Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 348 of 373
Found at i:116089360 original size:50 final size:51
Alignment explanation
Indices: 116089285--116089411 Score: 211
Period size: 50 Copynumber: 2.5 Consensus size: 51
116089275 CCATGGCAAC
*
116089285 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGT-AA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAA
*
116089335 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAA
* *
116089386 AAGTGAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
116089412 CTGGTCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 47 0.65
51 25 0.35
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (51 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAA
Found at i:116089425 original size:31 final size:31
Alignment explanation
Indices: 116089387--116089504 Score: 200
Period size: 31 Copynumber: 3.8 Consensus size: 31
116089377 ACAAATGACA
*
116089387 AGTGAAAAGTGGTAGCTTCGGCTACCTGGTC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
116089418 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
116089449 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
116089480 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
116089505 AAGTGACAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:116089591 original size:47 final size:47
Alignment explanation
Indices: 116089521--116089645 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 47
116089511 CAAGTGATTT
* *
116089521 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
116089568 CTGTATAAGACCATATCTAGGATATGGCATCAGTGAGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
116089615 C-GTGTAAGACCATAGCTGGGCTATGGCATCG
1 CTGTATAAGACCATATCTGGGATATGGCATCG
116089646 ATATGTGATA
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 25 0.37
47 42 0.63
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:116089681 original size:56 final size:56
Alignment explanation
Indices: 116089604--116089716 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
116089594 GCATCAGTGA
*
116089604 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTG-ATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
116089659 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
116089716 G
1 G
116089717 TAAGACCATA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
55 11 0.20
56 37 0.67
57 7 0.13
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (56 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGT
Found at i:116089768 original size:31 final size:31
Alignment explanation
Indices: 116089707--116089768 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
116089697 CATCGATATA
* **
116089707 TGAATATGTGTAAGACCATAGCTGGGCTATG
1 TGAAGATGTGTAAGACCATAGCTGAACTATG
*
116089738 TGAAGATGTGTAAGACCATAGTTGAACTATG
1 TGAAGATGTGTAAGACCATAGCTGAACTATG
116089769 GCATCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.29
Consensus pattern (31 bp):
TGAAGATGTGTAAGACCATAGCTGAACTATG
Found at i:116093243 original size:38 final size:38
Alignment explanation
Indices: 116093192--116093270 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
116093182 GATTGTTCAA
*
116093192 ACTCTAAAAGGCATTAGAGAAGCAAGCATGATAAGTTG
1 ACTCTAAAAGGCATTAGAGAAGCAAGCATGATAAATTG
*
116093230 ACTCTAAAAGGCATTAGAGAAGCAATCATGATAAATTG
1 ACTCTAAAAGGCATTAGAGAAGCAAGCATGATAAATTG
116093268 ACT
1 ACT
116093271 TTTGAGAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (38 bp):
ACTCTAAAAGGCATTAGAGAAGCAAGCATGATAAATTG
Found at i:116110736 original size:21 final size:21
Alignment explanation
Indices: 116110619--116110729 Score: 177
Period size: 21 Copynumber: 5.3 Consensus size: 21
116110609 GCTACAGAAG
*
116110619 AAGAAGAAAAGGACAGTGGAA
1 AAGAAGAAAAGGACATTGGAA
*
116110640 AAGAAGAAGAGGACATTGGAA
1 AAGAAGAAAAGGACATTGGAA
116110661 AAGAAGAAAAGGACATTGGAA
1 AAGAAGAAAAGGACATTGGAA
*
116110682 AAGAAGAAAAGGACATTGGGA
1 AAGAAGAAAAGGACATTGGAA
* *
116110703 GAGAAGAAAAGGACAGTGGAA
1 AAGAAGAAAAGGACATTGGAA
116110724 AAGAAG
1 AAGAAG
116110730 TCAAGGAACC
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 82 1.00
ACGTcount: A:0.55, C:0.05, G:0.33, T:0.07
Consensus pattern (21 bp):
AAGAAGAAAAGGACATTGGAA
Found at i:116117234 original size:13 final size:14
Alignment explanation
Indices: 116117216--116117244 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
116117206 AAAAATCGAA
116117216 AAAACTC-TAAAAC
1 AAAACTCTTAAAAC
116117229 AAAACTCTTAAAAC
1 AAAACTCTTAAAAC
116117243 AA
1 AA
116117245 CAACAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAACTCTTAAAAC
Found at i:116117267 original size:12 final size:12
Alignment explanation
Indices: 116117239--116117280 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
116117229 AAAACTCTTA
*
116117239 AAACAACAACAAC
1 AAACAAAAAC-AC
116117252 AAACAAAAACAC
1 AAACAAAAACAC
*
116117264 AAACACAAACAC
1 AAACAAAAACAC
116117276 AAACA
1 AAACA
116117281 CTGAAACGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACAAAAACAC
Found at i:116117281 original size:6 final size:6
Alignment explanation
Indices: 116117250--116117281 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
116117240 AACAACAACA
*
116117250 ACAAAC AAAAAC ACAAAC ACAAAC ACAAAC AC
1 ACAAAC ACAAAC ACAAAC ACAAAC ACAAAC AC
116117282 TGAAACGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (6 bp):
ACAAAC
Found at i:116124242 original size:18 final size:18
Alignment explanation
Indices: 116124219--116124256 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
116124209 TAGAATTTCT
*
116124219 TTTTTATCTCAAAAGTAC
1 TTTTTATCTCAAAAATAC
116124237 TTTTTATCTCAAAAATAC
1 TTTTTATCTCAAAAATAC
116124255 TT
1 TT
116124257 CTTAGCATTA
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:0.34, C:0.16, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTTTATCTCAAAAATAC
Found at i:116124400 original size:20 final size:21
Alignment explanation
Indices: 116124356--116124401 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
116124346 AGAAGACTAA
* *
116124356 TTATTCTTTTACCACTTTCAT
1 TTATTCTTGTACCACTTTAAT
*
116124377 TTATTCTTGTACTA-TTTAAT
1 TTATTCTTGTACCACTTTAAT
116124397 TTATT
1 TTATT
116124402 TTTTTGTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.22, C:0.15, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATTCTTGTACCACTTTAAT
Found at i:116124457 original size:13 final size:13
Alignment explanation
Indices: 116124439--116124463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116124429 AATTAATACA
116124439 ATACTATATTATT
1 ATACTATATTATT
116124452 ATACTATATTAT
1 ATACTATATTAT
116124464 GATTAAGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
ATACTATATTATT
Found at i:116124558 original size:6 final size:6
Alignment explanation
Indices: 116124549--116124576 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
116124539 AATTTACCAC
116124549 AATTAT AATTAT AATTAT AATTAT AATT
1 AATTAT AATTAT AATTAT AATTAT AATT
116124577 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:116124596 original size:23 final size:23
Alignment explanation
Indices: 116124560--116124613 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
116124550 ATTATAATTA
* *
116124560 TAATTATAATTATAATTTTTTTAT
1 TAATT-TAAATATAATTTTGTTAT
116124584 TAATTTAAATATAATTTTGTTAT
1 TAATTTAAATATAATTTTGTTAT
116124607 TAATTTA
1 TAATTTA
116124614 TTATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TAATTTAAATATAATTTTGTTAT
Found at i:116125883 original size:6 final size:6
Alignment explanation
Indices: 116125872--116125906 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
116125862 TCTTTATTGG
*
116125872 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAA CAAAA
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAA
116125907 GGTAACCCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.11
Consensus pattern (6 bp):
CAAAAT
Found at i:116126750 original size:19 final size:19
Alignment explanation
Indices: 116126728--116126766 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
116126718 AAAAATGCAA
116126728 ATATTAAAATAAAAATATT
1 ATATTAAAATAAAAATATT
*
116126747 ATATTAAAATATAAATATT
1 ATATTAAAATAAAAATATT
116126766 A
1 A
116126767 AATCTATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATTAAAATAAAAATATT
Found at i:116128152 original size:25 final size:26
Alignment explanation
Indices: 116128106--116128154 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
116128096 AATTTTTATT
*
116128106 TTTATTAATACAAAAAGCTAATTTAA
1 TTTATTAATACAAAAAGATAATTTAA
116128132 TTTATTTAATA-AAAAA-ATAATTT
1 TTTA-TTAATACAAAAAGATAATTT
116128155 CAACTAATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 9 0.43
27 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (26 bp):
TTTATTAATACAAAAAGATAATTTAA
Found at i:116131485 original size:18 final size:18
Alignment explanation
Indices: 116131462--116131497 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
116131452 AGATACATAA
116131462 TTCATTGTATACTATATG
1 TTCATTGTATACTATATG
116131480 TTCATTGTATACTATATG
1 TTCATTGTATACTATATG
116131498 AAAAATCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
TTCATTGTATACTATATG
Found at i:116133991 original size:19 final size:18
Alignment explanation
Indices: 116133958--116134001 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
116133948 ACTTTCTATC
116133958 TTTTTAT-TTTATAACAAT
1 TTTTTATATTTATAAC-AT
* *
116133976 TTTTTATATTTGTAACTT
1 TTTTTATATTTATAACAT
116133994 TTTTTATA
1 TTTTTATA
116134002 CAAGTAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTTATATTTATAACAT
Found at i:116134300 original size:21 final size:20
Alignment explanation
Indices: 116134260--116134300 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
116134250 AATATTAGTA
*
116134260 GTATAAAAAAGTTATGGAGT
1 GTATAAAAAAGTAATGGAGT
*
116134280 GTATAAAAATAGTAATTGAGT
1 GTATAAAAA-AGTAATGGAGT
116134301 CTTGAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (20 bp):
GTATAAAAAAGTAATGGAGT
Found at i:116136227 original size:30 final size:30
Alignment explanation
Indices: 116136191--116136253 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
116136181 AACAGACATA
* * *
116136191 TCAATTACAGATACTAATGCATATACAAAT
1 TCAATTACAGATACAAATGCAAACACAAAT
*
116136221 TCAATTACAGATGCAAATGCAAACACAAAT
1 TCAATTACAGATACAAATGCAAACACAAAT
116136251 TCA
1 TCA
116136254 GATCCTACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.25
Consensus pattern (30 bp):
TCAATTACAGATACAAATGCAAACACAAAT
Found at i:116139676 original size:38 final size:38
Alignment explanation
Indices: 116139612--116139691 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
116139602 AGTACGAGAT
** * * *
116139612 TATGCGCTTATGTGCGTAGATACACTTTGTGTGCTAGA
1 TATGCGCTTATACGCGTAGATACACTTCGCGTGCCAGA
* *
116139650 TATGCGCTTATACGCGTGGATGCACTTCGCGTGCCAGA
1 TATGCGCTTATACGCGTAGATACACTTCGCGTGCCAGA
116139688 TATG
1 TATG
116139692 AGTTTTGTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (38 bp):
TATGCGCTTATACGCGTAGATACACTTCGCGTGCCAGA
Found at i:116143558 original size:2 final size:2
Alignment explanation
Indices: 116143551--116143591 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
116143541 ATAATACTAA
* *
116143551 AT AT AT AT AT AC AT A- AT AT AT AT AT AT AG AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116143591 A
1 A
116143592 AAATGAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:116143568 original size:15 final size:16
Alignment explanation
Indices: 116143544--116143591 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
116143534 ATACATAATA
116143544 ATAC-TAAATATATAT
1 ATACATAAATATATAT
116143559 ATACATAATATATATAT
1 ATACATAA-ATATATAT
*
116143576 ATAGAT-AATATATAT
1 ATACATAAATATATAT
116143591 A
1 A
116143592 AAATGAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 13 0.43
16 4 0.13
17 13 0.43
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (16 bp):
ATACATAAATATATAT
Found at i:116143573 original size:17 final size:17
Alignment explanation
Indices: 116143551--116143591 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
116143541 ATAATACTAA
116143551 ATATATATATACATAAT
1 ATATATATATACATAAT
*
116143568 ATATATATATAGATAAT
1 ATATATATATACATAAT
116143585 ATATATA
1 ATATATA
116143592 AAATGAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATATATATACATAAT
Found at i:116143590 original size:13 final size:13
Alignment explanation
Indices: 116143553--116143592 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
116143543 AATACTAAAT
*
116143553 ATATATATACATA
1 ATATATATATATA
116143566 ATATATATATATA
1 ATATATATATATA
116143579 GATA-ATATATATA
1 -ATATATATATATA
116143592 A
1 A
116143593 AATGAACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 21 0.84
14 3 0.12
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (13 bp):
ATATATATATATA
Found at i:116143678 original size:32 final size:31
Alignment explanation
Indices: 116143600--116143693 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 31
116143590 TAAAATGAAC
116143600 ATGTACAATATATATTAGAAATACTA-AT-AAT
1 ATGTAC-ATATATATTA-AAATACTACATAAAT
** *
116143631 ATAAAAAATATATATTAATAATACTACATAAAT
1 AT-GTACATATATATTAA-AATACTACATAAAT
*
116143664 ATGTACATATATATTAAAATAAATACATAA
1 ATGTACATATATATTAAAAT-ACTACATAA
116143694 TAATATTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
30 1 0.02
31 22 0.43
32 23 0.45
33 5 0.10
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (31 bp):
ATGTACATATATATTAAAATACTACATAAAT
Found at i:116143702 original size:22 final size:22
Alignment explanation
Indices: 116143618--116143720 Score: 72
Period size: 22 Copynumber: 4.7 Consensus size: 22
116143608 TATATATTAG
116143618 AAATAC-TAATAATA-TAAAA-
1 AAATACATAATAATATTAAAAT
* * *
116143637 AATATATATTAATAATACT-ACAT
1 AA-ATACA-TAATAATATTAAAAT
**
116143660 AAATATGTACATATATATTAAAAT
1 AAATACATA-ATA-ATATTAAAAT
116143684 AAATACATAATAATATTAAAAGT
1 AAATACATAATAATATTAAAA-T
*
116143707 ATATACATAA-AATA
1 AAATACATAATAATA
116143721 GTGTTAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.03
20 3 0.04
21 2 0.03
22 30 0.45
23 20 0.30
24 10 0.15
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATACATAATAATATTAAAAT
Found at i:116143749 original size:23 final size:22
Alignment explanation
Indices: 116143667--116143745 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 22
116143657 CATAAATATG
116143667 TACAT-ATATATT-AAAATAAA
1 TACATAATATATTAAAAATAAA
* *
116143687 TACATAATAATATTAAAAGTATA
1 TACATAAT-ATATTAAAAATAAA
* *
116143710 TACATAAAATAGTGTTAAAAATACA
1 TACAT--AATA-TATTAAAAATAAA
*
116143735 CACATAATATA
1 TACATAATATA
116143746 GTTATTAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 5 0.11
21 2 0.04
22 6 0.13
23 15 0.33
24 1 0.02
25 17 0.37
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (22 bp):
TACATAATATATTAAAAATAAA
Found at i:116143870 original size:3 final size:3
Alignment explanation
Indices: 116143862--116143903 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
116143852 AAACATATAC
* *
116143862 TAA TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
116143904 GATGTATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:116144248 original size:11 final size:11
Alignment explanation
Indices: 116144228--116144262 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
116144218 AACATTAAAA
*
116144228 ATATATAATAT
1 ATATACAATAT
116144239 ATATACAATAT
1 ATATACAATAT
116144250 ATATACAATAT
1 ATATACAATAT
116144261 AT
1 AT
116144263 TCATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (11 bp):
ATATACAATAT
Found at i:116144260 original size:9 final size:10
Alignment explanation
Indices: 116144228--116144270 Score: 54
Period size: 9 Copynumber: 4.4 Consensus size: 10
116144218 AACATTAAAA
116144228 ATATATA-AT
1 ATATATACAT
116144237 ATATATACAAT
1 ATATATAC-AT
116144248 ATATATACA-
1 ATATATACAT
*
116144257 ATATATTCAT
1 ATATATACAT
116144267 ATAT
1 ATAT
116144271 TTAGAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 15 0.50
10 5 0.17
11 10 0.33
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATACAT
Found at i:116144374 original size:21 final size:23
Alignment explanation
Indices: 116144341--116144455 Score: 82
Period size: 21 Copynumber: 5.1 Consensus size: 23
116144331 ATATATATAA
* *
116144341 ATAATGGTGTTAGAAATATACAT
1 ATAATAGTATTAGAAATATACAT
116144364 -T-ATAGTATTAGAAATATACAT
1 ATAATAGTATTAGAAATATACAT
* *
116144385 ATAATAGTA-TA-AAAGATATAT
1 ATAATAGTATTAGAAATATACAT
* *
116144406 AACTAATAATATTAAAATATATACAT
1 -A-TAATAGTATTAGAA-ATATACAT
116144432 AATAATA-TATATA-AAATATA-AT
1 -ATAATAGTAT-TAGAAATATACAT
116144454 AT
1 AT
116144456 TAAAAACATA
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
21 28 0.36
22 7 0.09
23 18 0.23
24 7 0.09
25 9 0.12
26 8 0.10
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (23 bp):
ATAATAGTATTAGAAATATACAT
Found at i:116144403 original size:23 final size:23
Alignment explanation
Indices: 116144354--116144455 Score: 83
Period size: 23 Copynumber: 4.5 Consensus size: 23
116144344 ATGGTGTTAG
*
116144354 AAATATACAT-T-ATAGTATTAG
1 AAATATACATATAATAGTATTAA
116144375 AAATATACATATAATAGTA-TAA
1 AAATATACATATAATAGTATTAA
* *
116144397 AAGATATATA-ACTAATAATATTAA
1 AA-ATATACATA-TAATAGTATTAA
116144421 AATATATACATAATAATA-TA-TATA
1 AA-ATATACAT-ATAATAGTATTA-A
116144445 AAATATA-ATAT
1 AAATATACATAT
116144456 TAAAAACATA
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
21 12 0.18
22 8 0.12
23 26 0.38
24 16 0.24
25 5 0.07
26 1 0.01
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
AAATATACATATAATAGTATTAA
Found at i:116144444 original size:38 final size:38
Alignment explanation
Indices: 116144411--116144496 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 38
116144401 TATATAACTA
*
116144411 ATAATATTAAAATATATACATA-ATAATATATATAAAAT
1 ATAATATTAAAA-ACATACATACATAATATATATAAAAT
*
116144449 ATAATATTAAAAACATATATACATAATATATATGAAAAAT
1 ATAATATTAAAAACATACATACATAATATATAT--AAAAT
116144489 ATATATAT
1 ATA-ATAT
116144497 AATATAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
37 7 0.17
38 23 0.55
40 8 0.19
41 4 0.10
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (38 bp):
ATAATATTAAAAACATACATACATAATATATATAAAAT
Found at i:116144479 original size:13 final size:12
Alignment explanation
Indices: 116144409--116144528 Score: 88
Period size: 13 Copynumber: 10.0 Consensus size: 12
116144399 GATATATAAC
116144409 TAATAATAT-TA
1 TAATAATATATA
* *
116144420 AAAT-ATATACA
1 TAATAATATATA
116144431 TAATAATATATA
1 TAATAATATATA
116144443 TAA-AATATAATA
1 TAATAATAT-ATA
* *
116144455 TTAAAAACATATA
1 -TAATAATATATA
116144468 TACATAATATATA
1 TA-ATAATATATA
*
116144481 TGAAAAATATATA
1 T-AATAATATATA
116144494 T-ATAATATA-A
1 TAATAATATATA
* * *
116144504 TATTAAAATATT
1 TAATAATATATA
116144516 TACATAATATATA
1 TA-ATAATATATA
116144529 CATATTAGGA
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
10 6 0.07
11 25 0.30
12 16 0.19
13 32 0.38
14 5 0.06
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (12 bp):
TAATAATATATA
Found at i:116144490 original size:24 final size:24
Alignment explanation
Indices: 116144421--116144526 Score: 97
Period size: 24 Copynumber: 4.2 Consensus size: 24
116144411 ATAATATTAA
* * * *
116144421 AATATATACATAATAATATATATAA
1 AATATA-ATATAAAAATATATACAT
116144446 AATATAATATTAAAAACATATATACAT
1 AATATAATA-T-AAAA-ATATATACAT
*
116144473 AATAT-ATATGAAAAATATATATAT
1 AATATAATAT-AAAAATATATACAT
* *
116144497 AATATAATATTAAAATATTTACAT
1 AATATAATATAAAAATATATACAT
116144521 AATATA
1 AATATA
116144527 TACATATTAG
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
24 33 0.49
25 16 0.24
26 6 0.09
27 13 0.19
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (24 bp):
AATATAATATAAAAATATATACAT
Found at i:116144530 original size:11 final size:11
Alignment explanation
Indices: 116144421--116144532 Score: 54
Period size: 11 Copynumber: 10.1 Consensus size: 11
116144411 ATAATATTAA
116144421 AATATATACAT
1 AATATATACAT
*
116144432 AATAATATATAT
1 AAT-ATATACAT
116144444 AA-A-AT--AT
1 AATATATACAT
* *
116144451 AATAT-TAAAA
1 AATATATACAT
116144461 ACATATATACAT
1 A-ATATATACAT
* *
116144473 AATATATATGAAA
1 AATATATA--CAT
*
116144486 AATATATATAT
1 AATATATACAT
* *
116144497 AATATAATATTAA
1 AATAT-ATA-CAT
*
116144510 AATATTTACAT
1 AATATATACAT
116144521 AATATATACAT
1 AATATATACAT
116144532 A
1 A
116144533 TTAGGAATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 22
0.69 0.12 0.20
Matches are distributed among these distances:
7 4 0.05
8 2 0.03
9 2 0.03
10 3 0.04
11 32 0.42
12 18 0.23
13 16 0.21
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (11 bp):
AATATATACAT
Found at i:116144580 original size:12 final size:12
Alignment explanation
Indices: 116144563--116144587 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
116144553 ATAATAATGC
116144563 TACATAAATATA
1 TACATAAATATA
116144575 TACATAAATATA
1 TACATAAATATA
116144587 T
1 T
116144588 TAAAAACATA
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TACATAAATATA
Found at i:116144703 original size:13 final size:13
Alignment explanation
Indices: 116144663--116144705 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
116144653 TGAAATATAA
*
116144663 AAAGTAAATATAAT
1 AAAGT-AATAAAAT
*
116144677 AAAGATATTAAAAT
1 AAAG-TAATAAAAT
116144691 AAAGTAATAAAAT
1 AAAGTAATAAAAT
116144704 AA
1 AA
116144706 CACCATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 10 0.40
14 14 0.56
15 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (13 bp):
AAAGTAATAAAAT
Found at i:116144815 original size:7 final size:6
Alignment explanation
Indices: 116144796--116144836 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
116144786 TAATGGCGAC
* *
116144796 AATAAA AATAAA AATAAA AATAAAA AATAAA GATAAC AATA
1 AATAAA AATAAA AATAAA AAT-AAA AATAAA AATAAA AATA
116144837 CTAATGAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:116144821 original size:13 final size:13
Alignment explanation
Indices: 116144796--116144831 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
116144786 TAATGGCGAC
116144796 AATAAAAAT-AAA
1 AATAAAAATAAAA
116144808 AATAAAAATAAAA
1 AATAAAAATAAAA
*
116144821 AATAAAGATAA
1 AATAAAAATAA
116144832 CAATACTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:116144823 original size:19 final size:19
Alignment explanation
Indices: 116144799--116144836 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
116144789 TGGCGACAAT
116144799 AAAAATAAAAATAAAAATA
1 AAAAATAAAAATAAAAATA
* *
116144818 AAAAATAAAGATAACAATA
1 AAAAATAAAAATAAAAATA
116144837 CTAATGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAAATAAAAATAAAAATA
Found at i:116146789 original size:85 final size:86
Alignment explanation
Indices: 116146646--116147059 Score: 611
Period size: 86 Copynumber: 4.8 Consensus size: 86
116146636 AACTTTTGAT
* *
116146646 AAAAACAGAATTTGAAAATACCTCAGCATGTCTTGAAGCTCAACTCACTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
*
116146711 GATTTTTGA-AACATAAATTG
66 GATTTTTGACAACAGAAATTG
** * * *
116146731 AAAAATGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
116146796 GA-TTTTGACGAACAGAAATTG
66 GATTTTTGAC-AACAGAAATTG
* *
116146817 AAGAACAGAAATTGAAAATACCTCAGCATGTCTTGAAGCTCAACTCACTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
*
116146882 GATTTTTGA-AACATAAATTG
66 GATTTTTGACAACAGAAATTG
* * * *
116146902 AAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
*
116146967 GA-TTTTGACGAACAGAAATTC
66 GATTTTTGAC-AACAGAAATTG
* *
116146988 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATGTGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
*
116147053 AATTTTT
66 GATTTTT
116147060 TTGAAATACA
Statistics
Matches: 292, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
84 12 0.04
85 131 0.45
86 139 0.48
87 10 0.03
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (86 bp):
AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
GATTTTTGACAACAGAAATTG
Found at i:116146822 original size:14 final size:14
Alignment explanation
Indices: 116146800--116146832 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
116146790 TGAGTTGATT
*
116146800 TTGACGAACAGAAA
1 TTGAAGAACAGAAA
116146814 TTGAAGAACAGAAA
1 TTGAAGAACAGAAA
116146828 TTGAA
1 TTGAA
116146833 AATACCTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.09, G:0.21, T:0.18
Consensus pattern (14 bp):
TTGAAGAACAGAAA
Found at i:116146934 original size:171 final size:171
Alignment explanation
Indices: 116146646--116147059 Score: 756
Period size: 171 Copynumber: 2.4 Consensus size: 171
116146636 AACTTTTGAT
*
116146646 AAAAACAGAATTTGAAAATACCTCAGCATGTCTTGAAGCTCAACTCACTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAAGCTCAACTCACTTCTCGCAATATGAGTT
*
116146711 GATTTTTGAAACATAAATTGAAAAATGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
66 GATTTTTGAAACATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
*
116146776 CACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTG
131 CACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTC
*
116146817 AAGAACAGAAATTGAAAATACCTCAGCATGTCTTGAAGCTCAACTCACTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAAGCTCAACTCACTTCTCGCAATATGAGTT
116146882 GATTTTTGAAACATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
66 GATTTTTGAAACATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
116146947 CACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTC
131 CACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTC
* * *
116146988 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATGTGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAAGCTCAACTCACTTCTCGCAATATGAGTT
*
116147053 AATTTTT
66 GATTTTT
116147060 TTGAAATACA
Statistics
Matches: 234, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
171 234 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (171 bp):
AAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAAGCTCAACTCACTTCTCGCAATATGAGTT
GATTTTTGAAACATAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTC
Found at i:116147093 original size:33 final size:33
Alignment explanation
Indices: 116147051--116147118 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
116147041 GCAATGTGAG
116147051 TTAATTTTTTTGAAATACAGAAATCGAAAATAC
1 TTAATTTTTTTGAAATACAGAAATCGAAAATAC
116147084 TTAATTTTTTTGAAATACAGAAATCGAAAATAC
1 TTAATTTTTTTGAAATACAGAAATCGAAAATAC
116147117 TT
1 TT
116147119 CAGCATGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (33 bp):
TTAATTTTTTTGAAATACAGAAATCGAAAATAC
Found at i:116148067 original size:44 final size:43
Alignment explanation
Indices: 116147958--116148076 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 43
116147948 CTTCATTAGA
* * *
116147958 ATGCCCTTTCGGGTTTTCATCCTAATCCTTTGTGTTAATCAAG
1 ATGCCCTTTCGGGTTTTCATCTTGATCTTTTGTGTTAATCAAG
*
116148001 ATGCCCCTTCTGGGTTTTCATCTTGATCTTTTGTGTTAATCAAG
1 ATGCCCTTTC-GGGTTTTCATCTTGATCTTTTGTGTTAATCAAG
116148045 ATGCCCTTTTCGGGTTTTCATCTTGATCTTTT
1 ATGCCC-TTTCGGGTTTTCATCTTGATCTTTT
116148077 TTTTAGGCAT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 9 0.13
44 57 0.83
45 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (43 bp):
ATGCCCTTTCGGGTTTTCATCTTGATCTTTTGTGTTAATCAAG
Found at i:116150907 original size:18 final size:18
Alignment explanation
Indices: 116150886--116151166 Score: 158
Period size: 18 Copynumber: 15.2 Consensus size: 18
116150876 ACAATTATTA
116150886 ATTCAGTAACAGTCAGTT
1 ATTCAGTAACAGTCAGTT
* * *
116150904 ATTCGGTAACAATCAATT
1 ATTCAGTAACAGTCAGTT
* * **
116150922 ATTCAATAATAACCAGTT
1 ATTCAGTAACAGTCAGTT
116150940 ATTCAGTATCGATCAATTGATC-GATT
1 ATTCAGTA---A-C-A--G-TCAG-TT
* *
116150966 ATCCAGTAACAGTCAATT
1 ATTCAGTAACAGTCAGTT
* *
116150984 ATTCAGTAA-AATCAGAT
1 ATTCAGTAACAGTCAGTT
* *
116151001 ATTCAGTAACTATTAAGTT
1 ATTCAGTAAC-AGTCAGTT
*
116151020 ATTCAGTAGCAGTCA-TT
1 ATTCAGTAACAGTCAGTT
* * *
116151037 CATTCAGTGACAATCAATT
1 -ATTCAGTAACAGTCAGTT
* *
116151056 ATTCAGTAA-TGATCAATT
1 ATTCAGTAACAG-TCAGTT
* *
116151074 ATTCAGTAATATTCAGTT
1 ATTCAGTAACAGTCAGTT
*
116151092 ATTCAGTAACAGTCTA-AT
1 ATTCAGTAACAGTC-AGTT
* *
116151110 ATTCAATAACAGTCAATT
1 ATTCAGTAACAGTCAGTT
* *
116151128 ATCCAGTAACAGTCAATT
1 ATTCAGTAACAGTCAGTT
* *
116151146 ATTCAGTAATAATCAGTT
1 ATTCAGTAACAGTCAGTT
116151164 ATT
1 ATT
116151167 TTATACATTT
Statistics
Matches: 201, Mismatches: 44, Indels: 36
0.72 0.16 0.13
Matches are distributed among these distances:
17 17 0.08
18 150 0.75
19 18 0.09
21 2 0.01
22 1 0.00
23 2 0.01
25 1 0.00
26 10 0.05
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
ATTCAGTAACAGTCAGTT
Found at i:116150926 original size:36 final size:36
Alignment explanation
Indices: 116150886--116151166 Score: 192
Period size: 36 Copynumber: 7.6 Consensus size: 36
116150876 ACAATTATTA
* *
116150886 ATTCAGTAACAGTCAGTTATTCGGTAACAATCAATT
1 ATTCAGTAACAATCAGTTATTCAGTAACAATCAATT
* * * *
116150922 ATTCAATAATAACCAGTTATTCAGTATCGATCAATTGATCGATT
1 ATTCAGTAACAATCAGTTATTCAGTA---A-C-A---ATCAATT
* * *
116150966 ATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA-T
1 ATTCAGTAACAATCAGTTATTCAGTAACAATCA-ATT
* * * *
116151001 ATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-ATT
1 ATTCAGTAAC-AATCAGTTATTCAGTAACAATCAATT
* * **
116151037 CATTCAGTGACAATCAATTATTCAGTAATGATCAATT
1 -ATTCAGTAACAATCAGTTATTCAGTAACAATCAATT
* * *
116151074 ATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA-T
1 ATTCAGTAACAATCAGTTATTCAGTAACAATC-AATT
* * * * *
116151110 ATTCAATAACAGTCAATTATCCAGTAACAGTCAATT
1 ATTCAGTAACAATCAGTTATTCAGTAACAATCAATT
*
116151146 ATTCAGTAATAATCAGTTATT
1 ATTCAGTAACAATCAGTTATT
116151167 TTATACATTT
Statistics
Matches: 185, Mismatches: 44, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
35 16 0.09
36 121 0.65
37 17 0.09
38 1 0.01
39 1 0.01
40 1 0.01
41 2 0.01
44 26 0.14
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (36 bp):
ATTCAGTAACAATCAGTTATTCAGTAACAATCAATT
Found at i:116151034 original size:54 final size:53
Alignment explanation
Indices: 116150963--116151160 Score: 206
Period size: 54 Copynumber: 3.7 Consensus size: 53
116150953 CAATTGATCG
*
116150963 ATTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGATATTCAGTAACTATTA
1 ATTATCCAGTAACAGTCAATTATTCAGTAACAATCA-ATATTCAGTAACTATCA
* * *
116151016 AGTTATTCAGTAGCAGTC-ATTCATTCAGTGACAATCAATTATTCAGTAA-TGATCA
1 A-TTATCCAGTAACAGTCAATT-ATTCAGTAACAATCAA-TATTCAGTAACT-ATCA
* * * * * *
116151071 ATTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAATATTCAATAAC-AGTCA
1 ATTATCCAGTAACAGTCAATTATTCAGTAACAATC-AATATTCAGTAACTA-TCA
*
116151125 ATTATCCAGTAACAGTCAATTATTCAGTAATAATCA
1 ATTATCCAGTAACAGTCAATTATTCAGTAACAATCA
116151161 GTTATTTTAT
Statistics
Matches: 119, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
53 6 0.05
54 90 0.76
55 23 0.19
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (53 bp):
ATTATCCAGTAACAGTCAATTATTCAGTAACAATCAATATTCAGTAACTATCA
Found at i:116151095 original size:72 final size:71
Alignment explanation
Indices: 116150969--116151166 Score: 247
Period size: 72 Copynumber: 2.7 Consensus size: 71
116150959 ATCGATTATC
* *
116150969 CAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAGCAGT
1 CAGTAACAGTCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAACAGT
*
116151033 C-ATTCATT
64 CTAAT-ATT
* * *
116151041 CAGTGACAATCAATTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAACAGTC
1 CAGTAACAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAACAGTC
116151106 TAATATT
65 TAATATT
* * * *
116151113 CAATAACAGTCAATTATCCAGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 CAGTAACAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
116151167 TTATACATTT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
72 93 0.85
73 16 0.15
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (71 bp):
CAGTAACAGTCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACAGTCT
AATATT
Found at i:116151530 original size:45 final size:45
Alignment explanation
Indices: 116151334--116151528 Score: 309
Period size: 45 Copynumber: 4.3 Consensus size: 45
116151324 ATCCGGAATA
* * *
116151334 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
**
116151379 GTAATGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
116151424 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
116151469 GTAACAGTAGCAGTAGCAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
116151514 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
116151529 GCGGTAACAA
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 141 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:116151948 original size:5 final size:5
Alignment explanation
Indices: 116151937--116151993 Score: 78
Period size: 5 Copynumber: 11.2 Consensus size: 5
116151927 AATTAATCAT
* * *
116151937 AATTC CATTC CATTC AATTC CATTC AATTC AATTC AATTC AATTC AATTC
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC
116151987 AAATTC A
1 -AATTC A
116151994 CTTTTCCACT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
5 42 0.89
6 5 0.11
ACGTcount: A:0.37, C:0.25, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTC
Found at i:116152180 original size:25 final size:26
Alignment explanation
Indices: 116152119--116152181 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
116152109 CTTTACACAT
*
116152119 ATTCATAATTTATTTTATTTTTATTCA
1 ATTCA-AATTTATTTTATTTTTATCCA
* *
116152146 ATTCATATTTA-TTTATTTATTGTCCA
1 ATTCAAATTTATTTTATTT-TTATCCA
116152172 A-TCAAATTTA
1 ATTCAAATTTA
116152182 AAATCACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 15 0.48
26 11 0.35
27 5 0.16
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTCAAATTTATTTTATTTTTATCCA
Found at i:116152376 original size:21 final size:21
Alignment explanation
Indices: 116152351--116152411 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
116152341 TTCAATTTCA
116152351 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
116152372 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
116152393 AATCAATATTCAATCCAAT
1 ATTCAATAATCAATTCAAT
116152412 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:116153663 original size:11 final size:11
Alignment explanation
Indices: 116153649--116153673 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
116153639 GTTTTACTTT
116153649 ATATATATATA
1 ATATATATATA
116153660 ATATATATATA
1 ATATATATATA
116153671 ATA
1 ATA
116153674 ACAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATATATA
Found at i:116157539 original size:46 final size:46
Alignment explanation
Indices: 116157408--116157680 Score: 372
Period size: 46 Copynumber: 6.0 Consensus size: 46
116157398 TTATCTTTGA
* * * * * *
116157408 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * ***
116157453 CATGTTGCCATGGTATCTTTCAACTATGGCCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
116157499 CA-GATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
116157545 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
116157591 CATGTTGCTATGGTATCTTTCAACCATGGTCTTACACATTTC-TAAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-AT
*
116157637 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
116157681 TTCAGAAAGC
Statistics
Matches: 205, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
45 38 0.19
46 165 0.80
47 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:116157611 original size:25 final size:25
Alignment explanation
Indices: 116157537--116157612 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
116157527 GTCTTACACA
* *
116157537 TTTCATATCAGGTTGCCATGGTATC
1 TTTCATATCATGTTGCTATGGTATC
* * *
116157562 TTTCA-ACCATGGT-CT-T-GCA-C
1 TTTCATATCATGTTGCTATGGTATC
116157582 ATTTCATATCATGTTGCTATGGTATC
1 -TTTCATATCATGTTGCTATGGTATC
116157608 TTTCA
1 TTTCA
116157613 ACCATGGTCT
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 7 0.19
22 7 0.19
23 3 0.08
24 6 0.16
25 12 0.32
26 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (25 bp):
TTTCATATCATGTTGCTATGGTATC
Found at i:116159833 original size:11 final size:11
Alignment explanation
Indices: 116159817--116159855 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
116159807 ACTAAATAAT
116159817 TAATAATAAAA
1 TAATAATAAAA
*
116159828 TAATAATGAAA
1 TAATAATAAAA
116159839 TAATAATAAAA
1 TAATAATAAAA
*
116159850 AAATAA
1 TAATAA
116159856 AATATTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:116163201 original size:22 final size:22
Alignment explanation
Indices: 116163176--116163220 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
116163166 AATGGATGGA
116163176 TGAATAAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
116163198 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
116163220 T
1 T
116163221 AGTCATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:116167076 original size:22 final size:23
Alignment explanation
Indices: 116167051--116167099 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
116167041 AAGAAACCAG
116167051 AAATTT-GGTGTGAGGGAAATGA
1 AAATTTCGGTGTGAGGGAAATGA
* *
116167073 AAATTTCTGTGTGAGGGAGATGA
1 AAATTTCGGTGTGAGGGAAATGA
116167096 AAAT
1 AAAT
116167100 AAAATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.37, C:0.02, G:0.33, T:0.29
Consensus pattern (23 bp):
AAATTTCGGTGTGAGGGAAATGA
Found at i:116167620 original size:20 final size:21
Alignment explanation
Indices: 116167581--116167620 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
116167571 AAATTTTAAA
*
116167581 AACCACAATATTGAAAAATAC
1 AACCACAATATTCAAAAATAC
*
116167602 AACCACAA-ATTCCAAAATA
1 AACCACAATATTCAAAAATA
116167621 GTTAATTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.57, C:0.23, G:0.03, T:0.17
Consensus pattern (21 bp):
AACCACAATATTCAAAAATAC
Found at i:116171392 original size:22 final size:23
Alignment explanation
Indices: 116171348--116171389 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
116171338 TTAACTTAAC
116171348 AACTAACTTAACTCAAAATAATT
1 AACTAACTTAACTCAAAATAATT
*
116171371 AACTAA-TTAA-TCATAATAA
1 AACTAACTTAACTCAAAATAA
116171390 ATTTTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 4 0.22
23 6 0.33
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (23 bp):
AACTAACTTAACTCAAAATAATT
Found at i:116172428 original size:16 final size:17
Alignment explanation
Indices: 116172407--116172444 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
116172397 ATATGTTTTT
116172407 TATTTAAATATTTA-AA
1 TATTTAAATATTTATAA
**
116172423 TATTTATTTATTTATAA
1 TATTTAAATATTTATAA
116172440 TATTT
1 TATTT
116172445 TACTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTAAATATTTATAA
Found at i:116172452 original size:25 final size:24
Alignment explanation
Indices: 116172382--116172444 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
116172372 TCATAAATAA
* * * *
116172382 TATTAAAAAATTTATATATGTTTTT
1 TATTTAAATATTTAAATAT-TTATT
116172407 TATTTAAATATTTAAATATTTATT
1 TATTTAAATATTTAAATATTTATT
116172431 TATTTATAATATTT
1 TATTTA-AATATTT
116172445 TACTATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 10 0.30
25 23 0.70
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTTAAATATTTAAATATTTATT
Found at i:116172463 original size:25 final size:25
Alignment explanation
Indices: 116172407--116172463 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
116172397 ATATGTTTTT
*
116172407 TATTTA-AATATTTAAATATTTATT
1 TATTTATAATATTTAAATATTTATA
* *
116172431 TATTTATAATATTTTACTATTT-TA
1 TATTTATAATATTTAAATATTTATA
116172455 TATTATATA
1 TATT-TATA
116172464 GTACATTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTATAATATTTAAATATTTATA
Found at i:116175177 original size:6 final size:6
Alignment explanation
Indices: 116175166--116175272 Score: 187
Period size: 6 Copynumber: 17.8 Consensus size: 6
116175156 TTCATATATA
116175166 TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG
1 TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG
*
116175214 TGCGTG TGCGTG TGCGTG TGCGTG TGGGTG TGCGTG TGCGTG TGCGTG
1 TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG
* *
116175262 CGCGTG CGCGT
1 TGCGTG TGCGT
116175273 ATATATATAT
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 98 1.00
ACGTcount: A:0.00, C:0.18, G:0.50, T:0.32
Consensus pattern (6 bp):
TGCGTG
Found at i:116180967 original size:17 final size:18
Alignment explanation
Indices: 116180933--116180978 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
116180923 CCGTTATGTC
116180933 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
116180948 CGCGACC-CGACCGAAAA
1 CGCGACCGCGACCGAAAA
116180965 CGCGACCGCGACCG
1 CGCGACCGCGACCG
116180979 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.11
15 8 0.30
17 10 0.37
18 6 0.22
ACGTcount: A:0.28, C:0.43, G:0.28, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:116185808 original size:35 final size:35
Alignment explanation
Indices: 116185762--116185831 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
116185752 ACATACATAG
* *
116185762 TTTTTATTCCTCATTTCTGTTGGGTTTTTCACACA
1 TTTTTATTCCTCATTCCTGTTGGATTTTTCACACA
116185797 TTTTTATTCCTCATTCCTGTTGGATTTTTCACACA
1 TTTTTATTCCTCATTCCTGTTGGATTTTTCACACA
116185832 GGAAGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.10, T:0.53
Consensus pattern (35 bp):
TTTTTATTCCTCATTCCTGTTGGATTTTTCACACA
Found at i:116186818 original size:31 final size:31
Alignment explanation
Indices: 116186780--116186843 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
116186770 CCTTTTCATA
*
116186780 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
116186811 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
116186842 TT
1 TT
116186844 ACTGTAACCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:116187088 original size:24 final size:24
Alignment explanation
Indices: 116187037--116187131 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
116187027 GCTTTATCAT
*
116187037 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
116187062 ATAACCGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
116187086 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
116187109 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
116187132 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.37
24 29 0.46
25 11 0.17
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:116187112 original size:23 final size:23
Alignment explanation
Indices: 116187058--116187130 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
116187048 CCTAGCCTCT
* *
116187058 TTTAATAACCGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
116187081 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
116187105 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
116187128 TTT
1 TTT
116187131 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:116187206 original size:20 final size:20
Alignment explanation
Indices: 116187181--116187247 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
116187171 TTATGAATAC
116187181 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
116187201 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
116187221 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
116187241 ACCATGT
1 ATCATGT
116187248 TTACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:116195124 original size:22 final size:23
Alignment explanation
Indices: 116195081--116195128 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
116195071 CCTAGCCTCT
*
116195081 TTTAATAACTGGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
116195104 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
116195126 TTT
1 TTT
116195129 TGCATTTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:116195200 original size:20 final size:20
Alignment explanation
Indices: 116195177--116195242 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
116195167 TTATGAATAC
116195177 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
116195197 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
116195217 GTCATGT-CATATCATACAT
1 ATCATGTGCATATCATACAT
*
116195236 ACCATGT
1 ATCATGT
116195243 TTACTAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 16 0.39
20 25 0.61
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:116207476 original size:6 final size:6
Alignment explanation
Indices: 116207465--116207492 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
116207455 TTTATGTAAG
116207465 AAAACA AAAACA AAAACA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAA
116207493 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:116207599 original size:13 final size:13
Alignment explanation
Indices: 116207581--116207607 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
116207571 ATTGTCAATC
116207581 TGTTACATTAATT
1 TGTTACATTAATT
116207594 TGTTACATTAATT
1 TGTTACATTAATT
116207607 T
1 T
116207608 ATTTATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTTACATTAATT
Found at i:116208078 original size:7 final size:7
Alignment explanation
Indices: 116208068--116208119 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
116208058 CACTAACTCT
*
116208068 TAACCTC
1 TAACCCC
*
116208075 TAACCTC
1 TAACCCC
116208082 TAACCCC
1 TAACCCC
116208089 TAACCCC
1 TAACCCC
*
116208096 TAATCCC
1 TAACCCC
**
116208103 TAACTAC
1 TAACCCC
116208110 TAACCCC
1 TAACCCC
116208117 TAA
1 TAA
116208120 ATCTTATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23
Consensus pattern (7 bp):
TAACCCC
Found at i:116208084 original size:21 final size:21
Alignment explanation
Indices: 116208055--116208119 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
116208045 TTAAACCTTA
* * *
116208055 AATCACTAACTCTTAACCTCT
1 AATCCCTAACTCCTAACCCCT
*
116208076 AA-CCTCTAACCCCTAACCCCT
1 AATCC-CTAACTCCTAACCCCT
*
116208097 AATCCCTAACTACTAACCCCT
1 AATCCCTAACTCCTAACCCCT
116208118 AA
1 AA
116208120 ATCTTATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.92
22 2 0.06
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.25
Consensus pattern (21 bp):
AATCCCTAACTCCTAACCCCT
Found at i:116208411 original size:10 final size:10
Alignment explanation
Indices: 116208398--116208479 Score: 80
Period size: 11 Copynumber: 8.1 Consensus size: 10
116208388 TTTTACATAC
*
116208398 TTTTTTAAAT
1 TTTTTTAAAA
116208408 TTTTTTAAAA
1 TTTTTTAAAA
116208418 --TTTTAAAA
1 TTTTTTAAAA
116208426 TATTTTTAAAA
1 T-TTTTTAAAA
116208437 TATTTTTAAAA
1 T-TTTTTAAAA
**
116208448 TACTTTTTTTAA
1 T--TTTTTAAAA
116208460 TTTTTTAAAA
1 TTTTTTAAAA
116208470 -TTTTTAAAA
1 TTTTTTAAAA
116208479 T
1 T
116208480 AAAAATGGGT
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
8 8 0.13
9 9 0.15
10 16 0.26
11 20 0.33
12 8 0.13
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:116208412 original size:11 final size:11
Alignment explanation
Indices: 116208376--116208474 Score: 75
Period size: 11 Copynumber: 9.2 Consensus size: 11
116208366 ATTTTTTTAA
116208376 TTTTAAAATATT
1 TTTTAAAAT-TT
* *
116208388 TTTTACATACTT
1 TTTTA-AAATTT
116208400 TTTT-AAATTT
1 TTTTAAAATTT
116208410 TTTTAAAA---
1 TTTTAAAATTT
*
116208418 TTTTAAAATAT
1 TTTTAAAATTT
*
116208429 TTTTAAAATAT
1 TTTTAAAATTT
116208440 TTTTAAAATACTT
1 TTTTAAAAT--TT
*
116208453 TTTT-TAA-TT
1 TTTTAAAATTT
116208462 TTTTAAAATTT
1 TTTTAAAATTT
116208473 TT
1 TT
116208475 AAAATAAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
8 8 0.11
9 6 0.08
10 10 0.14
11 27 0.38
12 13 0.18
13 7 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:116208432 original size:22 final size:21
Alignment explanation
Indices: 116208364--116208474 Score: 81
Period size: 22 Copynumber: 5.3 Consensus size: 21
116208354 ATAAATATAT
116208364 ATATTTTTTT--AATTTTAAA
1 ATATTTTTTTAAAATTTTAAA
* **
116208383 ATA-TTTTTTACATACTTTTTTA
1 ATATTTTTTTA-A-AATTTTAAA
116208405 A-ATTTTTTTAAAATTTTAAA
1 ATATTTTTTTAAAATTTTAAA
*
116208425 ATA-TTTTTAAAATATTTTTAAA
1 ATATTTTTTTAAA-A-TTTTAAA
**
116208447 ATACTTTTTTTAATTTTTTAAA
1 ATA-TTTTTTTAAAATTTTAAA
116208469 AT-TTTT
1 ATATTTT
116208475 AAAATAAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
18 6 0.08
19 3 0.04
20 19 0.26
21 4 0.06
22 33 0.46
24 7 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATTTTTTTAAAATTTTAAA
Found at i:116208439 original size:53 final size:53
Alignment explanation
Indices: 116208376--116208480 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
116208366 ATTTTTTTAA
* *
116208376 TTTTAAAATATTTTTTACATACTTTTTTAAATTTTTTTAAAA-TTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTAAA-TTTTTTAAAATTTTTAAAATAT
*
116208429 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAAATTTTTAAAATA
116208481 AAAATGGGTC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 10 0.21
53 38 0.79
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (53 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTAAAATTTTTAAAATAT
Found at i:116208455 original size:42 final size:43
Alignment explanation
Indices: 116208374--116208480 Score: 130
Period size: 42 Copynumber: 2.5 Consensus size: 43
116208364 ATATTTTTTT
* * *
116208374 AATTTTAAAATATTTTTTACATACTTTTTTAAAT-TTTTTTAA
1 AATTTTAAAATATTTTTAAAATACTTTTTAAAATCTTTTTTAA
*
116208416 AATTTTAAAATATTTTTAAAATA-TTTTTAAAATACTTTTTTTA
1 AATTTTAAAATATTTTTAAAATACTTTTTAAAAT-CTTTTTTAA
* *
116208459 ATTTTTTAAA-ATTTTTAAAATA
1 AATTTTAAAATATTTTTAAAATA
116208481 AAAATGGGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 9 0.16
42 33 0.58
43 15 0.26
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (43 bp):
AATTTTAAAATATTTTTAAAATACTTTTTAAAATCTTTTTTAA
Found at i:116208473 original size:8 final size:9
Alignment explanation
Indices: 116208399--116208479 Score: 54
Period size: 9 Copynumber: 8.1 Consensus size: 9
116208389 TTTACATACT
*
116208399 TTTTTAAATT
1 TTTTTAAA-A
116208409 TTTTTAAAA
1 TTTTTAAAA
*
116208418 TTTTAAAATA
1 TTTTTAAA-A
116208428 TTTTTAAAATA
1 TTTTT-AAA-A
116208439 TTTTTAAAATA
1 TTTTT-AAA-A
* *
116208450 CTTTTTTTAAT
1 --TTTTTAAAA
116208461 TTTTTAAAA
1 TTTTTAAAA
116208470 TTTTTAAAA
1 TTTTTAAAA
116208479 T
1 T
116208480 AAAAATGGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
9 24 0.40
10 13 0.22
11 16 0.27
12 2 0.03
13 5 0.08
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:116208903 original size:21 final size:21
Alignment explanation
Indices: 116208879--116208930 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
116208869 CACTAATTCT
*
116208879 TAACCTCTAATCTC-TAACCAC
1 TAACCCCTAATC-CATAACCAC
*
116208900 TAACCCCTAATCCATAACTAC
1 TAACCCCTAATCCATAACCAC
116208921 TAACCCCTAA
1 TAACCCCTAA
116208931 ATCTTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (21 bp):
TAACCCCTAATCCATAACCAC
Found at i:116209648 original size:41 final size:41
Alignment explanation
Indices: 116209603--116209723 Score: 199
Period size: 41 Copynumber: 3.0 Consensus size: 41
116209593 TCAAAAACGG
116209603 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
116209644 GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG-CTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
116209684 GCATTAGCGGCGCTTATTCAAAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTC-AAAAACGCCGCTAAAGGCCC
116209724 AAAAAACCCA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 20 0.27
41 52 0.71
42 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.17
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:116209806 original size:38 final size:39
Alignment explanation
Indices: 116209759--116209891 Score: 164
Period size: 40 Copynumber: 3.4 Consensus size: 39
116209749 GGGTTTAGGC
116209759 TTTTT-GCGGCGCTTTTCAAAAAACGCCGCTAATGC-T-A
1 TTTTTAGCGGCG-TTTTCAAAAAACGCCGCTAATGCTTGA
*
116209796 TTTTTAGCGGCGTTTTCCAAATAACGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTT-CAAAAAACGCCGCTAATGCTTGA
** * *
116209836 CCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCA-AAAAACGCCGCTAATGCTTGA
*
116209876 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
116209892 TTGCCCGAGC
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
37 9 0.11
38 24 0.29
39 2 0.02
40 47 0.57
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCAAAAAACGCCGCTAATGCTTGA
Found at i:116210381 original size:120 final size:119
Alignment explanation
Indices: 116210160--116210399 Score: 345
Period size: 120 Copynumber: 2.0 Consensus size: 119
116210150 GCATAGTGTA
** * *
116210160 GCAGTTGAAGAATTTCATCTAACGGTTGCATGTAGATATATCTATTGAAAGACCTTTAGGACGCT
1 GCAGTTGAAGAATTTCATCTAACGGTTGCATGTAGATATATCTATCCAAAGACCTTTAAGACGCC
** *
116210225 ATACATGTGTAAATCGAACCATCCAAAATAGTTAGAATAGATCTTTAATAGCTT
66 ATACATGTGTAAATCGAACCATCCAAAATAACTAGAATAGATCTTTAATAACTT
* * * * * * *
116210279 GCAGTTGAAGAATTTTATCTGACGGTTGTATGTAGATGTATCTATCCAGAGGCTTTTAAAGACGC
1 GCAGTTGAAGAATTTCATCTAACGGTTGCATGTAGATATATCTATCCAAAGACCTTT-AAGACGC
116210344 CATACATGTGTAAATCGAACCATCCAAAATAACTAGAATAGATCTTTAATAACTT
65 CATACATGTGTAAATCGAACCATCCAAAATAACTAGAATAGATCTTTAATAACTT
116210399 G
1 G
116210400 TAACACAGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
119 48 0.45
120 58 0.55
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (119 bp):
GCAGTTGAAGAATTTCATCTAACGGTTGCATGTAGATATATCTATCCAAAGACCTTTAAGACGCC
ATACATGTGTAAATCGAACCATCCAAAATAACTAGAATAGATCTTTAATAACTT
Found at i:116211237 original size:19 final size:20
Alignment explanation
Indices: 116211201--116211251 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
116211191 AAATTACAAA
*
116211201 AAAAAATCAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
116211220 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
116211240 AAAAATTTCAAA
1 AAAAA-TTCAAA
116211252 TTTTATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:116211252 original size:19 final size:18
Alignment explanation
Indices: 116211221--116211258 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
116211211 AATAATTTTC
116211221 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAAT-TTTAT
116211240 AAAAATTTC-AAATTTTAT
1 AAAAA-TTCAAAATTTTAT
116211258 A
1 A
116211259 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 9 0.50
20 3 0.17
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTCAAAATTTTAT
Found at i:116211281 original size:11 final size:11
Alignment explanation
Indices: 116211265--116211312 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
116211255 TATATTTTTT
116211265 AAAAATTATAA
1 AAAAATTATAA
116211276 AAAAATTATAA
1 AAAAATTATAA
*
116211287 AAATATATATAA
1 AAAAAT-TATAA
*
116211299 AGAAAGTTA-AA
1 A-AAAATTATAA
116211310 AAA
1 AAA
116211313 TTAAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 2 0.06
11 19 0.59
12 8 0.25
13 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:116211288 original size:10 final size:10
Alignment explanation
Indices: 116211265--116211319 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
116211255 TATATTTTTT
116211265 AAAAATTATAA
1 AAAAATTAT-A
116211276 AAAAATTATA
1 AAAAATTATA
116211286 AAAATATATATA
1 AAAA-AT-TATA
*
116211298 AAGAAAGT-TA
1 AA-AAATTATA
116211308 AAAAATTA-A
1 AAAAATTATA
116211317 AAA
1 AAA
116211320 TTTTCTAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 8 0.21
10 9 0.24
11 12 0.32
12 7 0.18
13 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (10 bp):
AAAAATTATA
Found at i:116213024 original size:15 final size:15
Alignment explanation
Indices: 116213004--116213036 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
116212994 ATTAATGAAA
116213004 AAAATCTAAATTCAC
1 AAAATCTAAATTCAC
116213019 AAAATCTAAATTCAC
1 AAAATCTAAATTCAC
116213034 AAA
1 AAA
116213037 TTACACATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATCTAAATTCAC
Found at i:116213777 original size:13 final size:13
Alignment explanation
Indices: 116213758--116213790 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
116213748 AAGTTATGTG
116213758 GAAAAGTGCTTTT
1 GAAAAGTGCTTTT
*
116213771 GAGAAGTGCTTTT
1 GAAAAGTGCTTTT
116213784 GAAAAGT
1 GAAAAGT
116213791 TTGGTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (13 bp):
GAAAAGTGCTTTT
Found at i:116214068 original size:33 final size:35
Alignment explanation
Indices: 116213973--116214069 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
116213963 TTAATATTTT
*
116213973 AATATATAAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
116214008 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
116214041 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
116214070 ATATAACTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:116214084 original size:33 final size:30
Alignment explanation
Indices: 116214008--116214093 Score: 79
Period size: 33 Copynumber: 2.8 Consensus size: 30
116213998 ATTTTTAAGC
116214008 AATA-AATATT-AATTATTTATAAAATTTA
1 AATATAATATTAAATTATTTATAAAATTTA
* * *
116214036 ATTAGAATATATAAATTATATTTTAAATATTTA
1 AATATAATAT-TAAATTAT-TTATAAA-ATTTA
*
116214069 AATATAACTATTAAA-TATTTGTAAA
1 AATATAA-TATTAAATTATTTATAAA
116214094 TAGTATTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 3 0.06
29 5 0.11
30 1 0.02
31 12 0.26
32 9 0.19
33 14 0.30
34 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (30 bp):
AATATAATATTAAATTATTTATAAAATTTA
Found at i:116215667 original size:16 final size:16
Alignment explanation
Indices: 116215646--116215689 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
116215636 GGGTAGAAAA
116215646 AAAAAATTAGAAGGAT
1 AAAAAATTAGAAGGAT
* *
116215662 AAAAAATTAAAAGGGT
1 AAAAAATTAGAAGGAT
*
116215678 AAAAAAATAGAA
1 AAAAAATTAGAA
116215690 AGATGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (16 bp):
AAAAAATTAGAAGGAT
Found at i:116225142 original size:20 final size:18
Alignment explanation
Indices: 116225117--116225158 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
116225107 AATGATAAAT
*
116225117 AAGAAATAGAGAGATCACAG
1 AAGAAA-AGA-AGATAACAG
116225137 AAG-AAAGAAGATAACAG
1 AAGAAAAGAAGATAACAG
116225154 AAGAA
1 AAGAA
116225159 GAAAAGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 11 0.55
18 4 0.20
19 2 0.10
20 3 0.15
ACGTcount: A:0.62, C:0.07, G:0.24, T:0.07
Consensus pattern (18 bp):
AAGAAAAGAAGATAACAG
Found at i:116226217 original size:22 final size:23
Alignment explanation
Indices: 116226192--116226234 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
116226182 TTTTGTTTTT
116226192 ATTAAAAAAT-TTAGATGTTTCC
1 ATTAAAAAATATTAGATGTTTCC
*
116226214 ATTAATAAATATTAGATGTTT
1 ATTAAAAAATATTAGATGTTT
116226235 TTTTTATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (23 bp):
ATTAAAAAATATTAGATGTTTCC
Found at i:116229895 original size:24 final size:25
Alignment explanation
Indices: 116229864--116229917 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
116229854 TTATTATTAT
*
116229864 TATT-AATTATTAGTA-TGGTTTTA
1 TATTAAATTATTAGTATTAGTTTTA
* *
116229887 TATTAAATTATTATTATTATTTTTA
1 TATTAAATTATTAGTATTAGTTTTA
116229912 TATTAA
1 TATTAA
116229918 GTTAAAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 4 0.15
24 10 0.38
25 12 0.46
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (25 bp):
TATTAAATTATTAGTATTAGTTTTA
Found at i:116231889 original size:19 final size:19
Alignment explanation
Indices: 116231853--116231895 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
116231843 AATTGAAATG
116231853 AAATTAATATTATTAATATT
1 AAATTAATATTATTAATA-T
*
116231873 AAATTATTATT-TTAATAT
1 AAATTAATATTATTAATAT
116231891 AAATT
1 AAATT
116231896 GGATGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 6 0.27
20 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATTAATATTATTAATAT
Found at i:116235028 original size:16 final size:15
Alignment explanation
Indices: 116235001--116235032 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
116234991 AAATACAACA
116235001 AAATATAATATATAT
1 AAATATAATATATAT
116235016 AAATATAAATATATAT
1 AAATAT-AATATATAT
116235032 A
1 A
116235033 CAACAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATAATATATAT
Found at i:116235150 original size:25 final size:26
Alignment explanation
Indices: 116235100--116235162 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
116235090 TAAAGATTCG
*
116235100 AATAAACAATATACAAGAAAACTTAA
1 AATAAATAATATACAAGAAAACTTAA
*
116235126 AATAAATGAATATA-AA-AAAATTTAA
1 AATAAAT-AATATACAAGAAAACTTAA
116235151 AATAAATAATAT
1 AATAAATAATAT
116235163 TATATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 5 0.15
25 15 0.44
26 8 0.24
27 6 0.18
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (26 bp):
AATAAATAATATACAAGAAAACTTAA
Found at i:116237112 original size:44 final size:44
Alignment explanation
Indices: 116236987--116237525 Score: 481
Period size: 44 Copynumber: 12.3 Consensus size: 44
116236977 CAAATACAGG
* * *
116236987 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAA
* * *
116237032 GACAAGATCTG-TATCTTAGATCCACTTC-CTATCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAA
* * * * *
116237075 GA-TAGAACCTGCTATCTTCGATCTACTTCACGCCAATACATGAA
1 GACAAG-ATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
* *
116237119 GACAAGATCTGCCT-TCTGCGATCTACTTCGCCACCAATAT-GGAA
1 GACAAGATCTG-CTATCTTCGATCTACTTC-ACACCAATATAGGAA
* *
116237163 GACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAA
**** * * * *
116237206 GGTGGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
* * * *
116237250 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAA
*
116237295 GACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAA
* * * * * * *
116237338 GATAGGATCTGCTACCTTCGATCTACTTCACGCCCATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
* * * * *
116237382 GACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAA
*
116237427 GACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAA
* * * * * *
116237470 GATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
116237514 GACAA-ATCTGCT
1 GACAAGATCTGCT
116237526 TTAATGATTT
Statistics
Matches: 390, Mismatches: 84, Indels: 42
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.00
42 13 0.03
43 92 0.24
44 216 0.55
45 68 0.17
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (44 bp):
GACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAA
Found at i:116237364 original size:132 final size:132
Alignment explanation
Indices: 116236987--116237527 Score: 933
Period size: 132 Copynumber: 4.1 Consensus size: 132
116236977 CAAATACAGG
* * * * *
116236987 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTAGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * * *
116237052 TCCACTTCCTATCAATATAGGAAGATAGAACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
116237117 AA
131 AA
* *
116237119 GACAAGATCTGCCTTCTGCGATCTACTTCGCCACCAATAT-GGAAGACAAGATCTGCATCTTTGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
116237183 TCCACTTCCTACCAATATAGGAAGGTGGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
116237248 AA
131 AA
116237250 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
116237315 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCCATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
116237380 AA
131 AA
*
116237382 GACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
116237447 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
116237512 AA
131 AA
116237514 GACAA-ATCTGCTTT
1 GACAAGATCTGCTTT
116237528 AATGATTTCA
Statistics
Matches: 389, Mismatches: 19, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
131 131 0.34
132 258 0.66
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:116237405 original size:263 final size:264
Alignment explanation
Indices: 116236987--116237527 Score: 933
Period size: 263 Copynumber: 2.1 Consensus size: 264
116236977 CAAATACAGG
* * *
116236987 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTAGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTAGA
* *
116237052 TCCACTTCCTATCAATATAGGAAGATAGAACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGAACCTGCTACCTTCGATCTACTTCACGCCAATACATG
* *
116237117 AAGACAAGATCTGCCTTCTGCGATCTACTTCGCCACCAATAT-GGAAGACAAGATCTGCATCTTT
131 AAGACAAAATCTGCCTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
* *
116237181 GATCCACTTCCTACCAATATAGGAAGGTGGGATCTGCTACCTTCGATCTACTTCACGCCAATACA
196 GATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACA
116237246 TGAA
261 TGAA
* *
116237250 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTAGA
* * *
116237315 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCCATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGAACCTGCTACCTTCGATCTACTTCACGCCAATACATG
*
116237380 AAGACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
131 AAGACAAAATCTGCCTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
116237445 GATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACA
196 GATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACA
116237510 TGAA
261 TGAA
116237514 GACAA-ATCTGCTTT
1 GACAAGATCTGCTTT
116237528 AATGATTTCA
Statistics
Matches: 262, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
263 169 0.65
264 93 0.35
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (264 bp):
GACAAGATCTGCTTTCTGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTAGA
TCCACTTCCTACCAATATAGGAAGATAGAACCTGCTACCTTCGATCTACTTCACGCCAATACATG
AAGACAAAATCTGCCTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
GATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACA
TGAA
Found at i:116249408 original size:25 final size:26
Alignment explanation
Indices: 116249358--116249420 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
116249348 ATAAAGTTCG
*
116249358 AATAAACAATATACAAGAAAACTTAA
1 AATAAATAATATACAAGAAAACTTAA
*
116249384 AATAAATGAATATA-AA-AAAATTTAA
1 AATAAAT-AATATACAAGAAAACTTAA
116249409 AATAAATAATAT
1 AATAAATAATAT
116249421 TATATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 5 0.15
25 15 0.44
26 8 0.24
27 6 0.18
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (26 bp):
AATAAATAATATACAAGAAAACTTAA
Found at i:116250928 original size:9 final size:11
Alignment explanation
Indices: 116250893--116250931 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
116250883 CACAATAGTC
*
116250893 CTCTCACGATT
1 CTCTCACAATT
116250904 CTCTCACAATT
1 CTCTCACAATT
116250915 CTCTCA-AATTT
1 CTCTCACAA-TT
116250926 CTCTCA
1 CTCTCA
116250932 ATTTTTGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 2 0.08
11 24 0.92
ACGTcount: A:0.23, C:0.36, G:0.03, T:0.38
Consensus pattern (11 bp):
CTCTCACAATT
Found at i:116250949 original size:21 final size:21
Alignment explanation
Indices: 116250925--116250964 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
116250915 CTCTCAAATT
116250925 TCTCTC-AATTTTTGTCAAAGC
1 TCTCTCTAATTTTTG-CAAAGC
116250946 TCTCTCTAATTTTTGCAAA
1 TCTCTCTAATTTTTGCAAA
116250965 AAAGCTCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (21 bp):
TCTCTCTAATTTTTGCAAAGC
Found at i:116252123 original size:7 final size:7
Alignment explanation
Indices: 116252111--116252136 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
116252101 TAGTCGTTTC
116252111 GTATTTA
1 GTATTTA
116252118 GTATTTA
1 GTATTTA
116252125 GTATTTA
1 GTATTTA
116252132 GTATT
1 GTATT
116252137 ACCTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:116253420 original size:128 final size:128
Alignment explanation
Indices: 116253184--116253554 Score: 631
Period size: 128 Copynumber: 2.9 Consensus size: 128
116253174 GTACAAACTT
*
116253184 TTTTATATAG-TTTCATATAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
1 TTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
*
116253248 TTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTTA-A
65 TTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTA-TTTTATATTTATA
116253312 TTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT
1 TTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC-TTTT
*
116253377 TTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAA-ATTTTTTATTATTTTATATTTATT
65 TTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTATATTTATA
116253440 TTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT
1 TTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT
* * * *
116253505 TAATTTTAATACAATAAATGTTCTTTTACATTAGCCAATAATTTTTATTA
66 TAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTA
116253555 AAATAAATGT
Statistics
Matches: 232, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
127 51 0.22
128 134 0.58
129 47 0.20
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (128 bp):
TTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT
TAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTATATTTATA
Found at i:116256746 original size:125 final size:126
Alignment explanation
Indices: 116256595--116256902 Score: 528
Period size: 125 Copynumber: 2.5 Consensus size: 126
116256585 AGTCTAAGGC
* *
116256595 TTTTTTAGATACTACTATAGCAAAAAAGTATCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
1 TTTTTTAGATACTACTGTAGCAAAAAAGTGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
* *
116256660 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTA-
66 AGTGCATCCTTCTTGAAGCATTTTTGACACCATTTGTTTAGAAACATCTTCTCAAAATTAT
*
116256720 TTTTTTAGATACTACTGTAGCAAAAAAGTGTCCATGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
1 TTTTTTAGATACTACTGTAGCAAAAAAGTGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
116256785 AGTGCATCCTTCTTGAAGCATTTTTGACACCATTTGTTTAGAAACATCTTCTCAAAATTAT
66 AGTGCATCCTTCTTGAAGCATTTTTGACACCATTTGTTTAGAAACATCTTCTCAAAATTAT
* * * *
116256846 TTTTTTAGATACAACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCCGTAATT
1 TTTTTTAGATACTACTGTAGCAAAAAAGTGTCCACGTGGGAGCTTTTTTCCGTAATT
116256903 AATAGTTAAT
Statistics
Matches: 172, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 120 0.70
126 52 0.30
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (126 bp):
TTTTTTAGATACTACTGTAGCAAAAAAGTGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
AGTGCATCCTTCTTGAAGCATTTTTGACACCATTTGTTTAGAAACATCTTCTCAAAATTAT
Found at i:116268510 original size:30 final size:30
Alignment explanation
Indices: 116268476--116268534 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
116268466 CTTAACAAGT
116268476 AAATGCCTCTAAAATAATAAAAAAATTAAA
1 AAATGCCTCTAAAATAATAAAAAAATTAAA
* *
116268506 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAAAAAAATTAA
116268535 CAAGCAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.61, C:0.10, G:0.03, T:0.25
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAAA
Found at i:116270259 original size:16 final size:16
Alignment explanation
Indices: 116270238--116270271 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
116270228 ATATATAGTT
116270238 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
116270254 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
116270270 AA
1 AA
116270272 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:116270541 original size:47 final size:47
Alignment explanation
Indices: 116270434--116270550 Score: 173
Period size: 47 Copynumber: 2.5 Consensus size: 47
116270424 GATATTGTTA
116270434 CTGT-TACCGTTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACT
* *
116270481 CTGTGTGCCGTACTGTTACTGTTTTGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACT
* **
116270528 CTGTGTACTGTACTACTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
116270551 ACTGTTACTG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
47 59 0.94
48 4 0.06
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.43
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACT
Found at i:116270700 original size:19 final size:19
Alignment explanation
Indices: 116270678--116270729 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
116270668 AAAGATCGAC
116270678 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* * * *
116270697 TGTTATTGTAT-ATCTGAT
1 TGTTACTGAATAATTTAAT
*
116270715 TTTTACTGAATAATT
1 TGTTACTGAATAATT
116270730 ATCTGTTACT
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:116270805 original size:18 final size:18
Alignment explanation
Indices: 116270752--116270825 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
116270742 ATAACCGATC
*
116270752 AATTGATTAATACTGAAT
1 AATTGATTATTACTGAAT
* *
116270770 TATTGATTATTATTGAAT
1 AATTGATTATTACTGAAT
* *
116270788 AATTGATTGTTACCGAAT
1 AATTGATTATTACTGAAT
* * *
116270806 AACTGACTATTACTAAAT
1 AATTGATTATTACTGAAT
116270824 AA
1 AA
116270826 ATAATTGTTT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (18 bp):
AATTGATTATTACTGAAT
Done.