Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 252 of 332
Found at i:84012305 original size:29 final size:30
Alignment explanation
Indices: 84012243--84012299 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
84012233 TAAATAAAAA
84012243 AATATAATGATAAATTTTAATATTCATTTAT
1 AATATAATGATAAATTTTAATATT-ATTTAT
84012274 AATATAATGA-AAATTTT-ATATT-TTTA
1 AATATAATGATAAATTTTAATATTATTTA
84012300 ACTAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 4 0.15
29 5 0.19
30 7 0.27
31 10 0.38
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (30 bp):
AATATAATGATAAATTTTAATATTATTTAT
Found at i:84013771 original size:13 final size:13
Alignment explanation
Indices: 84013753--84013777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84013743 AAGAGTTATT
84013753 AATTAAAAATATG
1 AATTAAAAATATG
84013766 AATTAAAAATAT
1 AATTAAAAATAT
84013778 AAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATTAAAAATATG
Found at i:84014808 original size:37 final size:35
Alignment explanation
Indices: 84014752--84014820 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
84014742 AAAGTTTGCG
* *
84014752 CTCTCTTTTACGTTTTATTTGTTTATTGATGTGTT
1 CTCTCTTTTACGTTTTATTTATTGATTGATGTGTT
*
84014787 CTCTCTTTGTACTTTTTTATTTATTGATTGATGT
1 CTCTCTTT-TAC-GTTTTATTTATTGATTGATGT
84014821 TTGTGTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 8 0.28
36 3 0.10
37 18 0.62
ACGTcount: A:0.13, C:0.12, G:0.13, T:0.62
Consensus pattern (35 bp):
CTCTCTTTTACGTTTTATTTATTGATTGATGTGTT
Found at i:84016500 original size:12 final size:12
Alignment explanation
Indices: 84016480--84016512 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
84016470 TGTGTCATCG
84016480 CACACGGCCTAC
1 CACACGGCCTAC
*
84016492 CACATGGCCTAC
1 CACACGGCCTAC
84016504 CACACGGCC
1 CACACGGCC
84016513 GTGTGGCGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:84025432 original size:19 final size:19
Alignment explanation
Indices: 84025396--84025434 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
84025386 CTATTTTAAT
*
84025396 TTTTACTTTATTTTTTTTC
1 TTTTACTTTATTTCTTTTC
84025415 TTTTACTTT-TTCTCTTTTC
1 TTTTACTTTATT-TCTTTTC
84025434 T
1 T
84025435 CCCCAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTACTTTATTTCTTTTC
Found at i:84030074 original size:24 final size:23
Alignment explanation
Indices: 84030038--84030085 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
84030028 ACAAGAATCC
*
84030038 CCCCTTTTATTCTTTTAACTCATT
1 CCCCTTGTATTC-TTTAACTCATT
* *
84030062 CCCCTTGTCTTCTTTAGCTCATT
1 CCCCTTGTATTCTTTAACTCATT
84030085 C
1 C
84030086 TCTGCTTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.12, C:0.33, G:0.04, T:0.50
Consensus pattern (23 bp):
CCCCTTGTATTCTTTAACTCATT
Found at i:84045196 original size:17 final size:16
Alignment explanation
Indices: 84045174--84045206 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
84045164 TCGTATTAAA
84045174 TTTTTAAAAAAAGTTAT
1 TTTTTAAAAAAA-TTAT
84045191 TTTTTAAAAAAATTAT
1 TTTTTAAAAAAATTAT
84045207 AAAAATAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTTTTAAAAAAATTAT
Found at i:84046175 original size:15 final size:15
Alignment explanation
Indices: 84046145--84046173 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
84046135 ACTATTAGTA
84046145 ATTTTTTGAATATTT
1 ATTTTTTGAATATTT
84046160 ATTTTTT-AATATTT
1 ATTTTTTGAATATTT
84046174 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
ATTTTTTGAATATTT
Found at i:84049310 original size:7 final size:7
Alignment explanation
Indices: 84049300--84049391 Score: 89
Period size: 7 Copynumber: 13.3 Consensus size: 7
84049290 AACCCCAAAC
84049300 CCTTGAA
1 CCTTGAA
84049307 CCTTGAA
1 CCTTGAA
*
84049314 -CTTAAA
1 CCTTGAA
*
84049320 CCTTCAA
1 CCTTGAA
84049327 CCTTGAA
1 CCTTGAA
*
84049334 TCCTTAAA
1 -CCTTGAA
* *
84049342 CCCTCAA
1 CCTTGAA
84049349 -CTTGAA
1 CCTTGAA
*
84049355 CCTTGTA
1 CCTTGAA
84049362 CCTTGAA
1 CCTTGAA
*
84049369 CCTTGTA
1 CCTTGAA
84049376 CCTTGAA
1 CCTTGAA
*
84049383 CCTCGAA
1 CCTTGAA
84049390 CC
1 CC
84049392 CAAAATCCAA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
6 9 0.13
7 54 0.78
8 6 0.09
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (7 bp):
CCTTGAA
Found at i:84052876 original size:17 final size:16
Alignment explanation
Indices: 84052856--84052898 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
84052846 GTTTTCTTCC
84052856 TCTTCTTCTTTCCTTTT
1 TCTTCTT-TTTCCTTTT
*
84052873 TCTTTCTTTTTTCTTTT
1 TC-TTCTTTTTCCTTTT
*
84052890 TCTTGTTTT
1 TCTTCTTTT
84052899 CCCCTTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 12 0.52
18 5 0.22
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (16 bp):
TCTTCTTTTTCCTTTT
Found at i:84052877 original size:11 final size:11
Alignment explanation
Indices: 84052847--84052888 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
84052837 TTTCTTTTTG
84052847 TTTTC-TTCCT
1 TTTTCTTTCCT
84052857 CTTCTTCTTTCCT
1 -TT-TTCTTTCCT
*
84052870 TTTTCTTTCTT
1 TTTTCTTTCCT
84052881 TTTTCTTT
1 TTTTCTTT
84052889 TTCTTGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 18 0.64
12 5 0.18
13 5 0.18
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCTTTCCT
Found at i:84055406 original size:24 final size:24
Alignment explanation
Indices: 84055379--84055434 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
84055369 CACCTAGAGA
*
84055379 TAGGGTGATAAGATTTTGCTGGAT
1 TAGGGTGATAAGATTTTGCCGGAT
84055403 TAGGGTGATAAGATTTTGCCGGAT
1 TAGGGTGATAAGATTTTGCCGGAT
84055427 TAGGGTGA
1 TAGGGTGA
84055435 AACCTAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.05, G:0.36, T:0.34
Consensus pattern (24 bp):
TAGGGTGATAAGATTTTGCCGGAT
Found at i:84071355 original size:38 final size:39
Alignment explanation
Indices: 84071313--84071406 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
84071303 CCAACTCCGT
* *
84071313 CCAACCCAACACACCA-TGTGGGGATAAAATCGACCCAC
1 CCAACCCAACACACCAGTATGGGGATAAAATCAACCCAC
* * * *
84071351 CCAACCCTACACACAAAGTATGGGGATAAAATCAACTCAT
1 CCAACCCAACACAC-CAGTATGGGGATAAAATCAACCCAC
84071391 CCAA-CCATACACACCA
1 CCAACCCA-ACACACCA
84071407 AATGGTACTG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
38 13 0.29
39 4 0.09
40 28 0.62
ACGTcount: A:0.40, C:0.35, G:0.12, T:0.13
Consensus pattern (39 bp):
CCAACCCAACACACCAGTATGGGGATAAAATCAACCCAC
Found at i:84077548 original size:124 final size:124
Alignment explanation
Indices: 84077321--84077568 Score: 442
Period size: 124 Copynumber: 2.0 Consensus size: 124
84077311 TACCTCGGCC
* *
84077321 TCTAGTACCCTGTCCATGAGTACCACGTATGCTAATCGTAACTAACGAACTAATCTGTGTTTAGA
1 TCTAGTACCCTGTCCACGAGTACCACGTATGCTAATCGTAACTAACGAACTAATCTGTATTTAGA
* *
84077386 AGTTTTATGCACATTAGTTTACAGTTTCGTTAATTATTAGCAGATATTTTATGCAATTA
66 AGTTTTATGCACATTAGTTTACAGTTTCGATAAGTATTAGCAGATATTTTATGCAATTA
*
84077445 TCTAGTACCCTGTCCACGAGTACCACGTATGCTAATCGTAACTAACGAATTAATCTGTATTTAGA
1 TCTAGTACCCTGTCCACGAGTACCACGTATGCTAATCGTAACTAACGAACTAATCTGTATTTAGA
*
84077510 AGTTTTATGCAGATTAGTTTACAGTTTCGATAAGTATTAGCAGATATTTTATGCAATTA
66 AGTTTTATGCACATTAGTTTACAGTTTCGATAAGTATTAGCAGATATTTTATGCAATTA
84077569 GTAATAGAGT
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 118 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (124 bp):
TCTAGTACCCTGTCCACGAGTACCACGTATGCTAATCGTAACTAACGAACTAATCTGTATTTAGA
AGTTTTATGCACATTAGTTTACAGTTTCGATAAGTATTAGCAGATATTTTATGCAATTA
Found at i:84077832 original size:12 final size:12
Alignment explanation
Indices: 84077815--84077840 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84077805 AAATTATTTC
84077815 AATCATTTTACA
1 AATCATTTTACA
84077827 AATCATTTTACA
1 AATCATTTTACA
84077839 AA
1 AA
84077841 AACCAATTTT
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATCATTTTACA
Found at i:84078615 original size:40 final size:40
Alignment explanation
Indices: 84078542--84078620 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
84078532 CAACACACTA
* *
84078542 TATGGGGATAAAATCAACCCACCCAGACTTACACGCCAAG
1 TATGGGGATAAAATCAACCCACCCAGACCTACACACCAAG
*
84078582 TATGGGGATAAAATCAACCCATCCA-ACCCTACACACCAA
1 TATGGGGATAAAATCAACCCACCCAGA-CCTACACACCAA
84078621 ATGGTACTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.39, C:0.32, G:0.14, T:0.15
Consensus pattern (40 bp):
TATGGGGATAAAATCAACCCACCCAGACCTACACACCAAG
Found at i:84082483 original size:27 final size:28
Alignment explanation
Indices: 84082431--84082483 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
84082421 ATTTTAGAAA
* *
84082431 AAAAAATATTAAATTTTAATAGAAATAT
1 AAAAAATATTAAAATTTAATAAAAATAT
*
84082459 AAAAAAT-TTAAAATTTATTAAAAAT
1 AAAAAATATTAAAATTTAATAAAAAT
84082484 TAGAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (28 bp):
AAAAAATATTAAAATTTAATAAAAATAT
Found at i:84082516 original size:16 final size:16
Alignment explanation
Indices: 84082495--84082525 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84082485 AGAATTTTTT
84082495 ATAAAAATAGTAAAAA
1 ATAAAAATAGTAAAAA
*
84082511 ATAAAAATTGTAAAA
1 ATAAAAATAGTAAAA
84082526 TTTTATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
ATAAAAATAGTAAAAA
Found at i:84084366 original size:40 final size:40
Alignment explanation
Indices: 84084298--84084373 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
84084288 CGATACTTTA
* * *
84084298 TGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCATAAT
1 TGGTGTGTAGGGATGGATGAGTCAATTTTATCCCCATAAT
* *
84084338 TGGTGTGTAGGGATGGGTTAGTCAATTTTATCCCCA
1 TGGTGTGTAGGGATGGATGAGTCAATTTTATCCCCA
84084374 GATGGTGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (40 bp):
TGGTGTGTAGGGATGGATGAGTCAATTTTATCCCCATAAT
Found at i:84089141 original size:19 final size:19
Alignment explanation
Indices: 84089094--84089163 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 19
84089084 AATGTGACAA
84089094 AAAAATTA-T-AAA-TAAT
1 AAAAATTATTAAAATTAAT
* *
84089110 AAAAATCAATAAAATTAAT
1 AAAAATTATTAAAATTAAT
* *
84089129 AAAAATTATTAAACTTTGAT
1 AAAAATTATTAAA-ATTAAT
*
84089149 AAAAA-AATTAAAATT
1 AAAAATTATTAAAATT
84089164 TACTAAAACT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 7 0.16
17 1 0.02
18 5 0.12
19 21 0.49
20 9 0.21
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (19 bp):
AAAAATTATTAAAATTAAT
Found at i:84089554 original size:28 final size:29
Alignment explanation
Indices: 84089507--84089582 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 29
84089497 TTTTATAATC
* *
84089507 TTTTTCTAATTTTTAATAAAAATAAAT-A
1 TTTTTATAATTTTTATTAAAAATAAATAA
* *
84089535 TTTCTTAT-ATTTTTATTAAAATTTAATAA
1 TTT-TTATAATTTTTATTAAAAATAAATAA
84089564 TTTTTATAACTTTTTATTA
1 TTTTTATAA-TTTTTATTA
84089583 TTTTTTTACC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 23 0.57
29 8 0.20
30 9 0.22
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTTTATAATTTTTATTAAAAATAAATAA
Found at i:84091465 original size:33 final size:35
Alignment explanation
Indices: 84091370--84091466 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
84091360 TTAATGTTTT
*
84091370 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
84091405 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
84091438 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
84091467 ATATAACCAT
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:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:84093888 original size:17 final size:17
Alignment explanation
Indices: 84093866--84093903 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
84093856 TCCAATATCG
84093866 TCTCCCACGATTTAATT
1 TCTCCCACGATTTAATT
*
84093883 TCTCCCACGATTTACTT
1 TCTCCCACGATTTAATT
84093900 TCTC
1 TCTC
84093904 TGTTTCTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.34, G:0.05, T:0.42
Consensus pattern (17 bp):
TCTCCCACGATTTAATT
Found at i:84097553 original size:6 final size:6
Alignment explanation
Indices: 84097542--84097581 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
84097532 CTTTTTATAT
* * *
84097542 TTTTAA TTTTAA TTTTAA TTTTGA TTTTAT TTTTTA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
84097582 TATAATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTTAA
Found at i:84097673 original size:14 final size:14
Alignment explanation
Indices: 84097627--84097670 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
84097617 TACTATGTTA
84097627 AATTATATTTTTAT
1 AATTATATTTTTAT
84097641 AATTAT-TTTTTAT
1 AATTATATTTTTAT
* *
84097654 -TTTTTATTTTTAT
1 AATTATATTTTTAT
84097667 AATT
1 AATT
84097671 TTAAATTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 3 0.12
13 14 0.56
14 8 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
AATTATATTTTTAT
Found at i:84098168 original size:40 final size:40
Alignment explanation
Indices: 84098100--84098175 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
84098090 TGGTACACTA
* **
84098100 TGGTGTGTAGGGTTGGATGAGTTGATTTTATCCCCATATT
1 TGGTGTGTAGGGATGGATGAGTCAATTTTATCCCCATATT
* *
84098140 TGGTGTGTAGGGATGGGTGGGTCAATTTTATCCCCA
1 TGGTGTGTAGGGATGGATGAGTCAATTTTATCCCCA
84098176 CATGGTGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.33, T:0.38
Consensus pattern (40 bp):
TGGTGTGTAGGGATGGATGAGTCAATTTTATCCCCATATT
Found at i:84103521 original size:18 final size:18
Alignment explanation
Indices: 84103498--84103535 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
84103488 TAAAATCATA
84103498 TTCTTG-TTTTTCTCCCTT
1 TTCTTGATTTTT-TCCCTT
84103516 TTCTTGAATTTTTTCCCTT
1 TTCTTG-ATTTTTTCCCTT
84103535 T
1 T
84103536 CTCTGCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.05, C:0.24, G:0.05, T:0.66
Consensus pattern (18 bp):
TTCTTGATTTTTTCCCTT
Found at i:84104283 original size:18 final size:18
Alignment explanation
Indices: 84104262--84104299 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
84104252 TGGGCCATAT
84104262 GGATGTGTGGCGCCACAC
1 GGATGTGTGGCGCCACAC
*
84104280 GGATGTGTGGGGCCACAC
1 GGATGTGTGGCGCCACAC
84104298 GG
1 GG
84104300 GCAGGCCACA
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:0.16, C:0.24, G:0.45, T:0.16
Consensus pattern (18 bp):
GGATGTGTGGCGCCACAC
Found at i:84108891 original size:40 final size:41
Alignment explanation
Indices: 84108839--84108925 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
84108829 GAATTAGTGT
* *
84108839 AGGCCTTTGCCCA-CTCAGATACAGAATCAGGTATAAATTA
1 AGGCCTTAGCCCAGCTCAGATACAGAATCAGGAATAAATTA
* * *
84108879 AGGCCTTAGCCCAGCTCAGATATAGAGTCAGGAATATATTA
1 AGGCCTTAGCCCAGCTCAGATACAGAATCAGGAATAAATTA
*
84108920 GGGCCT
1 AGGCCT
84108926 CGGCCTAATC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 12 0.30
41 28 0.70
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (41 bp):
AGGCCTTAGCCCAGCTCAGATACAGAATCAGGAATAAATTA
Found at i:84121243 original size:12 final size:12
Alignment explanation
Indices: 84121226--84121250 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84121216 AGATAATCAC
84121226 TTTAATATTAAA
1 TTTAATATTAAA
84121238 TTTAATATTAAA
1 TTTAATATTAAA
84121250 T
1 T
84121251 CTATTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:84122089 original size:45 final size:45
Alignment explanation
Indices: 84121999--84122090 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
84121989 AAAACTCCTT
* * *
84121999 ATTGTATATACTTTATGAAAGCAATTCATCCAACTGCTTTATCCA
1 ATTGTATACACTTTACGAAAGCAATTCATCCAACTACTTTATCCA
* * *
84122044 ATTGTATACACTTTGCGAAAGCAATTCATCCAACTATTTTGTCCA
1 ATTGTATACACTTTACGAAAGCAATTCATCCAACTACTTTATCCA
84122089 AT
1 AT
84122091 GACCTCGTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (45 bp):
ATTGTATACACTTTACGAAAGCAATTCATCCAACTACTTTATCCA
Found at i:84123240 original size:16 final size:18
Alignment explanation
Indices: 84123221--84123258 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
84123211 TTCTCTTCTT
84123221 TTTTGTT-C-TTCATCTA
1 TTTTGTTACTTTCATCTA
*
84123237 TTTTGTTACTTTCTTCTA
1 TTTTGTTACTTTCATCTA
84123255 TTTT
1 TTTT
84123259 TCAATTTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.11, C:0.16, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTGTTACTTTCATCTA
Found at i:84123254 original size:18 final size:16
Alignment explanation
Indices: 84123214--84123258 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
84123204 TTTTCTTTTC
*
84123214 TCTTCTTTTTTGTTCT
1 TCTTCTATTTTGTTCT
*
84123230 TCATCTATTTTGTTACTT
1 TCTTCTATTTTGTT-C-T
84123248 TCTTCTATTTT
1 TCTTCTATTTT
84123259 TCAATTTGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.50
17 1 0.04
18 11 0.46
ACGTcount: A:0.09, C:0.18, G:0.04, T:0.69
Consensus pattern (16 bp):
TCTTCTATTTTGTTCT
Found at i:84125538 original size:16 final size:16
Alignment explanation
Indices: 84125517--84125551 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
84125507 GGTTCCCTGG
*
84125517 AATGGAATAGGGCTGT
1 AATGGAATAGAGCTGT
84125533 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
84125549 AAT
1 AAT
84125552 CAATAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.31, T:0.26
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:84136167 original size:14 final size:12
Alignment explanation
Indices: 84136134--84136158 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84136124 GATTATTATA
84136134 GATATAAAATTT
1 GATATAAAATTT
84136146 GATATAAAATTT
1 GATATAAAATTT
84136158 G
1 G
84136159 TTGTATAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (12 bp):
GATATAAAATTT
Found at i:84152184 original size:30 final size:30
Alignment explanation
Indices: 84152150--84152209 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
84152140 GAATCTTGAG
* *
84152150 TTAGAGCGTTGAGAGCCTTGCTCTTTTCCA
1 TTAGAGCATTGAGAGCCTCGCTCTTTTCCA
*
84152180 TTAGAGCATTGAGAGCCTCGTTCTTTTCCA
1 TTAGAGCATTGAGAGCCTCGCTCTTTTCCA
84152210 GAATATCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (30 bp):
TTAGAGCATTGAGAGCCTCGCTCTTTTCCA
Found at i:84157615 original size:18 final size:18
Alignment explanation
Indices: 84157594--84157628 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84157584 CTAAAATTTT
84157594 ATAAAAATTAAAAAATAA
1 ATAAAAATTAAAAAATAA
* *
84157612 ATAAATATTATAAAATA
1 ATAAAAATTAAAAAATA
84157629 TTCTAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAAAATTAAAAAATAA
Found at i:84157624 original size:27 final size:28
Alignment explanation
Indices: 84157587--84157668 Score: 105
Period size: 27 Copynumber: 2.9 Consensus size: 28
84157577 AATTTTTCTA
*
84157587 AAATTTTATAAAA-ATTAAAAAATAAAT
1 AAATATTATAAAATATTAAAAAATAAAT
*
84157614 AAATATTATAAAATATTCTAAATATATAAAT
1 AAATATTATAAAATA-T-TAAA-AAATAAAT
84157645 AAA-ATTATAAAATATTAAAAAATA
1 AAATATTATAAAATATTAAAAAATA
84157669 TTACTAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
27 16 0.33
28 5 0.10
29 2 0.04
30 15 0.31
31 10 0.21
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (28 bp):
AAATATTATAAAATATTAAAAAATAAAT
Found at i:84157629 original size:10 final size:10
Alignment explanation
Indices: 84157585--84157671 Score: 67
Period size: 10 Copynumber: 9.0 Consensus size: 10
84157575 AAAATTTTTC
*
84157585 TAAAATTTTA
1 TAAAATATTA
84157595 TAAAA-ATTA
1 TAAAATATTA
* *
84157604 AAAAATA-AA
1 TAAAATATTA
84157613 T-AAATATTA
1 TAAAATATTA
*
84157622 TAAAATATTC
1 TAAAATATTA
84157632 T-AAATA-TA
1 TAAAATATTA
*
84157640 TAAATAAAATTA
1 T-AA-AATATTA
84157652 TAAAATATTA
1 TAAAATATTA
*
84157662 AAAAATATTA
1 TAAAATATTA
84157672 CTAATTTATC
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
8 7 0.12
9 15 0.25
10 30 0.50
11 5 0.08
12 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAAATATTA
Found at i:84164726 original size:26 final size:26
Alignment explanation
Indices: 84164690--84164742 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
84164680 ATGATGAATC
84164690 TAAATAATAAAGGAATATTGACATTT
1 TAAATAATAAAGGAATATTGACATTT
84164716 TAAATAATAAAGGAATATTGACATTT
1 TAAATAATAAAGGAATATTGACATTT
84164742 T
1 T
84164743 CTCTATGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (26 bp):
TAAATAATAAAGGAATATTGACATTT
Found at i:84175613 original size:28 final size:28
Alignment explanation
Indices: 84175556--84175624 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
84175546 TATATAGTTT
**
84175556 GCACACTTAGTGCTCAATATTTAAACTC
1 GCACACTTAGTGCTCAATATCCAAACTC
* *
84175584 GCACACTTAGTGCTCAATGA-CCACATTC
1 GCACACTTAGTGCTCAAT-ATCCAAACTC
84175612 GCACACTTAGTGC
1 GCACACTTAGTGC
84175625 AAGATTCACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
GCACACTTAGTGCTCAATATCCAAACTC
Found at i:84176508 original size:10 final size:10
Alignment explanation
Indices: 84176492--84176542 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
84176482 TATCAAATAT
84176492 AATATATTAA
1 AATATATTAA
*
84176502 CATATATTAA
1 AATATATTAA
*
84176512 AATATATTAT
1 AATATATTAA
*
84176522 AATGTCA-TAA
1 AATAT-ATTAA
*
84176532 AATATAATAA
1 AATATATTAA
84176542 A
1 A
84176543 CAATTCAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 1 0.03
10 31 0.94
11 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (10 bp):
AATATATTAA
Found at i:84182202 original size:20 final size:20
Alignment explanation
Indices: 84182173--84182217 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
84182163 AGCACATGTA
*
84182173 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAGAACTT
* *
84182193 TTCATCAAATTTTATAACTT
1 TTCATAAAATTTTAGAACTT
84182213 TTCAT
1 TTCAT
84182218 TTTAGTCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTAGAACTT
Found at i:84187983 original size:69 final size:67
Alignment explanation
Indices: 84187870--84188000 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 67
84187860 CAGAAATAAT
* * *
84187870 ATATTAAATTTAATTTAATTTTAGCTTAATAGTATTTTATTAATTTAATATTAAAGTGATTATCT
1 ATATTAAATTTAATCTAATTTTAGCTTAATAATATTATATTAATTTAATATTAAAGTGATTATCT
84187935 TA
66 TA
* * *
84187937 ATATTAAATTTAATCTCATATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGATTA
1 ATATTAAATTTAATCTAAT-TTTAGCTTAAT-AATATTATATTAATTTAATATTAAAGTGATTA
84188001 AGTTTAACCA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 17 0.30
68 9 0.16
69 30 0.54
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.50
Consensus pattern (67 bp):
ATATTAAATTTAATCTAATTTTAGCTTAATAATATTATATTAATTTAATATTAAAGTGATTATCT
TA
Found at i:84189156 original size:43 final size:43
Alignment explanation
Indices: 84189091--84189176 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
84189081 ACTCACCTCC
*
84189091 CTTTAATGGGACCCTACCTGGTGCACAGTTCGCATTCACTTCT
1 CTTTAATGGGACCCTACCTGGTGCACAATTCGCATTCACTTCT
*
84189134 CTTTAATGGGACCCTACTTGGTGCACAATTCGCATTCACTTCT
1 CTTTAATGGGACCCTACCTGGTGCACAATTCGCATTCACTTCT
84189177 TCAGTTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (43 bp):
CTTTAATGGGACCCTACCTGGTGCACAATTCGCATTCACTTCT
Found at i:84193953 original size:37 final size:36
Alignment explanation
Indices: 84193890--84193965 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
84193880 TATCCAGAAA
84193890 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATTTTAATAGTTTAATATT-AATTTAATAT
* *
84193926 TAATATTTTTCTTAATAGTATT-TTATTAATTTAATAT
1 TAATATTATT-TTAATAGT-TTAATATTAATTTAATAT
84193963 TAA
1 TAA
84193966 AGTGACTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 17 0.49
37 16 0.46
38 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (36 bp):
TAATATTATTTTAATAGTTTAATATTAATTTAATAT
Found at i:84210115 original size:18 final size:18
Alignment explanation
Indices: 84210092--84210127 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
84210082 TTGTTTAACT
84210092 CAATTCTAATTTTGTTAA
1 CAATTCTAATTTTGTTAA
84210110 CAATTCTAATTTTGTTAA
1 CAATTCTAATTTTGTTAA
84210128 AGTCATGACA
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:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (18 bp):
CAATTCTAATTTTGTTAA
Found at i:84212492 original size:29 final size:30
Alignment explanation
Indices: 84212442--84212544 Score: 113
Period size: 29 Copynumber: 3.5 Consensus size: 30
84212432 ATCATCGACG
* ** *
84212442 AATGAAAAGGGATAGTTTCGACTATCGAAT
1 AATGAAAAGGGATGGTGACGACCATCGAAT
*
84212472 ACT-AAAAGGGATGGTGACGACCATC-AAT
1 AATGAAAAGGGATGGTGACGACCATCGAAT
*
84212500 AATGAAAAGGGATGGTGACAACCATCGAACT
1 AATGAAAAGGGATGGTGACGACCATCGAA-T
*
84212531 -GTGAAAAGGGATGG
1 AATGAAAAGGGATGG
84212545 CTTCGGCTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
28 5 0.08
29 39 0.63
30 17 0.27
31 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (30 bp):
AATGAAAAGGGATGGTGACGACCATCGAAT
Found at i:84212557 original size:30 final size:30
Alignment explanation
Indices: 84212443--84212597 Score: 106
Period size: 30 Copynumber: 5.2 Consensus size: 30
84212433 TCATCGACGA
*
84212443 ATGAAAAGGGATAGTTTCGACTATCGAA-T
1 ATGAAAAGGGATAGCTTCGACTATCGAACT
* * *
84212472 ACT-AAAAGGGAT-GGTGACGACCATC-AA-T
1 A-TGAAAAGGGATAGCT-TCGACTATCGAACT
* * * *
84212500 AATGAAAAGGGAT-GGTGACAACCATCGAACT
1 -ATGAAAAGGGATAGCT-TCGACTATCGAACT
* * * *
84212531 GTGAAAAGGGATGGCTTCGGCTATCGATCT
1 ATGAAAAGGGATAGCTTCGACTATCGAACT
* *
84212561 ATGAAAAGGGATAGCTTCGACTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAACT
84212591 ATGAAAA
1 ATGAAAA
84212598 AGAATGGTGA
Statistics
Matches: 102, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
28 6 0.06
29 39 0.38
30 54 0.53
31 3 0.03
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCGAACT
Found at i:84212655 original size:90 final size:90
Alignment explanation
Indices: 84212501--84212687 Score: 214
Period size: 90 Copynumber: 2.1 Consensus size: 90
84212491 ACCATCAATA
* * * * * * *
84212501 ATGAAAAGGGATGGTGACAACCATCGAACTGTGAAAAGGGATGGCTTCGGCTATCGATCTATGAA
1 ATGAAAAAGAATGGTGACAACCATCAAACTATGAAAAAGGATAGCTTCGGCTATCGATCAATGAA
* *
84212566 AAGGGATAGCTTCGACTATCAAATT
66 AAGAGATAGATTCGACTATCAAATT
* * *
84212591 ATGAAAAAGAATGGTGACAACCATCAAATTATGAAAAAGGATAGCTTCGGTTGTCGAAT-AATGA
1 ATGAAAAAGAATGGTGACAACCATCAAACTATGAAAAAGGATAGCTTCGGCTATCG-ATCAATGA
* * *
84212655 AAAGAGATATATTTGATTATCAAATT
65 AAAGAGATAGATTCGACTATCAAATT
*
84212681 ACGAAAA
1 ATGAAAA
84212688 GGGATATGTC
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
90 78 0.98
91 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (90 bp):
ATGAAAAAGAATGGTGACAACCATCAAACTATGAAAAAGGATAGCTTCGGCTATCGATCAATGAA
AAGAGATAGATTCGACTATCAAATT
Found at i:84215106 original size:12 final size:12
Alignment explanation
Indices: 84215089--84215114 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84215079 AAAAATAGTT
84215089 TTTGTAAAATGA
1 TTTGTAAAATGA
84215101 TTTGTAAAATGA
1 TTTGTAAAATGA
84215113 TT
1 TT
84215115 GAAATAATTT
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:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTGTAAAATGA
Found at i:84222060 original size:34 final size:34
Alignment explanation
Indices: 84222021--84222088 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
84222011 TCTCAACCCG
84222021 AGGGTTTAAGCACATACCTGTCAAATTTTCTCAT
1 AGGGTTTAAGCACATACCTGTCAAATTTTCTCAT
*
84222055 AGGGTTTAAGCACATACCTGTCGAATTTTCTCAT
1 AGGGTTTAAGCACATACCTGTCAAATTTTCTCAT
84222089 TCACCACACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (34 bp):
AGGGTTTAAGCACATACCTGTCAAATTTTCTCAT
Found at i:84228164 original size:14 final size:14
Alignment explanation
Indices: 84228147--84228178 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
84228137 AAATATAAAC
84228147 TAAAAATTAAAATT
1 TAAAAATTAAAATT
84228161 TAAAAATTAAAATT
1 TAAAAATTAAAATT
84228175 TAAA
1 TAAA
84228179 CTAAAGATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAAATTAAAATT
Found at i:84228436 original size:33 final size:33
Alignment explanation
Indices: 84228393--84228457 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
84228383 TATTCAAAAA
84228393 TTAGTCAAAAATAAATACATTAAAAGCACCAAT
1 TTAGTCAAAAATAAATACATTAAAAGCACCAAT
* *
84228426 TTAGTTAAAAATAAATACATTAAAGGCACCAA
1 TTAGTCAAAAATAAATACATTAAAAGCACCAA
84228458 CTTAACTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.25
Consensus pattern (33 bp):
TTAGTCAAAAATAAATACATTAAAAGCACCAAT
Found at i:84233091 original size:53 final size:53
Alignment explanation
Indices: 84233027--84233133 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
84233017 CTTTCCTTTT
* * * * *
84233027 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTA
1 TAAACTCACCATTGACATGCCTTGACATGGTCTTACATGGGATCATTGCCTTA
* * *
84233080 TAAACTCACCATTGACATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTA
1 TAAACTCACCATTGACATGCCTTGACATGGTCTTACATGGGATCATTGCCTTA
84233133 T
1 T
84233134 CGTAGTTATC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (53 bp):
TAAACTCACCATTGACATGCCTTGACATGGTCTTACATGGGATCATTGCCTTA
Found at i:84238492 original size:17 final size:18
Alignment explanation
Indices: 84238470--84238503 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84238460 TTTGGGTCGA
*
84238470 GTGGG-CCACACGGGCAT
1 GTGGGCCCACACAGGCAT
84238487 GTGGGCCCACACAGGCA
1 GTGGGCCCACACAGGCA
84238504 GATCACATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.32, G:0.38, T:0.09
Consensus pattern (18 bp):
GTGGGCCCACACAGGCAT
Found at i:84239039 original size:34 final size:34
Alignment explanation
Indices: 84238987--84239054 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
84238977 GCATTTTTGA
* *
84238987 CACTATACTGAGATGGGC-TAAGGCCCAA-ACTGT
1 CACTATACTGAAAAGGGCTTAA-GCCCAAGACTGT
84239020 CACTGATACTGAAAAGGGCTTAAGCCCAAGACTGT
1 CACT-ATACTGAAAAGGGCTTAAGCCCAAGACTGT
84239055 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 4 0.13
34 18 0.60
35 8 0.27
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21
Consensus pattern (34 bp):
CACTATACTGAAAAGGGCTTAAGCCCAAGACTGT
Found at i:84240938 original size:47 final size:47
Alignment explanation
Indices: 84240831--84241021 Score: 195
Period size: 47 Copynumber: 3.9 Consensus size: 47
84240821 AATGTGATTT
* * *
84240831 CCGTATAAGACCATAGCTGGGCTATGGCTTCAGAGAAATGTGATATGTGCTT
1 CCGTATAAGACCATAGCTGGGATATGGCATC-G-G---TGTGATATGTGCTA
* *
84240883 CCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTA
1 CCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTA
* ** *
84240930 CTGTATAAGACCATAGCTGGGATATGGCATCAATGTGATATGTGAT-
1 CCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTA
* * * *
84240976 CCGTGTAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 CCGTATAAGACCATAGCTGGGATATGGCATCGG--TGTGATATGTG
84241022 ACTATGTGCA
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 26 0.22
47 53 0.45
48 11 0.09
50 1 0.01
51 1 0.01
52 27 0.23
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (47 bp):
CCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGCTA
Found at i:84241054 original size:95 final size:94
Alignment explanation
Indices: 84240867--84241040 Score: 226
Period size: 93 Copynumber: 1.8 Consensus size: 94
84240857 GCTTCAGAGA
* *
84240867 AATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACT
1 AATGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGGTGTGATATGTGCTACT
*
84240932 GTATAAGACCATAGCTGGGATATGGCATC
66 GTACAAGACCATAGCTGGGATATGGCATC
* * * * *
84240961 AATGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTGACT
1 AATGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGG--TGTGATATGTG-CT
*
84241025 A-TGTGCAAGACCATAG
63 ACTGTACAAGACCATAG
84241041 TTTTACTATG
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
93 28 0.41
94 13 0.19
95 24 0.35
96 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (94 bp):
AATGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGGTGTGATATGTGCTACT
GTACAAGACCATAGCTGGGATATGGCATC
Found at i:84248943 original size:40 final size:39
Alignment explanation
Indices: 84248887--84249009 Score: 174
Period size: 40 Copynumber: 3.1 Consensus size: 39
84248877 TTCGGCAATC
84248887 CAACTAACCAAGGATGTTTATTGTGGGAAGAAGATTAATT
1 CAACTAACCAAGGATGTTTATT-TGGGAAGAAGATTAATT
*
84248927 CAACTAACCAAAGATGTTTATTCTGGGAAGAAGATTAATT
1 CAACTAACCAAGGATGTTTATT-TGGGAAGAAGATTAATT
* * * *
84248967 AAAATAACCAAGGATATTTATTTCGGGAAGAAGATTAACT
1 CAACTAACCAAGGATGTTTATTT-GGGAAGAAGATTAATT
84249007 CAA
1 CAA
84249010 AAAATAGGAG
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.28
Consensus pattern (39 bp):
CAACTAACCAAGGATGTTTATTTGGGAAGAAGATTAATT
Found at i:84250857 original size:43 final size:43
Alignment explanation
Indices: 84250775--84250916 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
84250765 TGAGACATCG
* * *
84250775 TGTAAGACCGTGTCTGGGACACAGGCCTC-A-ATTGAGATTTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATT--GATTTACA
* **
84250818 AGTAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-CA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGATTTACA
* * *
84250860 TGTAAGACCCTGTCTGTGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGATTTACA
84250903 TGTAAGACCATGTC
1 TGTAAGACCATGTC
84250917 CAGGACGTCG
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
42 32 0.39
43 47 0.57
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGATTTACA
Found at i:84256674 original size:9 final size:9
Alignment explanation
Indices: 84256642--84256719 Score: 61
Period size: 9 Copynumber: 8.2 Consensus size: 9
84256632 ATTAAAACAC
84256642 AATAGTAA-
1 AATAGTAAT
*
84256650 AATAGTAAC
1 AATAGTAAT
*
84256659 AACAGTAAT
1 AATAGTAAT
84256668 AATAGTAAT
1 AATAGTAAT
*
84256677 AATAATAATT
1 AATAGTAA-T
84256687 AATAAGTTAAGTT
1 AAT-AG-TAA--T
84256700 AATTAGTAAT
1 AA-TAGTAAT
84256710 AA-AGTAAT
1 AATAGTAAT
84256718 AA
1 AA
84256720 ACGAATAAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
8 16 0.27
9 22 0.37
10 7 0.12
11 1 0.02
12 6 0.10
13 6 0.10
14 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (9 bp):
AATAGTAAT
Found at i:84256957 original size:3 final size:3
Alignment explanation
Indices: 84256778--84256937 Score: 82
Period size: 3 Copynumber: 52.7 Consensus size: 3
84256768 TTAATTAGTT
* * *
84256778 TAA TAA TAA TAA TAA TAA TAA TAA TGAA GACA -AA -AA TAT TAA GTTA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TA-A TAA TAA TAA TAA -TAA
* * * * *
84256824 CAA TAA TAA -AA TAA TAA TAG TGA TAA TAA TAG T-A TAT TAGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * *
84256868 CAA TAA TAA -AA TAA TAA GTAA TGA TAA TAGA GT-A TAAA TAA TAG TTA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA-A -TAA T-AA TAA TAA TAA
84256915 TGAA -AA TAA TAA TAA TAA TAA TA
1 T-AA TAA TAA TAA TAA TAA TAA TA
84256938 GTGACGATAG
Statistics
Matches: 119, Mismatches: 23, Indels: 30
0.69 0.13 0.17
Matches are distributed among these distances:
2 11 0.09
3 93 0.78
4 14 0.12
5 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:84258655 original size:28 final size:28
Alignment explanation
Indices: 84258614--84258691 Score: 138
Period size: 28 Copynumber: 2.8 Consensus size: 28
84258604 TTGCTATCCA
84258614 CTGCGTCTTGTTGCTTCGATCCACTCCG
1 CTGCGTCTTGTTGCTTCGATCCACTCCG
*
84258642 TTGCGTCTTGTTGCTTCGATCCACTCCG
1 CTGCGTCTTGTTGCTTCGATCCACTCCG
*
84258670 CTGCGTCTTGTTGCTTCAATCC
1 CTGCGTCTTGTTGCTTCGATCC
84258692 GCTTCACTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.08, C:0.33, G:0.21, T:0.38
Consensus pattern (28 bp):
CTGCGTCTTGTTGCTTCGATCCACTCCG
Found at i:84258916 original size:44 final size:43
Alignment explanation
Indices: 84258832--84258932 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 43
84258822 GCTCCACTAT
* *
84258832 AACTTCAGGGAGATAGGACTTTAACTTCAATCTACTCCGCTGC
1 AACTTCAGGGAGATAAGACTTTAACTTCAATCTACTCCGCTGA
* *** *
84258875 AACTTCAGGGAGATAAGATTTGTAACTTTGGTTTACTCCGCTGA
1 AACTTCAGGGAGATAAGACTT-TAACTTCAATCTACTCCGCTGA
* *
84258919 AACTTTACGGAGAT
1 AACTTCAGGGAGAT
84258933 CTGCTGTGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
43 19 0.40
44 29 0.60
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (43 bp):
AACTTCAGGGAGATAAGACTTTAACTTCAATCTACTCCGCTGA
Found at i:84259058 original size:44 final size:44
Alignment explanation
Indices: 84258994--84259372 Score: 155
Period size: 44 Copynumber: 8.7 Consensus size: 44
84258984 AATTCCCAGC
* * *
84258994 CTGTTACCCTACTGCATAAGGGTTTAAGGTCCATCACCTTCGAT
1 CTGTTACCCTACTGCTTAAGGGTTTAAGGTCCGTCAACTTCGAT
* * * * * *
84259038 CTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAAGGGTTTAAGGTCCGTCAACTTCGA-T
* * * * * **
84259081 CTATTACCCTACTACTTAGGGGTTTAAGGCCCTTCGCCTTCGAT
1 CTGTTACCCTACTGCTTAAGGGTTTAAGGTCCGTCAACTTCGAT
* * * * * * * *
84259125 CTGTTTCCCCATTGCTTAGGGGGTTTTAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTA-AGGG-TTTAAGGTCCGTCAACTTCGA-T
* * * * *
84259170 CTGTTACCCTACTGTTTAGGGGTTTAAGGCCCTTCATCTTCGAT
1 CTGTTACCCTACTGCTTAAGGGTTTAAGGTCCGTCAACTTCGAT
* * *** * * * * * *
84259214 TTGCT-CCACTACTGCTT-AGGGAGACAAGATCTGTAAATTTAG-C
1 CTGTTACC-CTACTGCTTAAGGG-TTTAAGGTCCGTCAACTTCGAT
* * * *
84259257 CTGTTACCCTAATGCTTAAGGGTTTAAGGCCCATCACCTTCGAT
1 CTGTTACCCTACTGCTTAAGGGTTTAAGGTCCGTCAACTTCGAT
* * ** * * * *
84259301 CTGTTTCCCTACTGTTTAAGGCATTAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAAGGGTTTAAGGTCCGTCAACTTCGA-T
*
84259344 CTGTTACCCTACTGCTTAGGGGTTTAAGG
1 CTGTTACCCTACTGCTTAAGGGTTTAAGG
84259373 CCTGTGGATT
Statistics
Matches: 226, Mismatches: 95, Indels: 29
0.65 0.27 0.08
Matches are distributed among these distances:
42 2 0.01
43 89 0.39
44 104 0.46
45 23 0.10
46 8 0.04
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAAGGGTTTAAGGTCCGTCAACTTCGAT
Found at i:84259141 original size:87 final size:87
Alignment explanation
Indices: 84258990--84259374 Score: 513
Period size: 87 Copynumber: 4.4 Consensus size: 87
84258980 TTGTAATTCC
* * *
84258990 CAGCCTGTTACCCTACTGCATAAGGGTTTAAGGTCCATCACCTTCGATCTGTTTCCCTACTGCTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT
84259055 AAGGGGTTAAGATCTGTAAATT
66 AAGGGGTTAAGATCTGTAAATT
* * * * * *
84259077 CAGCCTATTACCCTACTACTTAGGGGTTTAAGGCCCTTCGCCTTCGATCTGTTTCCCCATTGCTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT
*
84259142 AGGGGGTTTTAAGATCTGTAAATT
66 AAGGGG--TTAAGATCTGTAAATT
* * * * *
84259166 CAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCTTCATCTTCGATTTG-CTCCACTACTGCT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCC-CTACTGCT
**
84259230 T-AGGGAGACAAGATCTGTAAATT
65 TAAGGG-GTTAAGATCTGTAAATT
* * * *
84259253 TAGCCTGTTACCCTAATGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGTTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT
**
84259318 AAGGCATTAAGATCTGTAAATT
66 AAGGGGTTAAGATCTGTAAATT
84259340 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
84259375 TGTGGATTTA
Statistics
Matches: 254, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
87 173 0.68
88 12 0.05
89 69 0.27
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (87 bp):
CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT
AAGGGGTTAAGATCTGTAAATT
Found at i:84259284 original size:176 final size:174
Alignment explanation
Indices: 84258990--84259374 Score: 513
Period size: 176 Copynumber: 2.2 Consensus size: 174
84258980 TTGTAATTCC
* * * *
84258990 CAGCCTGTTACCCTACTGCATAAGGGTTTAAGGTCCATCACCTTCGATCTGTTTCCCTACTGCTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTCTCCCTACTGCTT
** * * * *
84259055 AAGGGGTTAAGATCTGTAAATTCAGCCTATTACCCTACTACTTAGGGGTTTAAGGCCCTTCGCCT
66 AAGGGGACAAGATCTGTAAATTCAGCCTATTACCCTAATACTTAAGGGTTTAAGGCCCATCACCT
* * **
84259120 TCGATCTGTTTCCCCATTGCTTAGGGGGTTTTAAGATCTGTAAATT
131 TCGATCTGTTTCCCCACTGCTTA--AGGCATTAAGATCTGTAAATT
* * * *
84259166 CAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCTTCATCTTCGATTTG-CTCCACTACTGCT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTCTCC-CTACTGCT
* * *
84259230 T-AGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTAATGCTTAAGGGTTTAAGGCCCATCAC
65 TAAGGG-GACAAGATCTGTAAATTCAGCCTATTACCCTAATACTTAAGGGTTTAAGGCCCATCAC
* *
84259294 CTTCGATCTGTTTCCCTACTGTTTAAGGCATTAAGATCTGTAAATT
129 CTTCGATCTGTTTCCCCACTGCTTAAGGCATTAAGATCTGTAAATT
84259340 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
84259375 TGTGGATTTA
Statistics
Matches: 183, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
174 52 0.28
175 7 0.04
176 124 0.68
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (174 bp):
CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTCTCCCTACTGCTT
AAGGGGACAAGATCTGTAAATTCAGCCTATTACCCTAATACTTAAGGGTTTAAGGCCCATCACCT
TCGATCTGTTTCCCCACTGCTTAAGGCATTAAGATCTGTAAATT
Found at i:84267390 original size:9 final size:9
Alignment explanation
Indices: 84267372--84267421 Score: 93
Period size: 9 Copynumber: 5.7 Consensus size: 9
84267362 TGCAATGCTG
84267372 ATGC-ATGA
1 ATGCAATGA
84267380 ATGCAATGA
1 ATGCAATGA
84267389 ATGCAATGA
1 ATGCAATGA
84267398 ATGCAATGA
1 ATGCAATGA
84267407 ATGCAATGA
1 ATGCAATGA
84267416 ATGCAA
1 ATGCAA
84267422 AAAAACGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
8 4 0.10
9 37 0.90
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:84271683 original size:23 final size:23
Alignment explanation
Indices: 84271657--84271727 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
84271647 ATAGTGATAT
*
84271657 TAAAAAAATAATAGCTATAAAAA
1 TAAAAAAATAATAGCAATAAAAA
* * * *
84271680 TAAAAAAATAATAACCATGACAA
1 TAAAAAAATAATAGCAATAAAAA
* *
84271703 T-AAAGAATAATAGCAATAATAA
1 TAAAAAAATAATAGCAATAAAAA
84271725 TAA
1 TAA
84271728 TAATGAAAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 17 0.45
23 21 0.55
ACGTcount: A:0.66, C:0.07, G:0.06, T:0.21
Consensus pattern (23 bp):
TAAAAAAATAATAGCAATAAAAA
Found at i:84271996 original size:26 final size:26
Alignment explanation
Indices: 84271951--84272001 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
84271941 AAGTTACAAT
*
84271951 AGTAAAATAATAAGTAATGATAATAG
1 AGTAAAATAATAAGTAATGAAAATAG
*
84271977 AGTATAAATAAT-AGTTATGAAAATA
1 AGTA-AAATAATAAGTAATGAAAATA
84272002 ATAACAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (26 bp):
AGTAAAATAATAAGTAATGAAAATAG
Found at i:84272064 original size:3 final size:3
Alignment explanation
Indices: 84271901--84272044 Score: 91
Period size: 3 Copynumber: 46.7 Consensus size: 3
84271891 TTAATTAGTT
* * *
84271901 TAA TAA TAA TAA TAA TAA TAA TAA TGAA GACA -AA -AA TAT TAA GTTA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TA-A TAA TAA TAA TAA -TAA
* * * * *
84271947 CAA TAG TAA -AA TAA TAA GTAA TGA TAA TAGA GT-A TAAA TAA TAG TTA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA-A -TAA T-AA TAA TAA TAA
*
84271994 TGAA -AA TAA TAA CAA GTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 T-AA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
84272040 TAA TA
1 TAA TA
84272045 GTGACGATAG
Statistics
Matches: 111, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
2 8 0.07
3 88 0.79
4 14 0.13
5 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:84272201 original size:24 final size:24
Alignment explanation
Indices: 84272174--84272225 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
84272164 GATATATGTT
84272174 AATACAACAATAATAATAT-GTAAA
1 AATACAA-AATAATAATATGGTAAA
**
84272198 AATAGGAAATAATAATATGGTAAA
1 AATACAAAATAATAATATGGTAAA
84272222 AATA
1 AATA
84272226 TTAATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.62, C:0.04, G:0.10, T:0.25
Consensus pattern (24 bp):
AATACAAAATAATAATATGGTAAA
Found at i:84272875 original size:28 final size:29
Alignment explanation
Indices: 84272825--84272880 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
84272815 GTTTTTTTTT
*
84272825 AAAAAAAATTTCATTCTTCCTCCATTTTAA
1 AAAAAAAACTTCA-TCTTCCTCCATTTTAA
* *
84272855 AAAAAAAACTTCA-CTTTCTCCTTTTT
1 AAAAAAAACTTCATCTTCCTCCATTTT
84272881 TTTCTCCGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
30 12 0.52
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAAAAAACTTCATCTTCCTCCATTTTAA
Found at i:84278386 original size:14 final size:14
Alignment explanation
Indices: 84278367--84278394 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
84278357 CAACAAATTC
84278367 TTGAGTTGAAGATG
1 TTGAGTTGAAGATG
84278381 TTGAGTTGAAGATG
1 TTGAGTTGAAGATG
84278395 AAAGTAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (14 bp):
TTGAGTTGAAGATG
Found at i:84279565 original size:21 final size:21
Alignment explanation
Indices: 84279535--84279579 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
84279525 AGAATATGAT
*
84279535 AAAAATAATAATACTCCTATC
1 AAAAAAAATAATACTCCTATC
84279556 AAAAAAAATAATACTCCTATC
1 AAAAAAAATAATACTCCTATC
84279577 AAA
1 AAA
84279580 TTTAACATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAAAATAATACTCCTATC
Found at i:84279884 original size:17 final size:17
Alignment explanation
Indices: 84279853--84279911 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
84279843 ATTATTTCTT
* *
84279853 ATTTATGTATATTTTAA
1 ATTTATGAATTTTTTAA
*
84279870 ATTTATTAATTTTTTAAAA
1 ATTTATGAATTTTTT--AA
*
84279889 TATTTATGAATTTTTTAG
1 -ATTTATGAATTTTTTAA
84279907 ATTTA
1 ATTTA
84279912 AGATCAAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 17 0.50
18 1 0.03
19 2 0.06
20 14 0.41
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTTATGAATTTTTTAA
Found at i:84282836 original size:32 final size:32
Alignment explanation
Indices: 84282800--84282906 Score: 92
Period size: 32 Copynumber: 3.4 Consensus size: 32
84282790 GGTATATAAA
*
84282800 AAATTAAATTA-ATATATTATTTATATATCATT
1 AAATTAAATTATATA-AATATTTATATATCATT
* *
84282832 AAATTAAATTATTTAAATATTTATGTATCATT
1 AAATTAAATTATATAAATATTTATATATCATT
* ** * * *
84282864 ATATGGAATTATTTAAATA-TAATTTATCATT
1 AAATTAAATTATATAAATATTTATATATCATT
* *
84282895 ATATCAAATTAT
1 AAATTAAATTAT
84282907 TTATATTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
31 20 0.31
32 42 0.66
33 2 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (32 bp):
AAATTAAATTATATAAATATTTATATATCATT
Found at i:84282895 original size:31 final size:32
Alignment explanation
Indices: 84282825--84282909 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 32
84282815 ATTATTTATA
* * *
84282825 TATCATTAAATTAAATTATTTAAATATTTATG
1 TATCATTATATCAAATTATTTAAATATTAATG
** *
84282857 TATCATTATATGGAATTATTTAAATA-TAATT
1 TATCATTATATCAAATTATTTAAATATTAATG
84282888 TATCATTATATCAAATTATTTA
1 TATCATTATATCAAATTATTTA
84282910 TATTTTATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 23 0.50
32 23 0.50
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (32 bp):
TATCATTATATCAAATTATTTAAATATTAATG
Found at i:84282928 original size:32 final size:30
Alignment explanation
Indices: 84282819--84282930 Score: 98
Period size: 32 Copynumber: 3.6 Consensus size: 30
84282809 TAATATATTA
* * *
84282819 TTTATATATCATTAAATTAAATTATTTAAAT
1 TTTATTTATCATTATATCAAATTATTT-AAT
* **
84282850 ATTTATGTATCATTATATGGAATTATTTAAAT
1 -TTTATTTATCATTATATCAAATTATTT-AAT
* *
84282882 ATAATTTATCATTATATCAAATTATTTATAT
1 TTTATTTATCATTATATCAAATTATTTA-AT
*
84282913 TTTATTTTATTATTATAT
1 TTTA-TTTATCATTATAT
84282931 TTAATTTTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
30 1 0.02
31 26 0.39
32 39 0.59
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (30 bp):
TTTATTTATCATTATATCAAATTATTTAAT
Found at i:84282930 original size:18 final size:18
Alignment explanation
Indices: 84282902--84282953 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
84282892 ATTATATCAA
84282902 ATTATTTATATTTTATTTT
1 ATTA-TTATATTTTATTTT
*
84282921 ATTATTATATTTAATTTT
1 ATTATTATATTTTATTTT
* **
84282939 TTTAAAATATTTTAT
1 ATTATTATATTTTAT
84282954 ATATCATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTATTATATTTTATTTT
Found at i:84283496 original size:21 final size:21
Alignment explanation
Indices: 84283436--84283496 Score: 52
Period size: 23 Copynumber: 2.7 Consensus size: 21
84283426 TAATACATCA
*
84283436 AAAATATTAAAAACATTAAAAT
1 AAAATTTTAAAAA-ATTAAAAT
*
84283458 AAATATTTTCCAACAAATTGAAAAT
1 AAA-ATTTT--AAAAAATT-AAAAT
84283483 -AAATTTTAAAAAAT
1 AAAATTTTAAAAAAT
84283497 ATGTATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.19
22 3 0.09
23 9 0.28
24 5 0.16
25 9 0.28
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTTTAAAAAATTAAAAT
Found at i:84284457 original size:39 final size:41
Alignment explanation
Indices: 84284412--84284501 Score: 139
Period size: 39 Copynumber: 2.2 Consensus size: 41
84284402 AAAAATTATA
*
84284412 TTTAATATAATAAAATATTTATTATATGTAT-CT-GTGTTT
1 TTTAATATAATAAAATATTTATTATATGTATGCTAGTATTT
* *
84284451 TTTAATATAATAAAATATTTATTATATTTATGGTAGTATTT
1 TTTAATATAATAAAATATTTATTATATGTATGCTAGTATTT
84284492 TTTAATATAA
1 TTTAATATAA
84284502 ATACTTTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 30 0.65
40 1 0.02
41 15 0.33
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (41 bp):
TTTAATATAATAAAATATTTATTATATGTATGCTAGTATTT
Found at i:84294154 original size:15 final size:16
Alignment explanation
Indices: 84294125--84294155 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
84294115 TTAAGTTAAA
84294125 GAAAGTAACTGAAATG
1 GAAAGTAACTGAAATG
84294141 GAAAGTAA-TGAAATG
1 GAAAGTAACTGAAATG
84294156 CAAATGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.03, G:0.26, T:0.19
Consensus pattern (16 bp):
GAAAGTAACTGAAATG
Found at i:84294374 original size:51 final size:51
Alignment explanation
Indices: 84294318--84294421 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
84294308 TCTTGACATG
*
84294318 TATAAATTTCATATATGAAATGGATTGATATGACTAAATTTTATACGAGCT
1 TATAAATTTCATATATGAAATGGATTGATATGACTAAAGTTTATACGAGCT
84294369 TATAAATTTCATATATGAAATGGATTGATATGACTAAAGTTTATACGAGCT
1 TATAAATTTCATATATGAAATGGATTGATATGACTAAAGTTTATACGAGCT
84294420 TA
1 TA
84294422 CTAATCACTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.38
Consensus pattern (51 bp):
TATAAATTTCATATATGAAATGGATTGATATGACTAAAGTTTATACGAGCT
Found at i:84294677 original size:15 final size:16
Alignment explanation
Indices: 84294657--84294686 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84294647 TGGTGCCATG
84294657 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
84294672 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
84294687 AGCATGTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:84300892 original size:49 final size:49
Alignment explanation
Indices: 84300777--84300931 Score: 145
Period size: 49 Copynumber: 3.2 Consensus size: 49
84300767 ATGCATGGTT
* * *
84300777 TAATTAAAATGCAAACTAAATAAACA-AATGAGCTACATAATGCATGACA
1 TAATTAAAATGCAAACTTAATAAACATAA-GAGATACTTAATGCATGACA
* * * *
84300826 TAATTTAATATGC-AACTTAATTAACATAAGAGTTACTTAATACATGACA
1 TAA-TTAAAATGCAAACTTAATAAACATAAGAGATACTTAATGCATGACA
** * * * *
84300875 TAATTAAAACACAAACTTTATGAACAT-AGAGATGCTTTAATGCATGACT
1 TAATTAAAATGCAAACTTAATAAACATAAGAGATAC-TTAATGCATGACA
84300924 TAATTAAA
1 TAATTAAA
84300932 TGTAGAACAC
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
48 12 0.14
49 65 0.75
50 10 0.11
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.30
Consensus pattern (49 bp):
TAATTAAAATGCAAACTTAATAAACATAAGAGATACTTAATGCATGACA
Found at i:84300985 original size:32 final size:32
Alignment explanation
Indices: 84300937--84301003 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
84300927 TTAAATGTAG
* *
84300937 AACACATTATGTAAGTCATAATTAAATATGCA
1 AACACATAATGCAAGTCATAATTAAATATGCA
84300969 AACACATAATGCAAGTCATAATTAAATATGCA
1 AACACATAATGCAAGTCATAATTAAATATGCA
84301001 AAC
1 AAC
84301004 TTATTAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (32 bp):
AACACATAATGCAAGTCATAATTAAATATGCA
Found at i:84302309 original size:55 final size:53
Alignment explanation
Indices: 84302237--84302342 Score: 144
Period size: 53 Copynumber: 2.0 Consensus size: 53
84302227 AACTATAACT
* *
84302237 AAGTTTTCGTATTTCTAC-ATAAAGCTAAT-ATTTCTCATTATCATATAATTAAACA
1 AAGTTGTCGTATTTCTACAATAAAG-T-ATGA--TCTAATTATCATATAATTAAACA
84302292 AAGTTGTCGTATTTCTACAATAAAGTATGATCTAATTATCATATAATTAAA
1 AAGTTGTCGTATTTCTACAATAAAGTATGATCTAATTATCATATAATTAAA
84302343 ATAAGAGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
53 20 0.43
54 2 0.04
55 19 0.40
56 6 0.13
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.41
Consensus pattern (53 bp):
AAGTTGTCGTATTTCTACAATAAAGTATGATCTAATTATCATATAATTAAACA
Found at i:84308834 original size:29 final size:28
Alignment explanation
Indices: 84308796--84308850 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
84308786 TCTTCTCAAA
*
84308796 TTTAAAATTTAGTCTTTATACTTTTATT
1 TTTAAAATTTAGTCTCTATACTTTTATT
*
84308824 TTTAAGAATTTAGTCTCTCTACTTTTA
1 TTTAA-AATTTAGTCTCTATACTTTTA
84308851 AGATTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTAAAATTTAGTCTCTATACTTTTATT
Found at i:84312579 original size:17 final size:15
Alignment explanation
Indices: 84312557--84312592 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
84312547 GATGTGAACA
84312557 TATTTTATTTAGATTTT
1 TATTTTATTT--ATTTT
84312574 TATTTTATTTATTTT
1 TATTTTATTTATTTT
84312589 TATT
1 TATT
84312593 ATCTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
17 10 0.53
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (15 bp):
TATTTTATTTATTTT
Found at i:84313419 original size:18 final size:18
Alignment explanation
Indices: 84313389--84313436 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
84313379 GCCAAACTGA
**
84313389 GCATGTGGG-CCACATTG
1 GCATGTGGGCCCACACGG
*
84313406 GCGTGTGGGCCCACACGG
1 GCATGTGGGCCCACACGG
84313424 GCATGTGGGCCCA
1 GCATGTGGGCCCA
84313437 TTATACTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.15, C:0.29, G:0.40, T:0.17
Consensus pattern (18 bp):
GCATGTGGGCCCACACGG
Found at i:84315462 original size:131 final size:129
Alignment explanation
Indices: 84315035--84315520 Score: 388
Period size: 131 Copynumber: 3.7 Consensus size: 129
84315025 TTGCCTCACC
* * * ** *
84315035 TTAGAAAATACGAGTGAAATTCCGAAGAGATATTCGATTATTTTGAACAAACGGGAAATTACAAC
1 TTAGAAAACATGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACAAGAAATCACAAC
* * * * *
84315100 CCAGCACGATAGGGTACTATTCCCCGAATTGTCAAACATCGACTATTTCTTTCGTTTTAAAGGGT
66 CCAGCACGATAGGGCACGATT-CCCGAATTGTCAAACACCGAATA-TTCCTTCGTTTTAAA-GGT
84315165 TT
128 TT
** * * ** * * * * *
84315167 TTAGAAAATGTGAGTGAAATTTCGAAGGGATCTTCGATCGTTTAGAAAAAATGAA-AAAGCGCAA
1 TTAGAAAACATGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAA-CAAGAAATCACAA
* * * * * *
84315231 CCCAGCACGATAGGGCACGATTCTCAAATCGCCAAAC-CTCGAACA-TCCTTTGTTTTGAAAGGT
65 CCCAGCACGATAGGGCACGATTCCCGAATTGTCAAACAC-CGAATATTCCTTCGTTTT-AAAGGT
84315294 TT
128 TT
* * * * * *
84315296 TTA-ATAAACATGAGTGAAA-ACCTAAAGGAATATTTGATTGTTTTGAGCAAACAAGAAATCACA
1 TTAGA-AAACATGAGTGAAATTCC-GAAGGGATATTCGATTATTTTGAACAAACAAGAAATCACA
* * *
84315359 ACCCAGCACGATAGGGCATGATTCCCGAATTGTTAAACACCGAGTATTGCCTTCGTTTTAAAGGA
64 ACCCAGCACGATAGGGCACGATTCCCGAATTGTCAAACACCGAATATT-CCTTCGTTTTAAAGG-
84315424 TTT
127 TTT
* * * ** * * ** **
84315427 TTAGAAGACCTAAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGCGAAATTGCAAC
1 TTAGAAAACATGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACAAGAAATCACAAC
* *
84315492 CCAGTACGTTAGGGCACGATTCCGCGAAT
66 CCAGCACGATAGGGCACGATTCC-CGAAT
84315521 CGCCAAATAT
Statistics
Matches: 275, Mismatches: 66, Indels: 26
0.75 0.18 0.07
Matches are distributed among these distances:
128 4 0.01
129 91 0.33
130 10 0.04
131 96 0.35
132 74 0.27
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (129 bp):
TTAGAAAACATGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACAAGAAATCACAAC
CCAGCACGATAGGGCACGATTCCCGAATTGTCAAACACCGAATATTCCTTCGTTTTAAAGGTTT
Found at i:84318743 original size:45 final size:44
Alignment explanation
Indices: 84318692--84319156 Score: 192
Period size: 45 Copynumber: 10.5 Consensus size: 44
84318682 TGGTGGCTTA
*
84318692 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGA-TCGCCGTCTTC
* * ** ****
84318737 GATCTGCTTCACTGTAACTTCAGGGAA-ATAAGATCTAAAAT-TTC
1 AATCTGCTTCACTGCAACTTCA-GGAAGCCAAGATC-GCCGTCTTC
* * * * * * * ** * *
84318781 AACCTACTCCACTACAACTTCAGGGAGCTAGGAT-GGTGGCTTA
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATCGCCGTCTTC
*
84318824 AATCTACTTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGA-TCGCCGTCTTC
* ** ****
84318869 GATCTGCTTCACTGCAACTTCAGGGAA-ATAAGATCTAAAAT-TTC
1 AATCTGCTTCACTGCAACTTCA-GGAAGCCAAGATC-GCCGTCTTC
** * * * * * * * ** * *
84318913 AGCCTACTCCACTACAACTTTAGGGAGCTAGGAT-GGTGGCTTA
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATCGCCGTCTTC
*
84318956 AATCTGCTTCACTGCAACTTCAGAAAGCCAAGATTCGCCGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGA-TCGCCGTCTTC
* * ****
84319001 GATCTGCTTCACTGCAACTTCAAGGAA-ACAAGATCTAAAAT-TTC
1 AATCTGCTTCACTGCAACTTC-AGGAAGCCAAGATC-GCCGTCTTC
** * * * * * * * ** * *
84319045 AGCCTACTCCACTACAACTTTAGGGAGCTAGGAT-GGTGGCTTA
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATCGCCGTCTTC
* *
84319088 AATCTACTTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTTTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGA-TCGCCGTCTTC
* *
84319133 GATATGCTTCACTGCAACTTCAGG
1 AATCTGCTTCACTGCAACTTCAGG
84319157 GAAACACGAT
Statistics
Matches: 292, Mismatches: 110, Indels: 36
0.67 0.25 0.08
Matches are distributed among these distances:
43 91 0.31
44 77 0.26
45 112 0.38
46 12 0.04
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATCGCCGTCTTC
Found at i:84319192 original size:132 final size:132
Alignment explanation
Indices: 84318468--84319160 Score: 1161
Period size: 132 Copynumber: 5.2 Consensus size: 132
84318458 CTTCAAGTAG
* * * * * *
84318468 CTTCGATATGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTCCACTACA
1 CTTCGATCTGCTTCACTGCAACTTCAGGGAAATAAGATCTAAAAT-TTCAGCCTACTCCACTACA
* * * *
84318533 ACTTTAGGGAGCTATGATGGTGGCTTAAATCTGTTTCACTGCAACTTCGGGAAGCCAAGATTCAC
65 ACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGC
84318598 CGT
130 CGT
* *
84318601 CTTCGATCTGCTTCACTGCAACTTCAGTGAAATAAGACCTAAAATTTCAGCCTACTCCACTACAA
1 CTTCGATCTGCTTCACTGCAACTTCAGGGAAATAAGATCTAAAATTTCAGCCTACTCCACTACAA
* *
84318666 CTTTAGGGAGCTGGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACC
66 CTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
84318731 GT
131 GT
* *
84318733 CTTCGATCTGCTTCACTGTAACTTCAGGGAAATAAGATCTAAAATTTCAACCTACTCCACTACAA
1 CTTCGATCTGCTTCACTGCAACTTCAGGGAAATAAGATCTAAAATTTCAGCCTACTCCACTACAA
* *
84318798 CTTCAGGGAGCTAGGATGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
66 CTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
84318863 GT
131 GT
84318865 CTTCGATCTGCTTCACTGCAACTTCAGGGAAATAAGATCTAAAATTTCAGCCTACTCCACTACAA
1 CTTCGATCTGCTTCACTGCAACTTCAGGGAAATAAGATCTAAAATTTCAGCCTACTCCACTACAA
*
84318930 CTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGAAAGCCAAGATTCGCC
66 CTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
84318995 GT
131 GT
* *
84318997 CTTCGATCTGCTTCACTGCAACTTCAAGGAAACAAGATCTAAAATTTCAGCCTACTCCACTACAA
1 CTTCGATCTGCTTCACTGCAACTTCAGGGAAATAAGATCTAAAATTTCAGCCTACTCCACTACAA
*
84319062 CTTTAGGGAGCTAGGATGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
66 CTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
84319127 GT
131 GT
* *
84319129 TTTCGATATGCTTCACTGCAACTTCAGGGAAA
1 CTTCGATCTGCTTCACTGCAACTTCAGGGAAA
84319161 CACGATCGGT
Statistics
Matches: 528, Mismatches: 32, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
132 490 0.93
133 38 0.07
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (132 bp):
CTTCGATCTGCTTCACTGCAACTTCAGGGAAATAAGATCTAAAATTTCAGCCTACTCCACTACAA
CTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCC
GT
Found at i:84330974 original size:129 final size:130
Alignment explanation
Indices: 84330799--84331033 Score: 298
Period size: 129 Copynumber: 1.8 Consensus size: 130
84330789 TCGACTATTT
* * * *
84330799 CTTTCGTTTTAAAGGGTTTTTAGAAAACGTGAGTGAAATTCCAAAGGGATCTTCGATCATTTAGA
1 CTTTCGTTTTAAAGGGTTTTTAGAAAACATGAGTGAAATACCAAAGGAATATTCGATCATTTAGA
* *
84330864 ACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCTCAAATCGCTAAACCTCGAACATC
66 ACAAACGAAAAAGCACAACCCAGCACGATAGGGCACGATTCTCAAATCGCTAAACCTCGAACATC
**
84330929 CTTT-GTTTTGAAA-GGTTTTTA-ATAAACATGAGTGAAA-ACCTAAAGGAATATTCGATTGTTT
1 CTTTCGTTTT-AAAGGGTTTTTAGA-AAACATGAGTGAAATACC-AAAGGAATATTCGATCATTT
* * * * *
84330990 TGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTC
63 AGAACAAACGAAAAAGCACAACCCAGCACGATAGGGCACGATTC
84331034 CCGAATTGTC
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
128 3 0.03
129 79 0.89
130 7 0.08
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (130 bp):
CTTTCGTTTTAAAGGGTTTTTAGAAAACATGAGTGAAATACCAAAGGAATATTCGATCATTTAGA
ACAAACGAAAAAGCACAACCCAGCACGATAGGGCACGATTCTCAAATCGCTAAACCTCGAACATC
Found at i:84331126 original size:131 final size:128
Alignment explanation
Indices: 84330686--84331211 Score: 389
Period size: 132 Copynumber: 4.0 Consensus size: 128
84330676 TTGCCTCACC
* * * ** * * * * *
84330686 TTAGAAAATACGAGTGAAATTCCGAAGAGATATTAGATTATTTTGAACAAATGGGAAATTACAAC
1 TTAGAAAACATGAGTAAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCACAAC
* * * * *
84330751 CCAGCACGATAGGGTACTATTCCCCGAATTGTCAAACATCGACTATTTCTTTCGTTTTAAAGGGT
66 CCAGCACGATAGGGCACGATT-CCCGAATTGTCAAACA-CCAATA-TTCCTTCGTTTTAAA-GGT
84330816 TT
127 TT
* * * * * * * * * *
84330818 TTAGAAAACGTGAGTGAAATTCCAAAGGGATCTTCGATCATTTAGAACAAATGAAAAAGCGCAAC
1 TTAGAAAACATGAGTAAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCACAAC
* * * * *
84330883 CCAGCACGATAGGGCACGATTCTCAAATCG-CTAAAC-CTCGAACA-TCCTTTGTTTTGAAAGGT
66 CCAGCACGATAGGGCACGATTCCCGAATTGTC-AAACAC-C-AATATTCCTTCGTTTT-AAAGGT
84330945 TT
127 TT
* * * *
84330947 TTA-ATAAACATGAGTGAAAA-CCTAAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACA
1 TTAGA-AAACATGAGT-AAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCACA
*
84331010 ACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACACCAAGTATTGCCTTCGTTTTAAAGGA
64 ACCCAGCACGATAGGGCACGATTCCCGAATTGTCAAACACCAA-TATT-CCTTCGTTTTAAAGG-
84331075 TTT
126 TTT
* * * * * * * * **
84331078 TTAGAAGACCTGGGTAAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGCGAAATTGCAAC
1 TTAGAAAACATGAGTAAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCACAAC
* * * * * *
84331143 CCAACACGTTAGGGCACGATTCCGCGAATCGCCAAATATCAA-ATCTCGTCTTCGTTTTAAAGAG
66 CCAGCACGATAGGGCACGATTCC-CGAATTGTCAAACACCAATAT-TC--CTTCGTTTTAAAG-G
84331207 TTT
126 TTT
84331210 TT
1 TT
84331212 GAATGAATGA
Statistics
Matches: 312, Mismatches: 63, Indels: 38
0.76 0.15 0.09
Matches are distributed among these distances:
128 3 0.01
129 92 0.29
130 22 0.07
131 91 0.29
132 103 0.33
133 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (128 bp):
TTAGAAAACATGAGTAAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCACAAC
CCAGCACGATAGGGCACGATTCCCGAATTGTCAAACACCAATATTCCTTCGTTTTAAAGGTTT
Found at i:84331227 original size:131 final size:131
Alignment explanation
Indices: 84330715--84331204 Score: 326
Period size: 131 Copynumber: 3.7 Consensus size: 131
84330705 TTCCGAAGAG
* * * * * * * *
84330715 ATATTAGATTATTTTGAACAAATGGGAAATTACAACCCAGCACGATAGGGTACTATTCCCCGAAT
1 ATATTCGATTATTTTGAGCAAACGAGAAATCACAACCCAACACGATAGGGCACGATT-CCCGAAT
* * * * * ** * * * * * ***
84330780 TGTCAAACATCGACTATTTCTTTCGTTTTAAAGGGTTTTTAGAAAACGTGAGTGAAATTCCAAAG
65 CGCCAAACACCAAATATCGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAGTAAAATTTTGAAG
*
84330845 GG
130 GA
* * * * * * * * * * *
84330847 ATCTTCGATCATTTAGAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCACGATTCTCAAATC
1 ATATTCGATTATTTTGAGCAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCCGAATC
* * * * * ** *
84330912 GCTAAAC-CTCGAACAT--CCTTTGTTTTGAAAGG-TTTTTA-ATAAACATGAGTGAAAA-CCTA
66 GCCAAACAC-CAAATATCGCCTTCGTTTT-AAAGGATTTTTAGA-AGACATGAGT-AAAATTTTG
84330971 AAGGA
127 AAGGA
* * * *
84330976 ATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATT
1 ATATTCGATTATTTTGAGCAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCCGAATC
* * * * *
84331041 GTCAAACACCAAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAGACCTGGGTAAAATTTTGAAGG
66 GCCAAACACCAAATATCGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAGTAAAATTTTGAAGG
*
84331106 G
131 A
* * ** *
84331107 ATATTTGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
1 ATATTCGATTATTTTGAGCAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCC-CGAAT
* * * *
84331172 CGCCAAATATCAAATCTCGTCTTCGTTTTAAAG
65 CGCCAAACACCAAATATCGCCTTCGTTTTAAAG
84331205 AGTTTTTGAA
Statistics
Matches: 279, Mismatches: 68, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
128 1 0.00
129 90 0.32
130 18 0.06
131 93 0.33
132 77 0.28
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (131 bp):
ATATTCGATTATTTTGAGCAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCCGAATC
GCCAAACACCAAATATCGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAGTAAAATTTTGAAGG
A
Found at i:84335308 original size:35 final size:35
Alignment explanation
Indices: 84335241--84335308 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
84335231 TATATTTGTA
*
84335241 TCTGAAATGGGCTCTGGCCCAAATCTGTATCTGAT
1 TCTGAAATGGGCTCTGGCCCAAATCTGAATCTGAT
* * *
84335276 TCTGACATGGGCT-TAGGCCCAATTGTGAATCTG
1 TCTGAAATGGGCTCT-GGCCCAAATCTGAATCTG
84335309 TTTGATTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 1 0.04
35 27 0.96
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (35 bp):
TCTGAAATGGGCTCTGGCCCAAATCTGAATCTGAT
Found at i:84347177 original size:16 final size:16
Alignment explanation
Indices: 84347156--84347225 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
84347146 TGGTTCAGTA
*
84347156 TAATAGAATAGAGCTG
1 TAATAGAATAGAACTG
*
84347172 TAATAGAGTAGAACTG
1 TAATAGAATAGAACTG
* **
84347188 TAATGGAATAGAGTTG
1 TAATAGAATAGAACTG
*
84347204 TAATAAAATAGAACTG
1 TAATAGAATAGAACTG
84347220 TAATAG
1 TAATAG
84347226 CAATTCAATG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.46, C:0.04, G:0.23, T:0.27
Consensus pattern (16 bp):
TAATAGAATAGAACTG
Found at i:84347206 original size:32 final size:32
Alignment explanation
Indices: 84347156--84347225 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
84347146 TGGTTCAGTA
* *
84347156 TAATAGAATAGAGCTGTAATAGAGTAGAACTG
1 TAATAGAATAGAGCTGTAATAAAATAGAACTG
* *
84347188 TAATGGAATAGAGTTGTAATAAAATAGAACTG
1 TAATAGAATAGAGCTGTAATAAAATAGAACTG
84347220 TAATAG
1 TAATAG
84347226 CAATTCAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.04, G:0.23, T:0.27
Consensus pattern (32 bp):
TAATAGAATAGAGCTGTAATAAAATAGAACTG
Found at i:84347287 original size:43 final size:45
Alignment explanation
Indices: 84347210--84347295 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 45
84347200 GTTGTAATAA
84347210 AATAGAACTGTAATAGCAATTCAATGGTTTGGTTGAATGGAATGG
1 AATAGAACTGTAATAGCAATTCAATGGTTTGGTTGAATGGAATGG
* *
84347255 AATAGAACT-TAATAG-TATTC-TTGTGTTTGGTTGAATGGAAT
1 AATAGAACTGTAATAGCAATTCAATG-GTTTGGTTGAATGGAAT
84347296 AGAGTTGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 2 0.05
43 21 0.55
44 6 0.16
45 9 0.24
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (45 bp):
AATAGAACTGTAATAGCAATTCAATGGTTTGGTTGAATGGAATGG
Found at i:84347704 original size:12 final size:12
Alignment explanation
Indices: 84347674--84347708 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
84347664 TATATGTTGC
84347674 TTAAAGAATAAT
1 TTAAAGAATAAT
*
84347686 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
84347699 TTAAAGAATA
1 TTAAAGAATA
84347709 TATTGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:84353742 original size:16 final size:15
Alignment explanation
Indices: 84353703--84353744 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
84353693 TTTTTATAAA
84353703 TTTATAAATTTTTGTT
1 TTTATAAA-TTTTGTT
*
84353719 TTT-CAAATTTTGTAT
1 TTTATAAATTTTGT-T
84353734 TTTATAAATTT
1 TTTATAAATTT
84353745 CAAAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.27
15 7 0.32
16 9 0.41
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (15 bp):
TTTATAAATTTTGTT
Found at i:84354392 original size:31 final size:30
Alignment explanation
Indices: 84354316--84354434 Score: 85
Period size: 28 Copynumber: 4.1 Consensus size: 30
84354306 TTTAAGTAAT
*
84354316 TAAT-ATAAATTATTTCAAA-AATT-AATGA
1 TAATAATAAATTATTTTAAACAATTAAAT-A
84354344 TACAT-A-AAA-TATTTTAAA-AACTTAAATA
1 TA-ATAATAAATTATTTTAAACAA-TTAAATA
*
84354372 TAATAATAAATTATATTTAAACAATTTAATA
1 TAATAATAAATTAT-TTTAAACAATTAAATA
* * * *
84354403 TAATGATAAA-T-GTTTAAATAATTTAATA
1 TAATAATAAATTATTTTAAACAATTAAATA
84354431 TAAT
1 TAAT
84354435 GTTACATAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
27 12 0.15
28 30 0.38
29 9 0.12
30 4 0.05
31 21 0.27
32 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (30 bp):
TAATAATAAATTATTTTAAACAATTAAATA
Found at i:84355252 original size:33 final size:33
Alignment explanation
Indices: 84355148--84355241 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
84355138 ACTCAAACTT
* * * *
84355148 TTACCTAGGTCTTATGCATACAACAATAAATTC
1 TTACCTAGGTCATATACATGCAACAATCAATTC
* * * *
84355181 TTACCTAAGCCATATACATGCAACTATCGATTC
1 TTACCTAGGTCATATACATGCAACAATCAATTC
84355214 TTACCTAGGTCATATACATGCAACAATC
1 TTACCTAGGTCATATACATGCAACAATC
84355242 TATTTATACC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (33 bp):
TTACCTAGGTCATATACATGCAACAATCAATTC
Found at i:84358754 original size:25 final size:24
Alignment explanation
Indices: 84358709--84358756 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
84358699 TTTAAAAAAT
* *
84358709 AATTTTGAAAAATAAATAAATAAA
1 AATTATGAAAAATAAAAAAATAAA
84358733 AATTATGAAATAATAAAAAAATAA
1 AATTATGAAA-AATAAAAAAATAA
84358757 TTTTATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (24 bp):
AATTATGAAAAATAAAAAAATAAA
Found at i:84358758 original size:22 final size:22
Alignment explanation
Indices: 84358702--84358758 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
84358692 TGAATATTTT
*
84358702 AAAAAATAATTTTGAAAAATAA
1 AAAAAATAATTATGAAAAATAA
*
84358724 ATAAATAAAAATTATGAAATAAT-A
1 A-AAA-AATAATTATGAAA-AATAA
84358748 AAAAAATAATT
1 AAAAAATAATT
84358759 TTATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 7 0.24
23 6 0.21
24 13 0.45
25 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (22 bp):
AAAAAATAATTATGAAAAATAA
Found at i:84358762 original size:24 final size:22
Alignment explanation
Indices: 84358702--84358759 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
84358692 TGAATATTTT
84358702 AAAAAATAATTT-TGAAAAATA
1 AAAAAATAATTTATGAAAAATA
* *
84358723 AATAAATAAAAATTATGAAATAATA
1 AA-AAA-ATAATTTATGAAA-AATA
84358748 AAAAAATAATTT
1 AAAAAATAATTT
84358760 TATTATTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 10 0.34
24 8 0.28
25 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (22 bp):
AAAAAATAATTTATGAAAAATA
Found at i:84359393 original size:34 final size:34
Alignment explanation
Indices: 84359296--84359408 Score: 106
Period size: 34 Copynumber: 3.3 Consensus size: 34
84359286 TTAGAAAATA
* * *
84359296 TAAAATTAAAATATTTGAAATTATTTTAATATAATC
1 TAAAA-TAAAAAATTTTAAA-TATTTTAATATAATT
* * **
84359332 TAATATAAAATA-TTT-AAT-TTCAAAATATAATT
1 TAAAATAAAAAATTTTAAATATT-TTAATATAATT
84359364 TAAAATAAAAAATTTTAAATATTTTAATATAATT
1 TAAAATAAAAAATTTTAAATATTTTAATATAATT
*
84359398 TAATATAAAAA
1 TAAAATAAAAA
84359409 TAATTATATT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
31 2 0.03
32 19 0.30
33 5 0.08
34 24 0.38
35 9 0.14
36 4 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (34 bp):
TAAAATAAAAAATTTTAAATATTTTAATATAATT
Found at i:84359423 original size:66 final size:66
Alignment explanation
Indices: 84359296--84359489 Score: 183
Period size: 66 Copynumber: 3.0 Consensus size: 66
84359286 TTAGAAAATA
* * *
84359296 TAAAATTAAAATATTTGAAATTATTTTAATATAATCTAATAT-AAAATATTTA-ATTTCAAAATA
1 TAAAA-TAAAATATTTTAAA-TATTTTAATATAATTTAATATAAAAATAATTATA-TT-AAAATA
84359359 TAATT
62 TAATT
*
84359364 TAAAATAAAAAATTTTAAATATTTTAATATAATTTAATATAAAAATAATTATATTAAAATATTAA
1 TAAAATAAAATATTTTAAATATTTTAATATAATTTAATATAAAAATAATTATATTAAAATA-TAA
84359429 --
65 TT
* * * * *
84359429 T-AAATTATATATTTT--AT-TTTT-AT-TAAATTATATTTAATAATAATTATATTAAAATATAA
1 TAAAATAAAATATTTTAAATATTTTAATATAATTTA-ATATAAAAATAATTATATTAAAATATAA
84359488 TT
65 TT
84359490 AAATTATTTA
Statistics
Matches: 110, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
59 9 0.08
60 25 0.23
61 4 0.04
62 2 0.02
64 11 0.10
65 1 0.01
66 26 0.24
67 26 0.24
68 6 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (66 bp):
TAAAATAAAATATTTTAAATATTTTAATATAATTTAATATAAAAATAATTATATTAAAATATAAT
T
Found at i:84359425 original size:32 final size:32
Alignment explanation
Indices: 84359323--84359425 Score: 95
Period size: 32 Copynumber: 3.2 Consensus size: 32
84359313 AAATTATTTT
*
84359323 AATATAATCTAATAT-AAAATATTTA-ATTTCAA
1 AATATAATTTAATATAAAAATATTTATA-TT-AA
* **
84359355 AATATAATTTAAAATAAAAA-ATTTTAAATATTTT
1 AATATAATTTAATATAAAAATA-TTT--ATATTAA
*
84359389 AATATAATTTAATATAAAAATAATTATATTAA
1 AATATAATTTAATATAAAAATATTTATATTAA
84359421 AATAT
1 AATAT
84359426 TAATAAATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
32 24 0.42
33 7 0.12
34 21 0.37
35 4 0.07
36 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (32 bp):
AATATAATTTAATATAAAAATATTTATATTAA
Found at i:84359447 original size:60 final size:59
Alignment explanation
Indices: 84359383--84359510 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 59
84359373 AAATTTTAAA
*
84359383 TATTTTAATATAATTTA-ATATAAAAATAATTATATTAAAATATTAA-TAAATTATATATTT
1 TATTTTAAT-TAAATTATATATAAAAATAATTATATTAAAATA-TAATTAAATTATATA-TT
* * * *
84359443 TATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATTATTTATT
1 TATTTTAATTAAATTATATATAAAAATAATTATATTAAAATATAATTAAATTATATATT
84359502 TATTATTAA
1 TATT-TTAA
84359511 ATTTATTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
59 15 0.25
60 44 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (59 bp):
TATTTTAATTAAATTATATATAAAAATAATTATATTAAAATATAATTAAATTATATATT
Found at i:84359487 original size:16 final size:17
Alignment explanation
Indices: 84359454--84359495 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
84359444 ATTTTTATTA
*
84359454 AATTATATT-TAATAAT
1 AATTATATTAAAATAAT
84359470 AATTATATTAAAAT-AT
1 AATTATATTAAAATAAT
*
84359486 AATTAAATTA
1 AATTATATTA
84359496 TTTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTATATTAAAATAAT
Found at i:84359717 original size:46 final size:44
Alignment explanation
Indices: 84359624--84359724 Score: 116
Period size: 44 Copynumber: 2.2 Consensus size: 44
84359614 TATTATAACA
*
84359624 TCATTCAATTCAACCAAACATAAGAATATTATTACAATTTTATT
1 TCATTCAATTCAACCAAACATAAGAATATTATTACAATTCTATT
* *
84359668 TCATTCCATTCAACCAAACAGT-TGAATTATTGATTAC-ATCTCTATT
1 TCATTCAATTCAACCAAACA-TAAGAA-TATT-ATTACAAT-TCTATT
84359714 TCATTACAATT
1 TCATT-CAATT
84359725 ATATTACATT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
44 22 0.46
45 7 0.15
46 15 0.31
47 4 0.08
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.40
Consensus pattern (44 bp):
TCATTCAATTCAACCAAACATAAGAATATTATTACAATTCTATT
Found at i:84364514 original size:14 final size:14
Alignment explanation
Indices: 84364495--84364531 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
84364485 AGGCAAAAGA
*
84364495 AAAAAAAAACTCTG
1 AAAAAAAAACACTG
84364509 AAAAAAAAACACTG
1 AAAAAAAAACACTG
84364523 AAAAAAAAA
1 AAAAAAAAA
84364532 ATTCTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.76, C:0.11, G:0.05, T:0.08
Consensus pattern (14 bp):
AAAAAAAAACACTG
Found at i:84365513 original size:20 final size:19
Alignment explanation
Indices: 84365477--84365525 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
84365467 AACATTGAGA
84365477 AATTATATATT-TGTGATATT
1 AATTATA-ATTATGTGAT-TT
84365497 -ATTATGAATTATGTGATTT
1 AATTAT-AATTATGTGATTT
84365516 AATTATAATT
1 AATTATAATT
84365526 TATCTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (19 bp):
AATTATAATTATGTGATTT
Found at i:84365528 original size:20 final size:20
Alignment explanation
Indices: 84365488--84365525 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
84365478 ATTATATATT
84365488 TGTGATATTATTATGAATTA
1 TGTGATATTATTATGAATTA
84365508 TGTGAT-TTAATTAT-AATT
1 TGTGATATT-ATTATGAATT
84365526 TATCTTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (20 bp):
TGTGATATTATTATGAATTA
Found at i:84369250 original size:26 final size:26
Alignment explanation
Indices: 84369213--84369296 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
84369203 TGATACAAAT
* *
84369213 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
84369239 TGATAATGGGTTAGGTAAATGTTTCG
1 TGATAATGGGTTAGGTAAATGTTTCA
84369265 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
84369291 TGATAA
1 TGATAA
84369297 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:84375792 original size:43 final size:43
Alignment explanation
Indices: 84375744--84375831 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
84375734 TTGAAAAAAT
* *
84375744 GCCGCTAAAGGTCATGACTTTTAGCGGTGCTTTTACCACAAAC
1 GCCGCTAAAGGTCATGACTTTTAGCAGCGCTTTTACCACAAAC
84375787 GCCGCTAAAGGTCATGACTTTTAGCAGCGCTTTTACCACAAAC
1 GCCGCTAAAGGTCATGACTTTTAGCAGCGCTTTTACCACAAAC
84375830 GC
1 GC
84375832 TTTTTCTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGACTTTTAGCAGCGCTTTTACCACAAAC
Done.