 GACAAAATAGTCACCCATTAACATTTTCT-GTTACAGACCTAACGAGACAGGTGACATGACCAGT
* * **
61653184 AAATTAGCTAATGTGATTAATTAACTTGCCACGTTAGACGAGGCAAA
128 AAACTAGCTAACGTGACCAATTAACTTGCCACGTTAGACGAGGCAAA
61653231 GTT
1 GTT
61653234 GAGTGACTAT
Statistics
Matches: 150, Mismatches: 26, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
174 22 0.15
175 7 0.05
176 121 0.81
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (174 bp):
GTTTCAATTCAGCCACTCAACTTTCAAAAAATAACAAAACAATCACTAACGTTATCAAAAAGTGA
CAAAATAGTCACCCATTAACATTTTCTGTTACAGACCTAACGAGACAGGTGACATGACCAGTAAA
CTAGCTAACGTGACCAATTAACTTGCCACGTTAGACGAGGCAAA
Found at i:61653305 original size:29 final size:29
Alignment explanation
Indices: 61653267--61653323 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
61653257 TCCTTTTTCA
* *
61653267 TTTTTTCATAAATGTCCCAATATCTTTAC
1 TTTTTGCATAAATGGCCCAATATCTTTAC
*
61653296 TTTTTGCATAAATGGCCCAATATGTTTA
1 TTTTTGCATAAATGGCCCAATATCTTTA
61653324 TACTTCTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.46
Consensus pattern (29 bp):
TTTTTGCATAAATGGCCCAATATCTTTAC
Found at i:61654306 original size:23 final size:24
Alignment explanation
Indices: 61654280--61654326 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
61654270 TTTTTTCAAG
61654280 TGTTA-ACTACCATGTCACTTTTT
1 TGTTACACTACCATGTCACTTTTT
* *
61654303 TGTTACGTCTGCCATGTCACTTTT
1 TGTTAC-ACTACCATGTCACTTTT
61654327 CCGTTACAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
25 15 0.75
ACGTcount: A:0.17, C:0.23, G:0.13, T:0.47
Consensus pattern (24 bp):
TGTTACACTACCATGTCACTTTTT
Found at i:61655284 original size:23 final size:21
Alignment explanation
Indices: 61655245--61655293 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 21
61655235 AGGTTCAAAA
61655245 TTCAA-GTTCGAGGTTTAGGG
1 TTCAAGGTTCGAGGTTTAGGG
61655265 TTCAAGGTTCGAAGGGTTTAGGG
1 TTCAAGGTTCG-A-GGTTTAGGG
61655288 TTCAAG
1 TTCAAG
61655294 TTTGAGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.19
21 5 0.19
22 1 0.04
23 15 0.58
ACGTcount: A:0.22, C:0.10, G:0.35, T:0.33
Consensus pattern (21 bp):
TTCAAGGTTCGAGGTTTAGGG
Found at i:61664844 original size:23 final size:23
Alignment explanation
Indices: 61664814--61664859 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
61664804 CGCTTATCTT
*
61664814 CATGTTGAGCTGCTGCTAGTCTC
1 CATGTTGAACTGCTGCTAGTCTC
*
61664837 CATGTTGAACTGCTGCTGGTCTC
1 CATGTTGAACTGCTGCTAGTCTC
61664860 TTGTTGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.26, G:0.26, T:0.35
Consensus pattern (23 bp):
CATGTTGAACTGCTGCTAGTCTC
Found at i:61671110 original size:223 final size:223
Alignment explanation
Indices: 61670715--61671167 Score: 897
Period size: 223 Copynumber: 2.0 Consensus size: 223
61670705 AAAAAAATTC
*
61670715 TAAAAAAATATATTGATAGGTGTTGAATCCACCAATATAAACCTACACCTAATTTTGAAAATTTA
1 TAAAAAGATATATTGATAGGTGTTGAATCCACCAATATAAACCTACACCTAATTTTGAAAATTTA
61670780 AGCAGTATAGGGAGTAGGGCCGATCCCTCAGAAACTGGGTTTACTGCAAATTGTTGCTCTCTTGA
66 AGCAGTATAGGGAGTAGGGCCGATCCCTCAGAAACTGGGTTTACTGCAAATTGTTGCTCTCTTGA
61670845 CCAGATTTATGTCGGGGCAGTTGTCGTGCCCAAGATATTAGGGGGGAGGATAAAATCAAAAACCT
131 CCAGATTTATGTCGGGGCAGTTGTCGTGCCCAAGATATTAGGGGGGAGGATAAAATCAAAAACCT
61670910 GGAACCTGAAATAAATAAATAAAACGCA
196 GGAACCTGAAATAAATAAATAAAACGCA
61670938 TAAAAAGATATATTGATAGGTGTTGAATCCACCAATATAAACCTACACCTAATTTTGAAAATTTA
1 TAAAAAGATATATTGATAGGTGTTGAATCCACCAATATAAACCTACACCTAATTTTGAAAATTTA
61671003 AGCAGTATAGGGAGTAGGGCCGATCCCTCAGAAACTGGGTTTACTGCAAATTGTTGCTCTCTTGA
66 AGCAGTATAGGGAGTAGGGCCGATCCCTCAGAAACTGGGTTTACTGCAAATTGTTGCTCTCTTGA
61671068 CCAGATTTATGTCGGGGCAGTTGTCGTGCCCAAGATATTAGGGGGGAGGATAAAATCAAAAACCT
131 CCAGATTTATGTCGGGGCAGTTGTCGTGCCCAAGATATTAGGGGGGAGGATAAAATCAAAAACCT
61671133 GGAACCTGAAATAAATAAATAAAACGCA
196 GGAACCTGAAATAAATAAATAAAACGCA
61671161 TAAAAAG
1 TAAAAAG
61671168 TAAAAGTTGA
Statistics
Matches: 229, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
223 229 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (223 bp):
TAAAAAGATATATTGATAGGTGTTGAATCCACCAATATAAACCTACACCTAATTTTGAAAATTTA
AGCAGTATAGGGAGTAGGGCCGATCCCTCAGAAACTGGGTTTACTGCAAATTGTTGCTCTCTTGA
CCAGATTTATGTCGGGGCAGTTGTCGTGCCCAAGATATTAGGGGGGAGGATAAAATCAAAAACCT
GGAACCTGAAATAAATAAATAAAACGCA
Found at i:61681665 original size:27 final size:27
Alignment explanation
Indices: 61681635--61681702 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
61681625 AAGGGAACAC
61681635 TGTTGGCGGCACCAAACAAGGAAACCT
1 TGTTGGCGGCACCAAACAAGGAAACCT
**
61681662 TGTTGGCGGCACCAAACAAGGATTCCT
1 TGTTGGCGGCACCAAACAAGGAAACCT
61681689 TGTTGGCGGCACCA
1 TGTTGGCGGCACCA
61681703 CCTTAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (27 bp):
TGTTGGCGGCACCAAACAAGGAAACCT
Found at i:61682546 original size:28 final size:27
Alignment explanation
Indices: 61682513--61682579 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
61682503 ATAAAAAATT
*
61682513 ACCAAAATATTATAACTTTTTTTTATTG
1 ACCAAAATATTATAA-TTTTTATTATTG
* *
61682541 ATCAAAATATATATAATTTTTATTATTT
1 ACCAAAATAT-TATAATTTTTATTATTG
61682569 ACCAAAATATT
1 ACCAAAATATT
61682580 TCAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.03
28 28 0.82
29 5 0.15
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAATTTTTATTATTG
Found at i:61682596 original size:11 final size:11
Alignment explanation
Indices: 61682582--61682621 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
61682572 AAAATATTTC
*
61682582 AAAAAAAAATA
1 AAAAAAAAAGA
61682593 AAAAAAAAAGA
1 AAAAAAAAAGA
* *
61682604 ATAAAAAAGGA
1 AAAAAAAAAGA
61682615 AAAAAAA
1 AAAAAAA
61682622 CACAGTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.07, T:0.05
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:61682599 original size:14 final size:14
Alignment explanation
Indices: 61682582--61682611 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61682572 AAAATATTTC
61682582 AAAAAAAAATAAAA
1 AAAAAAAAATAAAA
*
61682596 AAAAAAGAATAAAA
1 AAAAAAAAATAAAA
61682610 AA
1 AA
61682612 GGAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (14 bp):
AAAAAAAAATAAAA
Found at i:61684815 original size:18 final size:18
Alignment explanation
Indices: 61684789--61684826 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
61684779 ATCCCAATGA
*
61684789 TCGCCACCACCTTCTTCT
1 TCGCAACCACCTTCTTCT
61684807 TCGCAACCACCTTCTTCT
1 TCGCAACCACCTTCTTCT
61684825 TC
1 TC
61684827 ACCACCAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.47, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACCTTCTTCT
Found at i:61684833 original size:18 final size:18
Alignment explanation
Indices: 61684792--61684833 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
61684782 CCAATGATCG
*
61684792 CCACCACCTTCTTCTTCG
1 CCACCACCTTCTTCTTCA
*
61684810 CAACCACCTTCTTCTTCA
1 CCACCACCTTCTTCTTCA
61684828 CCACCA
1 CCACCA
61684834 ACCATATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.50, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACCTTCTTCTTCA
Found at i:61685559 original size:61 final size:62
Alignment explanation
Indices: 61685448--61685565 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 62
61685438 CCACTAATCC
* *
61685448 TAATAACTAACACAATAATAATATTAATAATTTTATATACAAAATAATACTAACTAAAATTAT
1 TAATAACTAACACAAAAATAATACTAAT-ATTTTATATACAAAATAATACTAACTAAAATTAT
*
61685511 TAATAACTAACTACAAAAATAATACTAAT-TTTT-TACTA-ACAATAATACTAACTAA
1 TAATAACTAAC-ACAAAAATAATACTAATATTTTATA-TACAAAATAATACTAACTAA
61685566 CATCTTAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
61 18 0.36
62 6 0.12
63 11 0.22
64 15 0.30
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (62 bp):
TAATAACTAACACAAAAATAATACTAATATTTTATATACAAAATAATACTAACTAAAATTAT
Found at i:61685579 original size:3 final size:3
Alignment explanation
Indices: 61685571--61685602 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
61685561 ACTAACATCT
61685571 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
61685603 CTATAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:61685993 original size:27 final size:27
Alignment explanation
Indices: 61685889--61685984 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
61685879 ATAACACGAG
61685889 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
61685916 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
* ** *
61685943 TGGTGCCACCAACAGGGTTCCCTTCTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
61685970 TGGTGCCGCCAACAG
1 TGGTGCCGCCAACAG
61685985 TGTTCCCTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.18, C:0.31, G:0.28, T:0.23
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGAACCCTTGTT
Found at i:61686042 original size:9 final size:8
Alignment explanation
Indices: 61686023--61686068 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
61686013 TCGGTCCAGG
61686023 TTTTTT-T
1 TTTTTTGT
*
61686030 TTTTCTGT
1 TTTTTTGT
61686038 TTTTTAT-T
1 TTTTT-TGT
61686046 TTTTTTGT
1 TTTTTTGT
61686054 TTTTTTAGT
1 TTTTTT-GT
61686063 TTTTTT
1 TTTTTT
61686069 TTTATATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 6 0.18
8 18 0.55
9 9 0.27
ACGTcount: A:0.04, C:0.02, G:0.07, T:0.87
Consensus pattern (8 bp):
TTTTTTGT
Found at i:61686049 original size:17 final size:17
Alignment explanation
Indices: 61686023--61686069 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
61686013 TCGGTCCAGG
*
61686023 TTTTT-TTTTTTCTG-T
1 TTTTTATTTTTTTTGTT
61686038 TTTTTATTTTTTTTGTT
1 TTTTTATTTTTTTTGTT
61686055 TTTTTAGTTTTTTTT
1 TTTTTA-TTTTTTTT
61686070 TTATATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 5 0.18
16 8 0.29
17 7 0.25
18 8 0.29
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.87
Consensus pattern (17 bp):
TTTTTATTTTTTTTGTT
Found at i:61686049 original size:18 final size:18
Alignment explanation
Indices: 61686026--61686069 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
61686016 GTCCAGGTTT
61686026 TTTTTTTTCTGTTTTTTA-
1 TTTTTTTTCT-TTTTTTAG
*
61686044 TTTTTTTTGTTTTTTTAG
1 TTTTTTTTCTTTTTTTAG
61686062 TTTTTTTT
1 TTTTTTTT
61686070 TTATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.05, C:0.02, G:0.07, T:0.86
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTTAG
Found at i:61686107 original size:27 final size:29
Alignment explanation
Indices: 61686071--61686140 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
61686061 GTTTTTTTTT
61686071 TATATATTTTGGTAAAT-AAAAAAAT-TA
1 TATATATTTTGGTAAATAAAAAAAATGTA
61686098 TATATATTTTGGTAAATAAAAAAAATGTA
1 TATATATTTTGGTAAATAAAAAAAATGTA
*
61686127 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
61686141 TTTTTATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 17 0.43
28 19 0.47
29 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAATGTA
Found at i:61694908 original size:33 final size:33
Alignment explanation
Indices: 61694866--61694942 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
61694856 TCTGAAGAAA
61694866 GAAAAATGTTGCTTGATCAACAAGGAAACAACC
1 GAAAAATGTTGCTTGATCAACAAGGAAACAACC
61694899 GAAAAATGTTGCTTGATCAACAAGGAAACAACC
1 GAAAAATGTTGCTTGATCAACAAGGAAACAACC
*
61694932 AAAAAATGTTG
1 GAAAAATGTTG
61694943 ATACTTAAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (33 bp):
GAAAAATGTTGCTTGATCAACAAGGAAACAACC
Found at i:61697970 original size:228 final size:222
Alignment explanation
Indices: 61697318--61698169 Score: 1184
Period size: 222 Copynumber: 3.8 Consensus size: 222
61697308 ACTGATAGTA
* * * *
61697318 ACTTTGTGGTCTTCTTCGACAATACAATTGTCACCCGATTCCACTACAACTCCATTAACGGGGTC
1 ACTTCGTGGTCTTCTTCGACAATGCAATTGCCACCCGATTCCACTACAACTCCATTAACGGAGTC
* * * * *
61697383 GCTTCTATTTACGTTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACTCTACTCGTGTTGG
66 GCTTC------CATTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTCGTGTTGG
* *
61697448 CGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCATCTACTATATCCGCCTCCTGCTGATTC
125 CGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCGCCTCCTGCTGATTC
61697513 ATAGTAATAGTGACCGAATCAGATTCGGATTTC
190 ATAGTAATAGTGACCGAATCAGATTCGGATTTC
* * * *
61697546 ACTTCATGGTCTTCTTCGACAATGCAATTGCCATCTGATTCCACTACAGCTCCATTAACGGAGTC
1 ACTTCGTGGTCTTCTTCGACAATGCAATTGCCACCCGATTCCACTACAACTCCATTAACGGAGTC
* * * * * * * *
61697611 GTTTCCATTAACATAGACATCTGAGCTGCCAGAGCTAACCTTAACGCAAATCGCGTTGGCGCCAA
66 GCTTCCATTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTCGTGTTGGCGCCAT
* *
61697676 TGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCACCTCCTGCTGAGTCATAGTA
131 TGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCGCCTCCTGCTGATTCATAGTA
* *
61697741 ATTGTAACCGAATCAGATTCGGATTTC
196 ATAGTGACCGAATCAGATTCGGATTTC
* *
61697768 ACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACAACAACTCCATTAACGGAGTC
1 ACTTCGTGGTCTTCTTCGACAATGCAATTGCCACCCGATTCCACTACAACTCCATTAACGGAGTC
* * *
61697833 GCTTCCATTTACGTTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACGCTACTCGTGTTGG
66 GCTTCC----A--TTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTCGTGTTGG
* *
61697898 CGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCATCTACCATATCCGCCTCCTGCTGATTC
125 CGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCGCCTCCTGCTGATTC
61697963 ATAGTAATAGTGACCGAATCAGATTCGGATTTC
190 ATAGTAATAGTGACCGAATCAGATTCGGATTTC
* *
61697996 ACTTCGTGGTCTTCTTCGACAATGCAATTGCCATCCGATTCCACTAGAACTCCATTAACGGAGTC
1 ACTTCGTGGTCTTCTTCGACAATGCAATTGCCACCCGATTCCACTACAACTCCATTAACGGAGTC
* ** * *
61698061 GTTTCCATTAACATCGACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTCACT-TTGGCGCTA
66 GCTTCCATTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTC-GTGTTGGCGCCA
* * *
61698125 TTGAGAAGATATCTCTTTTCATTGTCTTTCTCAGCTACAACATCC
130 TTGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCC
61698170 ACGTCCGCGG
Statistics
Matches: 550, Mismatches: 67, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
222 286 0.52
223 1 0.00
224 1 0.00
226 1 0.00
228 261 0.47
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (222 bp):
ACTTCGTGGTCTTCTTCGACAATGCAATTGCCACCCGATTCCACTACAACTCCATTAACGGAGTC
GCTTCCATTAACATAAACATCCGAGCTGCCGGAGCCAACCTTAACGCAACTCGTGTTGGCGCCAT
TGAGAAGATATCTCGTTTCATTCTCTTTCTCAGCTACAATATCCGCCTCCTGCTGATTCATAGTA
ATAGTGACCGAATCAGATTCGGATTTC
Found at i:61698164 original size:450 final size:450
Alignment explanation
Indices: 61697318--61698171 Score: 1501
Period size: 450 Copynumber: 1.9 Consensus size: 450
61697308 ACTGATAGTA
* * *
61697318 ACTTTGTGGTCTTCTTCGACAATACAATTGTCACCCGATTCCACTACAACTCCATTAACGGGGTC
1 ACTTCGTGGTCTTCTTCGACAATACAATTGTCACCCGATTCCACAACAACTCCATTAACGGAGTC
* *
61697383 GCTTCTATTTACGTTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACTCTACTCGTGTTGG
66 GCTTCCATTTACGTTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACGCTACTCGTGTTGG
*
61697448 CGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCATCTACTATATCCGCCTCCTGCTGATTC
131 CGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCATCTACCATATCCGCCTCCTGCTGATTC
61697513 ATAGTAATAGTGACCGAATCAGATTCGGATTTCACTTCATGGTCTTCTTCGACAATGCAATTGCC
196 ATAGTAATAGTGACCGAATCAGATTCGGATTTCACTTCATGGTCTTCTTCGACAATGCAATTGCC
* * *
61697578 ATCTGATTCCACTACAGCTCCATTAACGGAGTCGTTTCCATTAACATAGACATCTGAGCTGCCAG
261 ATCCGATTCCACTACAACTCCATTAACGGAGTCGTTTCCATTAACATAGACATCCGAGCTGCCAG
* *
61697643 AGCTAACCTTAACGCAAATCGCGTTGGCGCCAATGAGAAGATATCTCGTTTCATTCTCTTTCTCA
326 AGCCAACCTTAACGCAAATCACGTTGGCGCCAATGAGAAGATATCTCGTTTCATTCTCTTTCTCA
*
61697708 GCTACAATATCCACCTCCTGCTGAGTCATAGTAATTGTAACCGAATCAGATTCGGATTTC
391 GCTACAACATCCACCTCCTGCTGAGTCATAGTAATTGTAACCGAATCAGATTCGGATTTC
*
61697768 ACTTCGTGGTCTTCTTCGACAATGCAATTGTCACCCGATTCCACAACAACTCCATTAACGGAGTC
1 ACTTCGTGGTCTTCTTCGACAATACAATTGTCACCCGATTCCACAACAACTCCATTAACGGAGTC
61697833 GCTTCCATTTACGTTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACGCTACTCGTGTTGG
66 GCTTCCATTTACGTTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACGCTACTCGTGTTGG
61697898 CGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCATCTACCATATCCGCCTCCTGCTGATTC
131 CGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCATCTACCATATCCGCCTCCTGCTGATTC
*
61697963 ATAGTAATAGTGACCGAATCAGATTCGGATTTCACTTCGTGGTCTTCTTCGACAATGCAATTGCC
196 ATAGTAATAGTGACCGAATCAGATTCGGATTTCACTTCATGGTCTTCTTCGACAATGCAATTGCC
* * *
61698028 ATCCGATTCCACTAGAACTCCATTAACGGAGTCGTTTCCATTAACATCGACATCCGAGCTGCCGG
261 ATCCGATTCCACTACAACTCCATTAACGGAGTCGTTTCCATTAACATAGACATCCGAGCTGCCAG
* * * * * *
61698093 AGCCAACCTTAACGCAACTCACTTTGGCGCTATTGAGAAGATATCTCTTTTCATTGTCTTTCTCA
326 AGCCAACCTTAACGCAAATCACGTTGGCGCCAATGAGAAGATATCTCGTTTCATTCTCTTTCTCA
61698158 GCTACAACATCCAC
391 GCTACAACATCCAC
61698172 GTCCGCGGCT
Statistics
Matches: 381, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
450 381 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (450 bp):
ACTTCGTGGTCTTCTTCGACAATACAATTGTCACCCGATTCCACAACAACTCCATTAACGGAGTC
GCTTCCATTTACGTTAACATAAACATCCGTGCTGCCGGTGCCAACCTTAACGCTACTCGTGTTGG
CGCCATTGAGAAGATATCTCGTTTCATTCTCTTTCTCATCTACCATATCCGCCTCCTGCTGATTC
ATAGTAATAGTGACCGAATCAGATTCGGATTTCACTTCATGGTCTTCTTCGACAATGCAATTGCC
ATCCGATTCCACTACAACTCCATTAACGGAGTCGTTTCCATTAACATAGACATCCGAGCTGCCAG
AGCCAACCTTAACGCAAATCACGTTGGCGCCAATGAGAAGATATCTCGTTTCATTCTCTTTCTCA
GCTACAACATCCACCTCCTGCTGAGTCATAGTAATTGTAACCGAATCAGATTCGGATTTC
Found at i:61698964 original size:20 final size:20
Alignment explanation
Indices: 61698939--61698984 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
61698929 AAACCCTAAA
61698939 TTCAAGA-TTAGGATT-CGAGG
1 TTCAAGATTTAGG-TTCCG-GG
61698959 TTCAAGATTTAGGTTCCGGG
1 TTCAAGATTTAGGTTCCGGG
61698979 TTCAAG
1 TTCAAG
61698985 GTTCGAGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (20 bp):
TTCAAGATTTAGGTTCCGGG
Found at i:61699021 original size:29 final size:29
Alignment explanation
Indices: 61698966--61699021 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
61698956 AGGTTCAAGA
*
61698966 TTTAGGTTCCGGGTTCAAGGTTCGAGGGG
1 TTTAGGTTCCGGGTTCAAGATTCGAGGGG
* * * *
61698995 TTTAGGTTCTGTGTTCGAGATTTGAGG
1 TTTAGGTTCCGGGTTCAAGATTCGAGG
61699022 TTAAAGGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.14, C:0.11, G:0.38, T:0.38
Consensus pattern (29 bp):
TTTAGGTTCCGGGTTCAAGATTCGAGGGG
Found at i:61699058 original size:21 final size:21
Alignment explanation
Indices: 61699028--61699080 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
61699018 GAGGTTAAAG
*
61699028 GTTTAGGGTTCAGAATTTGAT
1 GTTTAAGGTTCAGAATTTGAT
* * *
61699049 GTTTATGGTTTAGGATTTGAT
1 GTTTAAGGTTCAGAATTTGAT
61699070 GTTTAAGGTTC
1 GTTTAAGGTTC
61699081 GGGGGTTCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.04, G:0.28, T:0.47
Consensus pattern (21 bp):
GTTTAAGGTTCAGAATTTGAT
Found at i:61723643 original size:21 final size:21
Alignment explanation
Indices: 61723619--61723658 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
61723609 TAAACATTAA
**
61723619 ATTTTTTAAATTTATTTATGT
1 ATTTTTTAAAAATATTTATGT
61723640 ATTTTTTAAAAATATTTAT
1 ATTTTTTAAAAATATTTAT
61723659 TTAAATCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTTTAAAAATATTTATGT
Found at i:61723896 original size:3 final size:3
Alignment explanation
Indices: 61723890--61723917 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
61723880 TAATAAAATT
61723890 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
61723918 AGGAAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:61736227 original size:9 final size:9
Alignment explanation
Indices: 61736215--61736255 Score: 57
Period size: 9 Copynumber: 4.4 Consensus size: 9
61736205 ATATACATTA
61736215 TTTTAAATT
1 TTTTAAATT
61736224 TTTT-AATT
1 TTTTAAATT
61736232 TTTTAAATT
1 TTTTAAATT
61736241 TCTTTATAATT
1 T-TTTA-AATT
61736252 TTTT
1 TTTT
61736256 TAGAACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.28
9 9 0.31
10 7 0.24
11 5 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTAAATT
Found at i:61736257 original size:11 final size:11
Alignment explanation
Indices: 61736222--61736287 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
61736212 TTATTTTAAA
61736222 TTTTT-TAA-T
1 TTTTTATAATT
61736231 TTTTTA-AATT
1 TTTTTATAATT
*
61736241 TCTTTATAATT
1 TTTTTATAATT
*
61736252 TTTTTAGAACTT
1 TTTTTATAA-TT
*
61736264 TTTTT-TAA-A
1 TTTTTATAATT
*
61736273 ATTTTATAATT
1 TTTTTATAATT
61736284 TTTT
1 TTTT
61736288 GAAAAATATA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
9 11 0.26
10 9 0.21
11 16 0.37
12 7 0.16
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:61736267 original size:12 final size:10
Alignment explanation
Indices: 61736215--61736287 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 10
61736205 ATATACATTA
61736215 TTTTAAA-TT
1 TTTTAAATTT
61736224 TTTT-AA-TT
1 TTTTAAATTT
61736232 TTTTAAATTT
1 TTTTAAATTT
*
61736242 CTTTATAATTT
1 TTTTA-AATTT
61736253 TTTTAGAACTTTT
1 TTTTA-AA--TTT
*
61736266 TTTTAAAATT
1 TTTTAAATTT
*
61736276 TTAT-AATTT
1 TTTTAAATTT
61736285 TTT
1 TTT
61736288 GAAAAATATA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
8 8 0.15
9 12 0.23
10 11 0.21
11 11 0.21
12 2 0.04
13 8 0.15
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:61736324 original size:20 final size:19
Alignment explanation
Indices: 61736299--61736370 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
61736289 AAAAATATAA
61736299 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTA-AAATT
* *
61736319 ATTTTG-AGTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
61736337 ATTTTTGAATTTTTGAAAATT
1 A-TTTTGAATTTTT-AAAATT
61736358 ATTTTGAATTTTT
1 ATTTTGAATTTTT
61736371 TGTAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.07
18 7 0.16
19 6 0.14
20 21 0.48
21 7 0.16
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:61748046 original size:31 final size:31
Alignment explanation
Indices: 61748011--61748071 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
61748001 TCAGCATCTA
61748011 GGCATTTTTTGTATCAATTCTTTTCCAAAAT
1 GGCATTTTTTGTATCAATTCTTTTCCAAAAT
*
61748042 GGCATTTTTTGTATTAATTCTTTTCCAAAA
1 GGCATTTTTTGTATCAATTCTTTTCCAAAA
61748072 AGGTTGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (31 bp):
GGCATTTTTTGTATCAATTCTTTTCCAAAAT
Found at i:61748661 original size:76 final size:76
Alignment explanation
Indices: 61748532--61748685 Score: 256
Period size: 76 Copynumber: 2.0 Consensus size: 76
61748522 GATCCACGAC
* * *
61748532 TATCAATTGTTTTATGGCTTTGAACCATTATCTCTTGTGATAATTTAATGTTCATATCATGG-GC
1 TATCAATTGTTTTATGGCTTTGAACCATTAGCTCTTGTGATAACTTAAAGTTCATATCA-GGAGC
61748596 AAAAATTATCCA
65 AAAAATTATCCA
*
61748608 TATCAATTGTTTTATGGCTTTTAACCATTAGCTCTTGTGATAACTTAAAGTTCATATCAGGAGCA
1 TATCAATTGTTTTATGGCTTTGAACCATTAGCTCTTGTGATAACTTAAAGTTCATATCAGGAGCA
61748673 AAAATTATCCA
66 AAAATTATCCA
61748684 TA
1 TA
61748686 ATGGTCTCTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
75 2 0.03
76 71 0.97
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (76 bp):
TATCAATTGTTTTATGGCTTTGAACCATTAGCTCTTGTGATAACTTAAAGTTCATATCAGGAGCA
AAAATTATCCA
Found at i:61749920 original size:70 final size:70
Alignment explanation
Indices: 61749807--61749947 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
61749797 TTTTATATTT
61749807 TTTAATGAAATCAATGAGAATTTTCAGTTATCTTCCCGTTCAAACTCTTTCCTCTCGATTTTGCT
1 TTTAATGAAATCAATGAGAATTTTCAGTTATCTTCCCGTTCAAACTCTTTCCTCTCGATTTTGCT
61749872 TCTGC
66 TCTGC
*
61749877 TTTAATGAAATCAATGAGAATTTTCAGTTATCTTCCTGTTCAAACTCTTTCCTCTCGATTTTGCT
1 TTTAATGAAATCAATGAGAATTTTCAGTTATCTTCCCGTTCAAACTCTTTCCTCTCGATTTTGCT
61749942 TCTGC
66 TCTGC
61749947 T
1 T
61749948 CTCTTTTGTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (70 bp):
TTTAATGAAATCAATGAGAATTTTCAGTTATCTTCCCGTTCAAACTCTTTCCTCTCGATTTTGCT
TCTGC
Found at i:61759586 original size:51 final size:50
Alignment explanation
Indices: 61759410--61759647 Score: 291
Period size: 50 Copynumber: 4.7 Consensus size: 50
61759400 TATCATTCGA
* * *
61759410 TACATGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
* *
61759460 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
* * *
61759510 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGG
* * * * * *
61759561 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATTATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGT-TTTA-CGG
*
61759612 TACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
61759648 TTCATCGATA
Statistics
Matches: 163, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
48 1 0.01
49 3 0.02
50 84 0.52
51 72 0.44
52 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGG
Found at i:61759636 original size:102 final size:101
Alignment explanation
Indices: 61759406--61759647 Score: 310
Period size: 101 Copynumber: 2.4 Consensus size: 101
61759396 CTTTTATCAT
* * * * * *
61759406 TCGATACATGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACAGTACACATAGTA
61759471 GCCTTCACATAGTACTACACACGTGATCAAGTTTTA
66 GCCTTCACATAGTACTACACACGTGATCAAGTTTTA
* * * *
61759507 -CGGTTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACC-AAG-TTCTACAGTACACATAG
* * * *
61759570 TAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTA
64 TAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA
61759608 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
61759648 TTCATCGATA
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
100 40 0.33
101 41 0.34
102 40 0.33
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (101 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACAGTACACATAGTA
GCCTTCACATAGTACTACACACGTGATCAAGTTTTA
Found at i:61763642 original size:23 final size:23
Alignment explanation
Indices: 61763616--61763691 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
61763606 ATAAGTGCCA
61763616 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
61763639 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
61763662 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
61763685 CACTGAT
1 CACTGAT
61763692 CAATAACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:61767573 original size:12 final size:12
Alignment explanation
Indices: 61767556--61767580 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61767546 GAAGAAAACT
61767556 ATTTGGATTTTG
1 ATTTGGATTTTG
61767568 ATTTGGATTTTG
1 ATTTGGATTTTG
61767580 A
1 A
61767581 CCTGTTGATT
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:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (12 bp):
ATTTGGATTTTG
Found at i:61774080 original size:32 final size:32
Alignment explanation
Indices: 61774011--61774080 Score: 74
Period size: 32 Copynumber: 2.2 Consensus size: 32
61774001 ATTTATTACT
61774011 TATT-TATTAATATTTTTAATTTTAAGTTTAA
1 TATTATATTAATATTTTTAATTTTAAGTTTAA
* * *
61774042 -AGTTATATTAAT-TATTTTATTTTTTATTTTAA
1 TA-TTATATTAATAT-TTTTAATTTTAAGTTTAA
61774074 TATTATA
1 TATTATA
61774081 AATGTATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
30 1 0.03
31 3 0.09
32 27 0.84
33 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (32 bp):
TATTATATTAATATTTTTAATTTTAAGTTTAA
Found at i:61778100 original size:21 final size:21
Alignment explanation
Indices: 61778074--61778114 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61778064 ATCTGCTCAA
* *
61778074 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
61778095 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
61778115 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:61785765 original size:2 final size:2
Alignment explanation
Indices: 61785758--61785786 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61785748 TAGCTTTAAT
61785758 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61785787 TTGAATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61787467 original size:23 final size:23
Alignment explanation
Indices: 61787441--61787487 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
61787431 AAAATCCAAG
61787441 AATGTTTAGTTAAAAACTAGATT
1 AATGTTTAGTTAAAAACTAGATT
*
61787464 AATGTTTAGTTGAAAACTAGATT
1 AATGTTTAGTTAAAAACTAGATT
61787487 A
1 A
61787488 CAAAATGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (23 bp):
AATGTTTAGTTAAAAACTAGATT
Found at i:61787960 original size:76 final size:76
Alignment explanation
Indices: 61787834--61787987 Score: 290
Period size: 76 Copynumber: 2.0 Consensus size: 76
61787824 GATCCACGAC
*
61787834 TATCAATTGTTTTATGGCTTTCAACCATTAGCTCTTGTGATAATTTAATGTTCATATCATGGGCA
1 TATCAATTGTTTTATGGCTTTCAACCACTAGCTCTTGTGATAATTTAATGTTCATATCATGGGCA
61787899 AAAATTATCCA
66 AAAATTATCCA
*
61787910 TATCAATTGTTTTATGGCTTTTAACCACTAGCTCTTGTGATAATTTAATGTTCATATCATGGGCA
1 TATCAATTGTTTTATGGCTTTCAACCACTAGCTCTTGTGATAATTTAATGTTCATATCATGGGCA
61787975 AAAATTATCCA
66 AAAATTATCCA
61787986 TA
1 TA
61787988 ATGGTCTCTT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.41
Consensus pattern (76 bp):
TATCAATTGTTTTATGGCTTTCAACCACTAGCTCTTGTGATAATTTAATGTTCATATCATGGGCA
AAAATTATCCA
Found at i:61790493 original size:26 final size:26
Alignment explanation
Indices: 61790464--61790515 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
61790454 ACCAATGAAA
*
61790464 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
61790490 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
61790516 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:61790496 original size:104 final size:103
Alignment explanation
Indices: 61790224--61790593 Score: 591
Period size: 103 Copynumber: 3.6 Consensus size: 103
61790214 TAGCCGTTAT
** * *
61790224 TGGTGGATCCCGCACTTAGCACCACCACTGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
61790289 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
61790327 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
61790392 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
61790431 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
61790495 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
61790535 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
61790594 TTTATATACA
Statistics
Matches: 252, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
103 112 0.44
104 109 0.43
105 31 0.12
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:61790954 original size:28 final size:29
Alignment explanation
Indices: 61790922--61790984 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
61790912 TAATCCACCA
61790922 CCCAACTTTTTG-AAAATTACAATTTTG-C
1 CCCAAC-TTTTGCAAAATTACAATTTTGTC
* *
61790950 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGTC
61790980 CCCAA
1 CCCAA
61790985 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 8 0.27
29 18 0.60
30 4 0.13
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGTC
Found at i:61790958 original size:29 final size:30
Alignment explanation
Indices: 61790929--61790984 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
61790919 CCACCCAACT
61790929 TTTTG-AAAATTACAATTTTG-CCCCAAAC
1 TTTTGCAAAATTACAATTTTGTCCCCAAAC
* *
61790957 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGTCCCCAA
61790985 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 13 0.54
30 6 0.25
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGTCCCCAAAC
Found at i:61798074 original size:18 final size:17
Alignment explanation
Indices: 61798051--61798100 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
61798041 TGTTATTTAG
61798051 TTATTATTATTATATCT
1 TTATTATTATTATATCT
*
61798068 ATTATTACTATTATCATCT
1 -TTATTATTATTAT-ATCT
*
61798087 TTACTATTATTATA
1 TTATTATTATTATA
61798101 GTTATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.82
19 4 0.14
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTATTATTATATCT
Found at i:61798131 original size:12 final size:12
Alignment explanation
Indices: 61798091--61798123 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
61798081 TCATCTTTAC
*
61798091 TATTATTATAGT
1 TATTTTTATAGT
61798103 TATTTTTATAGT
1 TATTTTTATAGT
61798115 TATTTTTAT
1 TATTTTTAT
61798124 TTTTATTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (12 bp):
TATTTTTATAGT
Found at i:61799849 original size:21 final size:17
Alignment explanation
Indices: 61799810--61799843 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
61799800 TTATCCAAGT
61799810 TTGTTTATATTTGCAAA
1 TTGTTTATATTTGCAAA
61799827 TTGTTTATATTTGCAAA
1 TTGTTTATATTTGCAAA
61799844 AAAATTAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
TTGTTTATATTTGCAAA
Found at i:61799924 original size:14 final size:14
Alignment explanation
Indices: 61799901--61799948 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
61799891 TTTTTTAAAT
61799901 ATTT-ATATTTTTA
1 ATTTAATATTTTTA
*
61799914 ATTTAATATTTATA
1 ATTTAATATTTTTA
*
61799928 ATTTTATATATTTTTT
1 A-TTTA-ATATTTTTA
61799944 ATTTA
1 ATTTA
61799949 TTGAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 4 0.14
14 9 0.31
15 8 0.28
16 8 0.28
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTAATATTTTTA
Found at i:61800229 original size:18 final size:21
Alignment explanation
Indices: 61800206--61800248 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
61800196 AAAGAGAGGA
*
61800206 AAAG-AATA-GGAAGAA-AAG
1 AAAGAAATAGGGAAAAACAAG
61800224 AAAGAAATAGGGAAAAACAAG
1 AAAGAAATAGGGAAAAACAAG
61800245 AAAG
1 AAAG
61800249 TGAAATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 4 0.19
20 6 0.29
21 7 0.33
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.05
Consensus pattern (21 bp):
AAAGAAATAGGGAAAAACAAG
Found at i:61801937 original size:162 final size:162
Alignment explanation
Indices: 61801667--61801992 Score: 600
Period size: 162 Copynumber: 2.0 Consensus size: 162
61801657 GACGGACACA
61801667 TATAGATAAACAACTCCTCAAGAAGACAGAGGGTACTACTCATACTCTTATTATCTTCTTTTTCA
1 TATAGATAAACAACTCCTCAAGAAGACAGAGGGTACTACTCATACTCTTATTATCTTCTTTTTCA
*
61801732 TCAACCAAATACTCCAAATTCTCACAGTTTCTAATTCTCAGCTTTTTTAAATTAGGAGGTAAGTT
66 TCAACCAAATACTCCAAATTCTCACAGTATCTAATTCTCAGCTTTTTTAAATTAGGAGGTAAGTT
61801797 ATTCTCTGCAAAAGAAACCAAGCTTCGACAAT
131 ATTCTCTGCAAAAGAAACCAAGCTTCGACAAT
*
61801829 TATAGATAGACAACTCCTCAAGAAGACAGAGGGTACTACTCATACTCTTATTATCTTCTTTTTCA
1 TATAGATAAACAACTCCTCAAGAAGACAGAGGGTACTACTCATACTCTTATTATCTTCTTTTTCA
*
61801894 TCAACCAAATACTCCAAATTCTCACAGGTATC-AATTGTCAGCTTTTTTAAATTAGGAGGTAAGT
66 TCAACCAAATACTCCAAATTCTCACA-GTATCTAATTCTCAGCTTTTTTAAATTAGGAGGTAAGT
*
61801958 TATTCTTTGCAAAAGAAACCAAGCTTCGACAAT
130 TATTCTCTGCAAAAGAAACCAAGCTTCGACAAT
61801991 TA
1 TA
61801993 CCAATTTCCA
Statistics
Matches: 159, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
162 155 0.97
163 4 0.03
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (162 bp):
TATAGATAAACAACTCCTCAAGAAGACAGAGGGTACTACTCATACTCTTATTATCTTCTTTTTCA
TCAACCAAATACTCCAAATTCTCACAGTATCTAATTCTCAGCTTTTTTAAATTAGGAGGTAAGTT
ATTCTCTGCAAAAGAAACCAAGCTTCGACAAT
Found at i:61805432 original size:16 final size:16
Alignment explanation
Indices: 61805408--61805445 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
61805398 CGTTTGGTTC
*
61805408 GGTGCATTGGATTAGA
1 GGTGTATTGGATTAGA
61805424 GGTGTATTGGATTAGA
1 GGTGTATTGGATTAGA
61805440 GGTGTA
1 GGTGTA
61805446 ATAGCAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.03, G:0.39, T:0.34
Consensus pattern (16 bp):
GGTGTATTGGATTAGA
Found at i:61805702 original size:18 final size:17
Alignment explanation
Indices: 61805681--61805715 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
61805671 TTATTATTAA
*
61805681 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
61805699 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
61805716 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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:61805769 original size:157 final size:157
Alignment explanation
Indices: 61805568--61806041 Score: 876
Period size: 157 Copynumber: 3.0 Consensus size: 157
61805558 TAGAATACCC
* * * *
61805568 TTAGCATAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAATATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
61805633 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
61805698 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
61805725 TTAGCAGAAATTTGTTTTGGTAGATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
61805790 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
61805855 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
61805882 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
61805947 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
61806012 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
61806039 TTA
1 TTA
61806042 ATATTCTTAT
Statistics
Matches: 308, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 308 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:61805855 original size:16 final size:16
Alignment explanation
Indices: 61805818--61805859 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
61805808 TTAATCATAT
*
61805818 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
61805834 TT-AAATATATTATAA
1 TTAAAATATATTATAA
61805849 TTAAAATATAT
1 TTAAAATATAT
61805860 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:61805866 original size:14 final size:15
Alignment explanation
Indices: 61805827--61805868 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
61805817 TTTAAACATA
*
61805827 ATTATTATTAAATAT
1 ATTATAATTAAATAT
61805842 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
61805856 A-TATAATTTAATA
1 ATTATAATTAAATA
61805869 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:61806012 original size:16 final size:16
Alignment explanation
Indices: 61805975--61806016 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
61805965 TTAATCATAT
*
61805975 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
61805991 TT-AAATATATTATAA
1 TTAAAATATATTATAA
61806006 TTAAAATATAT
1 TTAAAATATAT
61806017 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:61806023 original size:14 final size:15
Alignment explanation
Indices: 61805984--61806025 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
61805974 TTTAAACATA
*
61805984 ATTATTATTAAATAT
1 ATTATAATTAAATAT
61805999 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
61806013 A-TATAATTTAATA
1 ATTATAATTAAATA
61806026 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:61806101 original size:107 final size:109
Alignment explanation
Indices: 61805973--61806188 Score: 400
Period size: 107 Copynumber: 2.0 Consensus size: 109
61805963 ATTTAATCAT
61805973 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
61806038 ATTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
61806081 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
61806145 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
61806189 CTATAAAATA
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 97 0.92
108 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44
Consensus pattern (109 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
Found at i:61806121 original size:16 final size:16
Alignment explanation
Indices: 61806078--61806123 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
61806068 CATAATATAG
*
61806078 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
61806094 ATTATT-AAATATATT
1 ATAATTAAAATATATT
61806109 ATAATTAAAATATAT
1 ATAATTAAAATATAT
61806124 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:61806130 original size:14 final size:15
Alignment explanation
Indices: 61806078--61806132 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
61806068 CATAATATAG
61806078 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
61806094 ATTATTAAATATATT
1 ATAATTAAATATATT
61806109 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
61806122 ATAATTTAATA
1 ATAATTAAATA
61806133 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:61806181 original size:37 final size:35
Alignment explanation
Indices: 61806012--61806181 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
61806002 ATAATTAAAA
*
61806012 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* *
61806049 TATATGAATTTACTCAAATCATAAT-A-TAGATAATTT
1 TATAT-AATTTAATAAAATCATAATAATTA-AT-ATTT
* * * * *
61806085 AACATAATTATTATTAAATAT-ATTATAATTAA-A--A
1 TATATAA-T-TTAATAAA-ATCATAATAATTAATATTT
* *
61806119 TATATAATTTAATAAAATTCTTAATAATCAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
61806156 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
61806182 TATGATACTA
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 6 0.06
35 4 0.04
36 9 0.09
37 36 0.36
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Found at i:61806503 original size:120 final size:120
Alignment explanation
Indices: 61806375--61806797 Score: 810
Period size: 120 Copynumber: 3.5 Consensus size: 120
61806365 TAGAAAAAAA
** *
61806375 CTTAATATTAAATATTCTTATATGAATTTTTTAAAATCATAATATATAATACTATAAAATATAAT
1 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
*
61806440 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
66 TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
61806495 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
1 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
61806560 TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
66 TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
61806615 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
1 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
61806680 TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
66 TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
61806735 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
1 CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
61806798 GATTAATAAT
Statistics
Matches: 299, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 299 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
CTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT
TTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
Found at i:61806582 original size:26 final size:26
Alignment explanation
Indices: 61806552--61806709 Score: 83
Period size: 26 Copynumber: 6.5 Consensus size: 26
61806542 AATACTATAT
61806552 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
*
61806578 AATATAATTTAATAA-AAATA-TA-T-
1 AATATAATTTAA-AATAATTATTATTA
* ** *
61806601 AATTTAA--TAAAATTCTTAATATTA
1 AATATAATTTAAAATAATTATTATTA
* * *
61806625 AATAT--TCTT-ATATGAATT-TAATAA
1 AATATAAT-TTAAAAT-AATTATTATTA
* * *
61806649 AATCATAATATATAAT-ACTA-TA-T-
1 AAT-ATAATTTAAAATAATTATTATTA
61806672 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
61806698 AATATAATTTAA
1 AATATAATTTAA
61806710 TAAAAATATA
Statistics
Matches: 93, Mismatches: 21, Indels: 36
0.62 0.14 0.24
Matches are distributed among these distances:
20 2 0.02
21 5 0.05
22 12 0.13
23 13 0.14
24 16 0.17
25 11 0.12
26 29 0.31
27 5 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (26 bp):
AATATAATTTAAAATAATTATTATTA
Found at i:61806745 original size:18 final size:18
Alignment explanation
Indices: 61806459--61806732 Score: 84
Period size: 18 Copynumber: 15.9 Consensus size: 18
61806449 TTATTATTAA
61806459 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
61806477 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
61806495 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
61806514 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
61806532 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
61806548 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
61806567 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
61806579 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
61806597 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
61806615 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
61806634 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
61806652 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
61806668 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
61806687 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
61806699 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
61806717 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
61806733 TTCTTAATAT
Statistics
Matches: 182, Mismatches: 46, Indels: 56
0.64 0.16 0.20
Matches are distributed among these distances:
12 2 0.01
13 10 0.05
14 4 0.02
15 10 0.05
16 16 0.09
17 32 0.18
18 66 0.36
19 30 0.16
20 6 0.03
21 6 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:61810372 original size:24 final size:24
Alignment explanation
Indices: 61810340--61810386 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
61810330 TATTGGCTAT
61810340 GCCAATACACCCAACCAAACATGA
1 GCCAATACACCCAACCAAACATGA
61810364 GCCAATACACCCAACCAAACATG
1 GCCAATACACCCAACCAAACATG
61810387 GTGTCAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.38, G:0.09, T:0.09
Consensus pattern (24 bp):
GCCAATACACCCAACCAAACATGA
Done.