Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold59
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: 3999109
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32
Warning! 268233 characters in sequence are not A, C, G, or T
File 6 of 25
Found at i:985141 original size:18 final size:19
Alignment explanation
Indices: 985118--985159 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
985108 ATAATTTTTT
985118 AAAATA-AAATTATAT-ATA
1 AAAATATAAA-TATATCATA
985136 AAAATATAAATATATCATA
1 AAAATATAAATATATCATA
985155 AAAAT
1 AAAAT
985160 TTATTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATATAAATATATCATA
Found at i:985160 original size:69 final size:71
Alignment explanation
Indices: 985034--985165 Score: 164
Period size: 69 Copynumber: 1.9 Consensus size: 71
985024 TTTAATAATT
* * * *
985034 AAATTTAATTATTTTAAATATAATATAAATATATAAATAAAATTATATAATATAAA-TTATTAAT
1 AAATATAATTATTTTAAATAAAATATAAATATAAAAATAAAATTATATAATAAAAATTTATTAAT
985098 TTTTAC
66 TTTTAC
* *
985104 AAATATAATT-TTTTAAAATAAAAT-TATATATAAAAATATAAA-TATATCATAAAAATTTATTA
1 AAATATAATTATTTT-AAATAAAATATAAATATAAAAATA-AAATTATATAATAAAAATTTATTA
985166 TAAAAATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
69 27 0.51
70 26 0.49
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (71 bp):
AAATATAATTATTTTAAATAAAATATAAATATAAAAATAAAATTATATAATAAAAATTTATTAAT
TTTTAC
Found at i:985167 original size:18 final size:18
Alignment explanation
Indices: 985049--985159 Score: 63
Period size: 19 Copynumber: 6.2 Consensus size: 18
985039 TAATTATTTT
* *
985049 AAATATAATATAAATATAT
1 AAATATAAT-TATATATAA
*
985068 AAATAAAATTATATAATATA
1 AAATATAATTATAT-ATA-A
* *
985088 AATTATTAATT-T-T-TAC
1 AAATA-TAATTATATATAA
*
985104 AAATATAATT-T-T-TTA
1 AAATATAATTATATATAA
*
985119 AAATAAAATTATATATAA
1 AAATATAATTATATATAA
*
985137 AAATATAAATATATCATAA
1 AAATATAATTATAT-ATAA
985156 AAAT
1 AAAT
985160 TTATTATAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
15 17 0.24
16 5 0.07
17 3 0.04
18 18 0.25
19 20 0.28
20 5 0.07
21 4 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATAATTATATATAA
Found at i:990672 original size:23 final size:22
Alignment explanation
Indices: 990645--990694 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
990635 TATTTTCACT
*
990645 TAAATTTAATTATAAAAATATA
1 TAAATGTAATTATAAAAATATA
990667 TCAAATGTAATTATAAAAATATA
1 T-AAATGTAATTATAAAAATATA
990690 TAAAT
1 TAAAT
990695 ACTAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAATGTAATTATAAAAATATA
Found at i:990700 original size:23 final size:23
Alignment explanation
Indices: 990646--990700 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
990636 ATTTTCACTT
*
990646 AAATTTAATTATAAAAATATATC
1 AAATCTAATTATAAAAATATATC
*
990669 AAATGTAATTATAAAAATATAT-
1 AAATCTAATTATAAAAATATATC
990691 AAATACTAAT
1 AAAT-CTAAT
990701 AAAAAGAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATCTAATTATAAAAATATATC
Found at i:998537 original size:36 final size:36
Alignment explanation
Indices: 998490--998561 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
998480 TAGCTGCAGT
998490 TAACTCTTCTTTCATGCTGCTAGTTGTGTCCCCTGA
1 TAACTCTTCTTTCATGCTGCTAGTTGTGTCCCCTGA
998526 TAACTCTTCTTTCATGCTGCTAGTTGTGTCCCCTGA
1 TAACTCTTCTTTCATGCTGCTAGTTGTGTCCCCTGA
998562 AGTTGAAGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.42
Consensus pattern (36 bp):
TAACTCTTCTTTCATGCTGCTAGTTGTGTCCCCTGA
Found at i:1004762 original size:2 final size:2
Alignment explanation
Indices: 1004755--1004785 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1004745 ATGATGCTTT
1004755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1004786 GTTTCTCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1007308 original size:20 final size:18
Alignment explanation
Indices: 1007275--1007312 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
1007265 ATTTATATTT
1007275 AATATATATTTAAATATA
1 AATATATATTTAAATATA
1007293 AATATAATATTTTAAATATA
1 AATAT-ATA-TTTAAATATA
1007313 TAAAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATATATATTTAAATATA
Found at i:1008010 original size:15 final size:15
Alignment explanation
Indices: 1007990--1008023 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1007980 CATTTGGCTC
* *
1007990 ATTTATATTGTTTTA
1 ATTTATATTATTTGA
1008005 ATTTATATTATTTGA
1 ATTTATATTATTTGA
1008020 ATTT
1 ATTT
1008024 CAATGTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
ATTTATATTATTTGA
Found at i:1009397 original size:2 final size:2
Alignment explanation
Indices: 1009392--1009426 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1009382 TGTGTGTATG
*
1009392 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1009427 TACAAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1009843 original size:24 final size:25
Alignment explanation
Indices: 1009816--1009868 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
1009806 AAAAAGATAA
*
1009816 AAAATTGACT-GATATTATTTTTTT
1 AAAATTGACTAAATATTATTTTTTT
* *
1009840 AAAATTTATTAAATATTATTTTTTT
1 AAAATTGACTAAATATTATTTTTTT
1009865 AAAA
1 AAAA
1009869 ATAATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
AAAATTGACTAAATATTATTTTTTT
Found at i:1009875 original size:25 final size:25
Alignment explanation
Indices: 1009827--1009875 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1009817 AAATTGACTG
* *
1009827 ATATTATTTTTTTAAAATTTATTAA
1 ATATTATTTTTTTAAAAATAATTAA
1009852 ATATTATTTTTTTAAAAATAATTA
1 ATATTATTTTTTTAAAAATAATTA
1009876 TATTAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATATTATTTTTTTAAAAATAATTAA
Found at i:1011268 original size:19 final size:19
Alignment explanation
Indices: 1011244--1011284 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
1011234 AAACTTAATA
1011244 ATTTATATATTTGTATTAT
1 ATTTATATATTTGTATTAT
* *
1011263 ATTTATATTTTTTTATTAT
1 ATTTATATATTTGTATTAT
1011282 ATT
1 ATT
1011285 ATAATCGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
ATTTATATATTTGTATTAT
Found at i:1015666 original size:24 final size:22
Alignment explanation
Indices: 1015621--1015666 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
1015611 TTAGGGTCAA
*
1015621 AATATATTTAGATTAATATTAT
1 AATATATTTAGAATAATATTAT
*
1015643 AATATTATTTATGAATACTATTAT
1 AATA-TATTTA-GAATAATATTAT
1015667 TCAAATGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (22 bp):
AATATATTTAGAATAATATTAT
Found at i:1018399 original size:17 final size:18
Alignment explanation
Indices: 1018379--1018416 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
1018369 ATTCTTTTAA
1018379 TTATTATATATAT-ATAT
1 TTATTATATATATAATAT
* *
1018396 TTATTATTTCTATAATAT
1 TTATTATATATATAATAT
1018414 TTA
1 TTA
1018417 ATCAATTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATATATATAATAT
Found at i:1019563 original size:2 final size:2
Alignment explanation
Indices: 1019556--1019596 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1019546 TAACTGATAC
1019556 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1019597 GCACACACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1020416 original size:2 final size:2
Alignment explanation
Indices: 1020409--1020444 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1020399 AGGTAAAGTA
1020409 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1020445 CCACCAAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1023086 original size:85 final size:86
Alignment explanation
Indices: 1022981--1023156 Score: 336
Period size: 85 Copynumber: 2.1 Consensus size: 86
1022971 AATGGATAAA
1022981 CATATTGGATATTAATAATATTACCAAGTTTACTTATAATATATGTATGACAACT-CTTTATTCT
1 CATATTGGATATTAATAATATTACCAAGTTTACTTATAATATATGTATGACAACTCCTTTATTCT
1023045 TGAACTGTTAATAACACTATT
66 TGAACTGTTAATAACACTATT
1023066 CATATTGGATATTAATAATATTACCAAGTTTACTTATAATATATGTATGACAACTCCTTTATTCT
1 CATATTGGATATTAATAATATTACCAAGTTTACTTATAATATATGTATGACAACTCCTTTATTCT
*
1023131 TGAACTGTTAATAACATTATT
66 TGAACTGTTAATAACACTATT
1023152 CATAT
1 CATAT
1023157 AACACTTTTA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 55 0.62
86 34 0.38
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (86 bp):
CATATTGGATATTAATAATATTACCAAGTTTACTTATAATATATGTATGACAACTCCTTTATTCT
TGAACTGTTAATAACACTATT
Found at i:1032228 original size:25 final size:25
Alignment explanation
Indices: 1032200--1032251 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
1032190 CAAACAGGCT
* * *
1032200 TTTTTTCTTTGAATTTTTATATTTA
1 TTTTTTATTTGAAATTTTAAATTTA
*
1032225 TTTTTTATTTTAAATTTTAAATTTA
1 TTTTTTATTTGAAATTTTAAATTTA
1032250 TT
1 TT
1032252 AAATTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTTTATTTGAAATTTTAAATTTA
Found at i:1032349 original size:16 final size:16
Alignment explanation
Indices: 1032328--1032379 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
1032318 GCTGTTCAAA
1032328 AAATTTTAATTTTTTT
1 AAATTTTAATTTTTTT
* * *
1032344 AAATTTAAATTACTTTA
1 AAATTTTAATT-TTTTT
*
1032361 AAAATTTATATTTTTTT
1 AAATTTTA-ATTTTTTT
1032378 AA
1 AA
1032380 TTTAAATCAT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
16 10 0.37
17 14 0.52
18 3 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATTTTAATTTTTTT
Found at i:1032382 original size:33 final size:34
Alignment explanation
Indices: 1032326--1032395 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
1032316 ATGCTGTTCA
*
1032326 AAAAATTTTAATTTTTTTAAATTTAAATTACTTT
1 AAAAATTTTAATTTTTTTAAATTTAAATCACTTT
*
1032360 AAAAA-TTTATATTTTTTT-AATTTAAATCATTTT
1 AAAAATTTTA-ATTTTTTTAAATTTAAATCACTTT
1032393 AAA
1 AAA
1032396 TATAAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 20 0.61
34 13 0.39
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (34 bp):
AAAAATTTTAATTTTTTTAAATTTAAATCACTTT
Found at i:1032405 original size:33 final size:34
Alignment explanation
Indices: 1032336--1032408 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 34
1032326 AAAAATTTTA
* **
1032336 ATTTTTTTAAATTTAAATTACTTTAAAAATTTAT
1 ATTTTTTTAAATTTAAATCACTTTAAAAATAAAT
* *
1032370 ATTTTTTT-AATTTAAATCATTTTAAATATAAAT
1 ATTTTTTTAAATTTAAATCACTTTAAAAATAAAT
1032403 ATTTTT
1 ATTTTT
1032409 GTGATGACTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 26 0.76
34 8 0.24
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (34 bp):
ATTTTTTTAAATTTAAATCACTTTAAAAATAAAT
Found at i:1037289 original size:17 final size:18
Alignment explanation
Indices: 1037253--1037296 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
1037243 AAAATTTTAA
1037253 TTTAATATTTATAATTATTT
1 TTTAA-ATTTATAA-TATTT
1037273 TTTAAATTTATAA-ATTT
1 TTTAAATTTATAATATTT
*
1037290 ATTAAAT
1 TTTAAAT
1037297 ATTTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
19 8 0.35
20 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAAATTTATAATATTT
Found at i:1037300 original size:19 final size:19
Alignment explanation
Indices: 1037256--1037302 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1037246 ATTTTAATTT
*
1037256 AATATTTATAATTATTTTTT
1 AATATTTATAA-TATTTTTA
1037276 AA-ATTTATAA-ATTTATTA
1 AATATTTATAATATTT-TTA
1037294 AATATTTAT
1 AATATTTAT
1037303 TTATTTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 14 0.58
20 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATATTTATAATATTTTTA
Found at i:1037348 original size:16 final size:15
Alignment explanation
Indices: 1037329--1037363 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
1037319 TTGAAATACA
1037329 TATAAATATAAATATT
1 TATAAATATAAA-ATT
1037345 TATAAATATAAAATT
1 TATAAATATAAAATT
1037360 TATA
1 TATA
1037364 TTATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAAATATAAAATT
Found at i:1038103 original size:15 final size:15
Alignment explanation
Indices: 1038083--1038112 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1038073 AAATATCCTC
1038083 AAATATATATATATA
1 AAATATATATATATA
*
1038098 AAATATATGTATATA
1 AAATATATATATATA
1038113 TAATCTCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
AAATATATATATATA
Found at i:1038647 original size:4 final size:4
Alignment explanation
Indices: 1038638--1038680 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
1038628 TACTGATGCG
*
1038638 TTTC TTTC TTTC TTTC TGTC TTTC TTTC TTTC TTGT- TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TTTC TTT
1038681 AACAAATACT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 1 0.03
4 33 0.94
5 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:1038659 original size:16 final size:17
Alignment explanation
Indices: 1038640--1038680 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
1038630 CTGATGCGTT
1038640 TCTTTCTTTCTTTC-TG
1 TCTTTCTTTCTTTCTTG
1038656 TCTTTCTTTCTTTCTTG
1 TCTTTCTTTCTTTCTTG
1038673 T-TTTCTTT
1 TCTTTCTTT
1038681 AACAAATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.00, C:0.22, G:0.05, T:0.73
Consensus pattern (17 bp):
TCTTTCTTTCTTTCTTG
Found at i:1039722 original size:33 final size:33
Alignment explanation
Indices: 1039668--1039739 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
1039658 TTTAAAGTAT
* **
1039668 TTTATA-TTAATATAAATTTTAATTTATTAATAA
1 TTTATATTTAATATAAAATTTAAAATATTAAT-A
* *
1039701 TTTATATTTTATA-AAAATTTAAAATATTTATA
1 TTTATATTTAATATAAAATTTAAAATATTAATA
1039733 TTTATAT
1 TTTATAT
1039740 CGTATTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 8 0.24
33 20 0.61
34 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TTTATATTTAATATAAAATTTAAAATATTAATA
Found at i:1040010 original size:15 final size:15
Alignment explanation
Indices: 1039979--1040015 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1039969 CTTTTCGCTG
1039979 TTCATTTT-TACCTT
1 TTCATTTTCTACCTT
*
1039993 TTCATTTTCTATCTT
1 TTCATTTTCTACCTT
1040008 TTC-TTTTC
1 TTCATTTTC
1040016 CCTTTTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.68
Consensus pattern (15 bp):
TTCATTTTCTACCTT
Found at i:1040296 original size:17 final size:17
Alignment explanation
Indices: 1040274--1040308 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1040264 TTGGTAGAGA
*
1040274 AATTTCTTGTATACTGC
1 AATTTCTTCTATACTGC
1040291 AATTTCTTCTATACTGC
1 AATTTCTTCTATACTGC
1040308 A
1 A
1040309 TGTACCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.46
Consensus pattern (17 bp):
AATTTCTTCTATACTGC
Found at i:1043011 original size:37 final size:38
Alignment explanation
Indices: 1042959--1043031 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
1042949 TACTTTCTCA
1042959 TAAATTATCATATTTTTAAGAAAAAT-ATTAATTAGTACT
1 TAAATTA-CATATTTTTAA-AAAAATAATTAATTAGTACT
* *
1042998 TAAATTA-ATATTTTTTAAAAATTAATTAATTAGT
1 TAAATTACATATTTTTAAAAAAATAATTAATTAGT
1043032 TATTTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 5 0.16
37 19 0.61
39 7 0.23
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (38 bp):
TAAATTACATATTTTTAAAAAAATAATTAATTAGTACT
Found at i:1043574 original size:26 final size:26
Alignment explanation
Indices: 1043545--1043613 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
1043535 TTAAATAAAA
*
1043545 TATAATATAATATAATTTATTATATT
1 TATAATATAATATAATATATTATATT
*
1043571 TAT-ATATAA-ATACGATATATTATTTT
1 TATAATATAATATA--ATATATTATATT
1043597 TA-AATATAAT-TAATATA
1 TATAATATAATATAATATA
1043614 ATAAGTTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
24 8 0.22
25 6 0.16
26 23 0.62
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
TATAATATAATATAATATATTATATT
Found at i:1045906 original size:32 final size:32
Alignment explanation
Indices: 1045870--1045978 Score: 93
Period size: 32 Copynumber: 3.4 Consensus size: 32
1045860 ATTTATATGT
1045870 TGATATTTATATTATTTTTTATATTTAAAATA
1 TGATATTTATATTATTTTTTATATTTAAAATA
* *
1045902 TGATATTTTTA-TATTTTTTACATATTAATAAT-
1 TGATATTTATATTATTTTTTATAT-TTAA-AATA
* * *
1045934 TTAT-TTTATTTTATTTATATT-T-TTTTAAATA
1 TGATATTTATATTATTT-T-TTATATTTAAAATA
1045965 TGTATATTTATATT
1 TG-ATATTTATATT
1045979 CTGCGTATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
30 3 0.05
31 19 0.32
32 25 0.42
33 11 0.18
34 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (32 bp):
TGATATTTATATTATTTTTTATATTTAAAATA
Found at i:1046103 original size:23 final size:23
Alignment explanation
Indices: 1046073--1046157 Score: 64
Period size: 24 Copynumber: 3.4 Consensus size: 23
1046063 ATAATTTTTA
1046073 TATTTTAATTATTCATTTATCTT
1 TATTTTAATTATTCATTTATCTT
* *
1046096 TATTTTAACATATTCATATATTCGTAT
1 TATTTTAA-TTATTCATTTA-TC-T-T
* *
1046123 TATATTTATATTATT-TTTTATATT
1 TAT-TTTA-ATTATTCATTTATCTT
1046147 ATATTTTAATT
1 -TATTTTAATT
1046158 GTTTATATCT
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
23 11 0.22
24 14 0.29
25 6 0.12
26 2 0.04
27 7 0.14
28 8 0.16
29 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (23 bp):
TATTTTAATTATTCATTTATCTT
Found at i:1046144 original size:12 final size:12
Alignment explanation
Indices: 1046120--1046154 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1046110 CATATATTCG
1046120 TATTATA-TTTA
1 TATTATATTTTA
*
1046131 TATTATTTTTTA
1 TATTATATTTTA
1046143 TATTATATTTTA
1 TATTATATTTTA
1046155 ATTGTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATTATATTTTA
Found at i:1046276 original size:21 final size:21
Alignment explanation
Indices: 1046250--1046301 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1046240 TTTTACTTTC
* *
1046250 AGGAGGGAAAAGAAAGAAAGA
1 AGGAGGAAAAAAAAAGAAAGA
1046271 AGGAGGAAAAAAAAAGAAA-A
1 AGGAGGAAAAAAAAAGAAAGA
1046291 A-GA-GAAAAAAA
1 AGGAGGAAAAAAA
1046302 TTTTGTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.28
19 2 0.07
20 2 0.07
21 17 0.59
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AGGAGGAAAAAAAAAGAAAGA
Found at i:1046444 original size:19 final size:21
Alignment explanation
Indices: 1046400--1046445 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1046390 TCATCTATAA
*
1046400 TTTTATATGTACTTATATTCG
1 TTTTATATGCACTTATATTCG
*
1046421 TTTTATATGCA-TTTTATT-G
1 TTTTATATGCACTTATATTCG
1046440 TTTTAT
1 TTTTAT
1046446 TTTAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 6 0.26
21 10 0.43
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.63
Consensus pattern (21 bp):
TTTTATATGCACTTATATTCG
Found at i:1046629 original size:21 final size:21
Alignment explanation
Indices: 1046603--1046648 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1046593 ATGGGAGAGA
* * *
1046603 GAAAAATGGAAAGAAAAAAAT
1 GAAAAAAGAAAAGAAAAAAAG
1046624 GAAAAAAGAAAAGAAAAAAAG
1 GAAAAAAGAAAAGAAAAAAAG
1046645 GAAA
1 GAAA
1046649 GAGAGAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (21 bp):
GAAAAAAGAAAAGAAAAAAAG
Found at i:1046644 original size:13 final size:13
Alignment explanation
Indices: 1046625--1046667 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
1046615 GAAAAAAATG
1046625 AAAAAAGAAAAGA
1 AAAAAAGAAAAGA
*
1046638 AAAAAAGGAAAGA
1 AAAAAAGAAAAGA
* * *
1046651 GAGAAATAAAAGA
1 AAAAAAGAAAAGA
1046664 AAAA
1 AAAA
1046668 GTTAATGTGT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAAAGA
Found at i:1046766 original size:31 final size:31
Alignment explanation
Indices: 1046730--1046788 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
1046720 AATTTATATA
1046730 ATATTT-TATACATACATATTTATATATTCTT
1 ATATTTGTAT-CATACATATTTATATATTCTT
** *
1046761 ATATTTGTATCATATTTATTTTTATATT
1 ATATTTGTATCATACATATTTATATATT
1046789 ATGTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.88
32 3 0.12
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (31 bp):
ATATTTGTATCATACATATTTATATATTCTT
Found at i:1047056 original size:16 final size:17
Alignment explanation
Indices: 1047032--1047064 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1047022 ATTTTAATTA
1047032 AAAATAATTAAAAATAT
1 AAAATAATTAAAAATAT
1047049 AAAA-AATTAAAAATAT
1 AAAATAATTAAAAATAT
1047065 CATTAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATAATTAAAAATAT
Found at i:1047222 original size:15 final size:14
Alignment explanation
Indices: 1047200--1047235 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
1047190 TTTATTTGAT
1047200 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
1047214 AAAAGAAAGAAAAAG
1 AAAA-AAAGAAAAAG
1047229 AAAAAAA
1 AAAAAAA
1047236 TTTATACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:1047356 original size:21 final size:22
Alignment explanation
Indices: 1047315--1047374 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
1047305 TTATTTTATT
*
1047315 TATACTTTTATATATACATATATTCA
1 TATACTTTTATATAT--ATA-AAT-A
1047341 TATA-TTTTATATATATAAATA
1 TATACTTTTATATATATAAATA
1047362 TATACTTTTATAT
1 TATACTTTTATAT
1047375 GTACGTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.16
22 10 0.31
23 3 0.09
25 10 0.31
26 4 0.12
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TATACTTTTATATATATAAATA
Found at i:1047374 original size:12 final size:12
Alignment explanation
Indices: 1047308--1047389 Score: 62
Period size: 12 Copynumber: 6.9 Consensus size: 12
1047298 ATTTATTTTA
*
1047308 TTTTATTTATAC
1 TTTTATATATAC
1047320 TTTTATATATAC
1 TTTTATATATAC
* *
1047332 ATATATTCATATA-
1 TTTTA-T-ATATAC
1047345 TTTTATATATA-
1 TTTTATATATAC
**
1047356 -TAAATATATAC
1 TTTTATATATAC
*
1047367 TTTTATATGTAC
1 TTTTATATATAC
*
1047379 GTTTATATATA
1 TTTTATATATA
1047390 AATATTATTT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
10 8 0.15
11 5 0.09
12 32 0.59
13 4 0.07
14 5 0.09
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (12 bp):
TTTTATATATAC
Found at i:1048621 original size:14 final size:15
Alignment explanation
Indices: 1048582--1048621 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
1048572 ATTTAAATTT
*
1048582 TTTTTATTATTTATA
1 TTTTTAATATTTATA
1048597 TTTTTAA-ATTTATA
1 TTTTTAATATTTATA
1048611 -TTTTAATATTT
1 TTTTTAATATTT
1048622 TAACAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.26
14 11 0.48
15 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTAATATTTATA
Found at i:1050069 original size:41 final size:41
Alignment explanation
Indices: 1050015--1050095 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
1050005 TTTAATACTT
1050015 TTTTTTTTTTCGGTAATCACAACTCACTTATTTCTTATTAC
1 TTTTTTTTTTCGGTAATCACAACTCACTTATTTCTTATTAC
1050056 TTTTTTTTTTCGGTAATCACAACTCACTTATTTCTTATTA
1 TTTTTTTTTTCGGTAATCACAACTCACTTATTTCTTATTA
1050096 ATTTGGATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.22, C:0.19, G:0.05, T:0.54
Consensus pattern (41 bp):
TTTTTTTTTTCGGTAATCACAACTCACTTATTTCTTATTAC
Found at i:1053791 original size:16 final size:16
Alignment explanation
Indices: 1053750--1053797 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1053740 TTAAAAATAT
*
1053750 TAATATTTTTTAT-TTT
1 TAAT-TTTTTTATATTA
* *
1053766 TTATTATTTTATATTA
1 TAATTTTTTTATATTA
1053782 TAATTTTTTTATATTA
1 TAATTTTTTTATATTA
1053798 AAAAATTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 7 0.27
16 19 0.73
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TAATTTTTTTATATTA
Found at i:1055875 original size:6 final size:6
Alignment explanation
Indices: 1055861--1055894 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1055851 GCGCCTTTCA
* *
1055861 GATGAT GATGGT GATGGT GATGGT GATGCT GATG
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATG
1055895 AGAGCTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.03, G:0.44, T:0.32
Consensus pattern (6 bp):
GATGGT
Found at i:1065105 original size:14 final size:14
Alignment explanation
Indices: 1065088--1065117 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1065078 TAGTTATTCA
*
1065088 TTTGTGTTGGTAAT
1 TTTGTGTTGATAAT
1065102 TTTGTGTTGATAAT
1 TTTGTGTTGATAAT
1065116 TT
1 TT
1065118 CGGTGCTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (14 bp):
TTTGTGTTGATAAT
Found at i:1065873 original size:12 final size:12
Alignment explanation
Indices: 1065856--1065880 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1065846 ATAATTTTTT
1065856 AAAAATTTAAAA
1 AAAAATTTAAAA
1065868 AAAAATTTAAAA
1 AAAAATTTAAAA
1065880 A
1 A
1065881 TTTATATATA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTTAAAA
Found at i:1068054 original size:2 final size:2
Alignment explanation
Indices: 1068047--1068079 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1068037 TCAAAAGGAT
1068047 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1068080 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1068084 original size:2 final size:2
Alignment explanation
Indices: 1068079--1068103 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1068069 TCTCTCTCTC
1068079 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1068104 TTACATCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1070395 original size:2 final size:2
Alignment explanation
Indices: 1070390--1070418 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1070380 ATCAAGTGTG
1070390 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1070419 TATCTCACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1070562 original size:44 final size:43
Alignment explanation
Indices: 1070499--1070584 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 43
1070489 CATATGACAA
1070499 AAAACCAGTAATAAGCCCAGTAAAATATCATGTAAATCATTAAT
1 AAAACCAGTAATAAGCCCAGTAAAA-ATCATGTAAATCATTAAT
*
1070543 AAAACCATTAATAAGCCCAGTAAAAATCATGTAAATCATTAA
1 AAAACCAGTAATAAGCCCAGTAAAAATCATGTAAATCATTAA
1070585 CAACCCTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 17 0.41
44 24 0.59
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (43 bp):
AAAACCAGTAATAAGCCCAGTAAAAATCATGTAAATCATTAAT
Found at i:1070623 original size:3 final size:3
Alignment explanation
Indices: 1070615--1070652 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1070605 TCCCATCAGA
1070615 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1070653 TAATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:1070657 original size:3 final size:3
Alignment explanation
Indices: 1070651--1070698 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
1070641 CAACAACAAC
1070651 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1070699 CAGAATATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1072372 original size:4 final size:4
Alignment explanation
Indices: 1072363--1072388 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1072353 GGAGTTTTTC
1072363 TTGG TTGG TTGG TTGG TTGG TTGG TT
1 TTGG TTGG TTGG TTGG TTGG TTGG TT
1072389 CCCGGCGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (4 bp):
TTGG
Found at i:1072637 original size:26 final size:25
Alignment explanation
Indices: 1072608--1072667 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
1072598 TGAAAATTTT
*
1072608 TTAATATTTATAAATATTTAATTAAA
1 TTAATATTTATAAAT-TTAAATTAAA
*
1072634 TTAATAATCATATAAATTTAAATTAAA
1 TTAAT-AT-TTATAAATTTAAATTAAA
1072661 TT-ATATT
1 TTAATATT
1072668 AAATAACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 2 0.07
26 7 0.24
27 13 0.45
28 7 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAATATTTATAAATTTAAATTAAA
Found at i:1073438 original size:12 final size:12
Alignment explanation
Indices: 1073401--1073442 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1073391 TTGAGACATG
*
1073401 ATATGAAAAATA
1 ATATAAAAAATA
* *
1073413 AT-TAAAATACA
1 ATATAAAAAATA
1073424 ATATAAAAAATA
1 ATATAAAAAATA
1073436 ATATAAA
1 ATATAAA
1073443 CAAAATACGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (12 bp):
ATATAAAAAATA
Found at i:1073700 original size:23 final size:23
Alignment explanation
Indices: 1073649--1073700 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
1073639 ATAATATTTT
* * *
1073649 AAATAATAAAAAATATGAACAAT
1 AAATAATAAAAAATATAAAAAAC
*
1073672 AAATAATAAACAATATAAAAAAC
1 AAATAATAAAAAATATAAAAAAC
*
1073695 ACATAA
1 AAATAA
1073701 ATTTTCTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.19
Consensus pattern (23 bp):
AAATAATAAAAAATATAAAAAAC
Found at i:1073732 original size:9 final size:9
Alignment explanation
Indices: 1073702--1073743 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
1073692 AACACATAAA
1073702 TTTTCTTTC
1 TTTTCTTTC
*
1073711 TCTTCTTTC
1 TTTTCTTTC
1073720 TTTTCTTT-
1 TTTTCTTTC
1073728 TTTT-TTTC
1 TTTTCTTTC
*
1073736 CTTTCTTT
1 TTTTCTTT
1073744 TCCTTGTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
7 3 0.11
8 7 0.25
9 18 0.64
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:1073874 original size:13 final size:13
Alignment explanation
Indices: 1073858--1073891 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1073848 TTAAATAATT
1073858 AAAAATATAAAAA
1 AAAAATATAAAAA
*
1073871 AAAAAAATAAAAA
1 AAAAATATAAAAA
*
1073884 ATAAATAT
1 AAAAATAT
1073892 CACATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAATATAAAAA
Found at i:1074321 original size:15 final size:15
Alignment explanation
Indices: 1074299--1074342 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1074289 TTTCTTTATC
1074299 TCCTTTCTTTTCTTT
1 TCCTTTCTTTTCTTT
*
1074314 TTCTTTCTTGTT-TTT
1 TCCTTTCTT-TTCTTT
*
1074329 TCCTTTTTTTTCTT
1 TCCTTTCTTTTCTT
1074343 ACTTTCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.77
Consensus pattern (15 bp):
TCCTTTCTTTTCTTT
Found at i:1074488 original size:18 final size:21
Alignment explanation
Indices: 1074460--1074498 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1074450 ATTATATTTA
1074460 AAATATTTTA-T-ATTTATAT
1 AAATATTTTATTAATTTATAT
1074479 AAAT-TTTTATTAATTTATAT
1 AAATATTTTATTAATTTATAT
1074499 TATAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
AAATATTTTATTAATTTATAT
Found at i:1074519 original size:25 final size:25
Alignment explanation
Indices: 1074456--1074523 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
1074446 ATATATTATA
*
1074456 TTTAAAATATTTTATATTTATATAAAT
1 TTTAAAATA-TTTATA-TTATAAAAAT
* *
1074483 TTT-TATTAATTTATATTATAAAAAT
1 TTTAAAAT-ATTTATATTATAAAAAT
1074508 TTTAAAATATTTATAT
1 TTTAAAATATTTATAT
1074524 ATTTATGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 20 0.59
26 10 0.29
27 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTAAAATATTTATATTATAAAAAT
Found at i:1074773 original size:27 final size:28
Alignment explanation
Indices: 1074751--1074805 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
1074741 TTTTTAAGTA
1074751 TTTAT-TATTTTTACTT-AATTTTAAAAT
1 TTTATATATTTTTA-TTAAATTTTAAAAT
1074778 TTTATATATTTTTATTAAATTTTAAAAT
1 TTTATATATTTTTATTAAATTTTAAAAT
1074806 ATAAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTATATATTTTTATTAAATTTTAAAAT
Found at i:1074816 original size:28 final size:28
Alignment explanation
Indices: 1074756--1074816 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
1074746 AAGTATTTAT
**
1074756 TATTTTTACTTAATTTTAAAATTTTATA
1 TATTTTTACTTAATTTTAAAATTAAATA
1074784 TATTTTTA-TTAAATTTTAAAATATAAATA
1 TATTTTTACTT-AATTTTAAAAT-TAAATA
1074813 -ATTT
1 TATTT
1074817 ATAATGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 2 0.07
28 23 0.79
29 4 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
TATTTTTACTTAATTTTAAAATTAAATA
Found at i:1075418 original size:28 final size:30
Alignment explanation
Indices: 1075387--1075442 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
1075377 AATATATTAT
*
1075387 ATGTTTTATTTT-TTAA-TATATTTATATG
1 ATGTGTTATTTTATTAATTATATTTATATG
*
1075415 ATGTGTTATTTTATTAATTTTATTTATA
1 ATGTGTTATTTTATTAATTATATTTATA
1075443 AAACATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
29 4 0.17
30 9 0.38
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (30 bp):
ATGTGTTATTTTATTAATTATATTTATATG
Found at i:1075439 original size:30 final size:28
Alignment explanation
Indices: 1075377--1075442 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 28
1075367 AATATTAAAA
1075377 AATATA-TTATATG-T-T-TTATTTTTT
1 AATATATTTATATGATGTGTTATTTTTT
1075401 AATATATTTATATGATGTGTTATTTTATT
1 AATATATTTATATGATGTGTTATTTT-TT
*
1075430 AATTTTATTTATA
1 AA-TATATTTATA
1075443 AAACATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
24 6 0.17
25 7 0.20
26 1 0.03
27 1 0.03
28 7 0.20
29 4 0.11
30 9 0.26
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (28 bp):
AATATATTTATATGATGTGTTATTTTTT
Found at i:1076759 original size:18 final size:19
Alignment explanation
Indices: 1076722--1076763 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
1076712 TATAATTAAA
1076722 TTAAATAAAATATATAATT
1 TTAAATAAAATATATAATT
* *
1076741 TTAATTAAAA-ATATTATT
1 TTAAATAAAATATATAATT
1076759 TTAAA
1 TTAAA
1076764 CTAAGTGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAAATAAAATATATAATT
Found at i:1081171 original size:22 final size:22
Alignment explanation
Indices: 1081143--1081194 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
1081133 TTGAATTATT
1081143 ATTTTAAT-TTTAGAATATATAA
1 ATTTTAATATTTA-AATATATAA
* *
1081165 ATTTTAATATTTAAATTTTTAA
1 ATTTTAATATTTAAATATATAA
1081187 AGTTTTAA
1 A-TTTTAA
1081195 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
ATTTTAATATTTAAATATATAA
Found at i:1081179 original size:14 final size:15
Alignment explanation
Indices: 1081142--1081196 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
1081132 TTTGAATTAT
*
1081142 TATTTTAATTTTAGAA
1 TATTTAAATTTTA-AA
*
1081158 TATATAAATTTT-AA
1 TATTTAAATTTTAAA
1081172 TATTTAAATTTTTAAA
1 TATTTAAA-TTTTAAA
1081188 GT-TTTAAAT
1 -TATTTAAAT
1081197 AAATAAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 9 0.27
15 5 0.15
16 18 0.55
17 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (15 bp):
TATTTAAATTTTAAA
Found at i:1081706 original size:11 final size:12
Alignment explanation
Indices: 1081673--1081754 Score: 73
Period size: 11 Copynumber: 7.1 Consensus size: 12
1081663 TTATAATTTT
1081673 AAATATAATAT-
1 AAATATAATATA
* * *
1081684 GATTATAAAATAA
1 AAATATAATAT-A
*
1081697 AAATATAATATT
1 AAATATAATATA
1081709 AAA-ATAAT-TA
1 AAATATAATATA
1081719 AAATATAATATA
1 AAATATAATATA
* *
1081731 AAAAATAA-ATT
1 AAATATAATATA
1081742 AAATATAATATA
1 AAATATAATATA
1081754 A
1 A
1081755 TTTACGATTA
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
10 4 0.07
11 27 0.50
12 15 0.28
13 8 0.15
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (12 bp):
AAATATAATATA
Found at i:1081715 original size:24 final size:23
Alignment explanation
Indices: 1081673--1081752 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 23
1081663 TTATAATTTT
* **
1081673 AAATATAATATGATTATAAAATAA
1 AAATATAATATTAAAATAAAAT-A
*
1081697 AAATATAATATTAAAAT-AATTA
1 AAATATAATATTAAAATAAAATA
* *
1081719 AAATATAATA-TAAAAAATAAATT
1 AAATATAATATTAAAATA-AAATA
1081742 AAATATAATAT
1 AAATATAATAT
1081753 AATTTACGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 5 0.11
22 11 0.24
23 16 0.35
24 14 0.30
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (23 bp):
AAATATAATATTAAAATAAAATA
Found at i:1081735 original size:23 final size:24
Alignment explanation
Indices: 1081691--1081754 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 24
1081681 TATGATTATA
* *
1081691 AAATAAAAATATAATAT-TAAAAT
1 AAATTAAAATATAATATAAAAAAT
1081714 -AATTAAAATATAATATAAAAAAT
1 AAATTAAAATATAATATAAAAAAT
1081737 AAATT-AAATATAATATAA
1 AAATTAAAATATAATATAA
1081755 TTTACGATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.41
23 18 0.49
24 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATTAAAATATAATATAAAAAAT
Found at i:1082205 original size:17 final size:17
Alignment explanation
Indices: 1082195--1082237 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 17
1082185 AATTTAATTT
1082195 AAATTTAAATTATATTA
1 AAATTTAAATTATATTA
1082212 AAATTT--ATT-T-TTA
1 AAATTTAAATTATATTA
1082225 AAATTTAAATTAT
1 AAATTTAAATTAT
1082238 TATTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.39
14 1 0.04
15 6 0.26
16 1 0.04
17 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATTTAAATTATATTA
Found at i:1082301 original size:22 final size:19
Alignment explanation
Indices: 1082264--1082304 Score: 55
Period size: 22 Copynumber: 2.0 Consensus size: 19
1082254 TTATTTTAGT
1082264 TAAATTTAATTAAAATAAA
1 TAAATTTAATTAAAATAAA
1082283 TAAATATTAATATAAAAATAAA
1 TAAAT-TTAAT-T-AAAATAAA
1082305 ATTAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 1 0.05
22 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATTTAATTAAAATAAA
Found at i:1087657 original size:16 final size:17
Alignment explanation
Indices: 1087636--1087685 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
1087626 TTACATTATT
1087636 TATTATATTTTTA-AAA
1 TATTATATTTTTATAAA
* *
1087652 TATTAT-TTTATATTAA
1 TATTATATTTTTATAAA
1087668 TATTATATATTTTTATAA
1 TA-T-TATATTTTTATAA
1087686 TTAAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 5 0.19
16 10 0.38
17 1 0.04
18 3 0.12
19 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTATATTTTTATAAA
Found at i:1088290 original size:15 final size:15
Alignment explanation
Indices: 1088272--1088310 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1088262 AATAAATTTT
1088272 TTTATTTTTAATTAA
1 TTTATTTTTAATTAA
*
1088287 TTTATATTTTATTTAA
1 TTTAT-TTTTAATTAA
1088303 TTATATTT
1 TT-TATTT
1088311 AACTGTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 13 0.62
17 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTTTTAATTAA
Found at i:1088363 original size:28 final size:28
Alignment explanation
Indices: 1088326--1088397 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
1088316 TGATTTATAT
*
1088326 TATATATTTATAAATTTAATAAACATAAA
1 TATAAATTTATAAATTTAATAAA-ATAAA
* ** *
1088355 T-TAAATTTATTAATTTTTTAAAATAAT
1 TATAAATTTATAAATTTAATAAAATAAA
1088382 TATAAATTTATTAAAT
1 TATAAATTTA-TAAAT
1088398 ATTATATCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 5 0.14
28 25 0.71
29 5 0.14
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (28 bp):
TATAAATTTATAAATTTAATAAAATAAA
Found at i:1088847 original size:29 final size:26
Alignment explanation
Indices: 1088812--1088874 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
1088802 ATTTTAATAT
*
1088812 TAAAAATTATTTTTATATTTATATTTAAA
1 TAAAAATTATTTTT-T-TAT-TATTTAAA
*
1088841 TAAAAATAATTTTTTTATTATTTAAA
1 TAAAAATTATTTTTTTATTATTTAAA
*
1088867 TAATAATT
1 TAAAAATT
1088875 TATATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 14 0.47
27 2 0.07
28 1 0.03
29 13 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TAAAAATTATTTTTTTATTATTTAAA
Found at i:1089314 original size:23 final size:23
Alignment explanation
Indices: 1089283--1089340 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
1089273 TTTTATTAAA
*
1089283 AATATTATATATTTATAAAATTT
1 AATAATATATATTTATAAAATTT
1089306 AATAATATAT-TTTATAAAATTT
1 AATAATATATATTTATAAAATTT
*
1089328 AAT-ATATTTATTT
1 AATAATATATATTT
1089341 GACATAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 5 0.16
22 18 0.56
23 9 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATAATATATATTTATAAAATTT
Found at i:1089335 original size:19 final size:19
Alignment explanation
Indices: 1089271--1089336 Score: 64
Period size: 19 Copynumber: 3.3 Consensus size: 19
1089261 TTAGTATTGT
1089271 TATTTTATTAAAAATATT-ATA
1 TATTTTA-T-AAAAT-TTAATA
1089292 TA-TTTATAAAATTTAATAATA
1 TATTTTATAAAA-TT--TAATA
1089313 TATTTTATAAAATTTAATA
1 TATTTTATAAAATTTAATA
1089332 TATTT
1 TATTT
1089337 ATTTGACATA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
18 5 0.12
19 12 0.30
20 5 0.12
21 9 0.22
22 9 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTTATAAAATTTAATA
Found at i:1089349 original size:23 final size:22
Alignment explanation
Indices: 1089289--1089350 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
1089279 TAAAAATATT
*
1089289 ATATATTT-ATAAAATTTAATA
1 ATATATTTGACAAAATTTAATA
* *
1089310 ATATATTTTATAAAATTTAATA
1 ATATATTTGACAAAATTTAATA
* *
1089332 TATTTATTTGACATAATTT
1 -ATATATTTGACAAAATTT
1089351 TTATATCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.23
22 13 0.37
23 14 0.40
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATATTTGACAAAATTTAATA
Found at i:1089907 original size:15 final size:17
Alignment explanation
Indices: 1089877--1089911 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
1089867 GTAAATGTTG
1089877 AATATAAATATATATTT
1 AATATAAATATATATTT
1089894 AATAT-AAT-TATATTT
1 AATATAAATATATATTT
1089909 AAT
1 AAT
1089912 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 3 0.17
17 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATATAAATATATATTT
Found at i:1093981 original size:13 final size:13
Alignment explanation
Indices: 1093963--1093988 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1093953 GAAGGGCATT
1093963 TCTGATATCTTAG
1 TCTGATATCTTAG
1093976 TCTGATATCTTAG
1 TCTGATATCTTAG
1093989 GAATCTAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
TCTGATATCTTAG
Found at i:1097542 original size:20 final size:21
Alignment explanation
Indices: 1097502--1097548 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
1097492 TTTATGTTTA
1097502 AAAAATATATTAAATATAAAT
1 AAAAATATATTAAATATAAAT
*
1097523 ATAAAATATTTTAAA-A-AAAT
1 A-AAAATATATTAAATATAAAT
1097543 AAAAAT
1 AAAAAT
1097549 TTTGGATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 5 0.21
21 2 0.08
22 12 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAATATATTAAATATAAAT
Found at i:1100056 original size:9 final size:9
Alignment explanation
Indices: 1100042--1100067 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1100032 TTTAAAATTT
1100042 ATTTATATA
1 ATTTATATA
1100051 ATTTATATA
1 ATTTATATA
1100060 ATTTATAT
1 ATTTATAT
1100068 GAGTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTATATA
Found at i:1100186 original size:12 final size:12
Alignment explanation
Indices: 1100169--1100208 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1100159 TTTTGTAATT
*
1100169 TTTTAAAATTAA
1 TTTTAATATTAA
*
1100181 TTTTAATTTTAA
1 TTTTAATATTAA
*
1100193 TTTTAATATTTA
1 TTTTAATATTAA
1100205 TTTT
1 TTTT
1100209 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTAATATTAA
Found at i:1100470 original size:30 final size:30
Alignment explanation
Indices: 1100434--1100502 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
1100424 ATAATTTATG
** *
1100434 TATTTTATCGTATTATAAAAATATTTAATA
1 TATTTTATAATATCATAAAAATATTTAATA
* *
1100464 TGTTTTATAATATCATAATAATATTTAATA
1 TATTTTATAATATCATAAAAATATTTAATA
1100494 TATTTTATA
1 TATTTTATA
1100503 TTTATATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (30 bp):
TATTTTATAATATCATAAAAATATTTAATA
Found at i:1100503 original size:27 final size:29
Alignment explanation
Indices: 1100447--1100520 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 29
1100437 TTTATCGTAT
* *
1100447 TATAAAAATATTTAATATGTTTTATAATA
1 TATAATAATATTTAATATGATTTATAATA
1100476 TCATAATAATATTTAATAT-ATTT-T-ATA
1 T-ATAATAATATTTAATATGATTTATAATA
* *
1100503 TTTATATAAAATTTAATA
1 TATA-ATAATATTTAATA
1100521 AATTAATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.05
27 16 0.41
28 1 0.03
29 4 0.10
30 16 0.41
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (29 bp):
TATAATAATATTTAATATGATTTATAATA
Found at i:1109130 original size:2 final size:2
Alignment explanation
Indices: 1109123--1109186 Score: 67
Period size: 2 Copynumber: 32.5 Consensus size: 2
1109113 ACTGGTTATT
* * * * *
1109123 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TG T- TT TA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1109164 TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
1109187 TTGTGCATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (2 bp):
TA
Found at i:1110017 original size:18 final size:18
Alignment explanation
Indices: 1109994--1110030 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1109984 CCTAGAAGTG
*
1109994 TAGAAATCTTAGAATGGT
1 TAGAAAGCTTAGAATGGT
1110012 TAGAAAGCTTAGAATGGT
1 TAGAAAGCTTAGAATGGT
1110030 T
1 T
1110031 GTTCCATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.32
Consensus pattern (18 bp):
TAGAAAGCTTAGAATGGT
Found at i:1111099 original size:15 final size:16
Alignment explanation
Indices: 1111079--1111109 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1111069 TATATAAAAA
1111079 ATTAAATATAT-TTTT
1 ATTAAATATATATTTT
1111094 ATTAAATATATATTTT
1 ATTAAATATATATTTT
1111110 TATCCGATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTAAATATATATTTT
Found at i:1115829 original size:19 final size:18
Alignment explanation
Indices: 1115787--1115829 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
1115777 ATTATACGAT
*
1115787 AATTATTTTATAATTTTA
1 AATTTTTTTATAATTTTA
*
1115805 ATATTTTTTTATATTATTTA
1 A-ATTTTTTTATAAT-TTTA
1115825 AATTT
1 AATTT
1115830 ATAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
AATTTTTTTATAATTTTA
Found at i:1116527 original size:2 final size:2
Alignment explanation
Indices: 1116520--1116554 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1116510 ATTATTTTTA
1116520 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1116555 GCAACTAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1120819 original size:18 final size:18
Alignment explanation
Indices: 1120798--1120858 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
1120788 ATTTTTATTA
1120798 TATTTAAATAAAATTTAT
1 TATTTAAATAAAATTTAT
* *
1120816 TATTT--TTATAATTTA-
1 TATTTAAATAAAATTTAT
1120831 T-TTTAAATAAAAATTT-T
1 TATTTAAAT-AAAATTTAT
1120848 TATTTAAATAA
1 TATTTAAATAA
1120859 TTATTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
14 3 0.09
15 1 0.03
16 9 0.26
17 9 0.26
18 12 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTTAAATAAAATTTAT
Found at i:1120859 original size:32 final size:34
Alignment explanation
Indices: 1120792--1120869 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 34
1120782 TTTTATATTT
**
1120792 TTATTATATTTAAATAAAATTTATTATTTTTATAA
1 TTATTAT-TTTAAATAAAATTTATTATTTAAATAA
1120827 -T-TTATTTTAAATAAAAATTT-TTATTTAAATAA
1 TTATTATTTTAAAT-AAAATTTATTATTTAAATAA
1120859 TTATTATTTTA
1 TTATTATTTTA
1120870 TTAAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 17 0.45
33 12 0.32
34 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (34 bp):
TTATTATTTTAAATAAAATTTATTATTTAAATAA
Found at i:1120900 original size:29 final size:28
Alignment explanation
Indices: 1120867--1120946 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 28
1120857 AATTATTATT
* *
1120867 TTATTAAAAAATAAATTAAAATTTAAAAA
1 TTATTAAAAAAT-AATAAAAATATAAAAA
* *
1120896 TTATTTAAATATAATAAAAATATAAAAA
1 TTATTAAAAAATAATAAAAATATAAAAA
1120924 TATATTTAATTAAAATAATAAAA
1 T-TA-TTAA--AAAATAATAAAA
1120947 TTTTTGAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
28 15 0.37
29 12 0.29
30 3 0.07
32 11 0.27
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
TTATTAAAAAATAATAAAAATATAAAAA
Found at i:1120924 original size:28 final size:28
Alignment explanation
Indices: 1120875--1120937 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
1120865 TTTTATTAAA
* *
1120875 AAATAAATTAAAATTTAAAAAT-TATTT
1 AAATAAATAAAAATATAAAAATATATTT
1120902 AAATATAATAAAAATATAAAAATATATTT
1 AAATA-AATAAAAATATAAAAATATATTT
*
1120931 AATTAAA
1 AAATAAA
1120938 ATAATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 5 0.16
28 17 0.55
29 9 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATAAATAAAAATATAAAAATATATTT
Found at i:1121351 original size:8 final size:8
Alignment explanation
Indices: 1121338--1121365 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1121328 TTAAAAATTA
1121338 ATAATTTT
1 ATAATTTT
1121346 ATAATTTT
1 ATAATTTT
1121354 ATAATTTT
1 ATAATTTT
1121362 ATAA
1 ATAA
1121366 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
ATAATTTT
Found at i:1121378 original size:17 final size:18
Alignment explanation
Indices: 1121320--1121379 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 18
1121310 TAATTAATAA
*
1121320 ATAATATTT-TAAAAATTA
1 ATAAT-TTTATAAAAATTT
*
1121338 ATAATTTTAT--AATTTT
1 ATAATTTTATAAAAATTT
1121354 ATAATTTTATAAAAATTT
1 ATAATTTTATAAAAATTT
1121372 A-AATTTTA
1 ATAATTTTA
1121380 AATTTATTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 14 0.39
17 10 0.28
18 12 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATAATTTTATAAAAATTT
Found at i:1121395 original size:25 final size:25
Alignment explanation
Indices: 1121336--1121398 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 25
1121326 TTTTAAAAAT
1121336 TAATAATTTTATAATTTTATAATTTTA
1 TAATAA-TTTA-AATTTTATAATTTTA
*
1121363 TAAAAATTTAAATTTTA-AA-TTTA
1 TAATAATTTAAATTTTATAATTTTA
1121386 TTGAATAATTTAA
1 -T-AATAATTTAA
1121399 GTTTAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
24 3 0.09
25 16 0.50
26 4 0.12
27 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATAATTTAAATTTTATAATTTTA
Found at i:1122923 original size:2 final size:2
Alignment explanation
Indices: 1122916--1122958 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1122906 ACAAAGGTTC
*
1122916 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
1122958 A
1 A
1122959 AAATTAGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1127438 original size:2 final size:2
Alignment explanation
Indices: 1127431--1127460 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1127421 AATGGTTCAA
1127431 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1127461 GGTTTTCTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1127872 original size:20 final size:20
Alignment explanation
Indices: 1127834--1127872 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1127824 ATTAGATTTA
** *
1127834 TCAATAAATTTGTTTATAAC
1 TCAATAAATTAATTCATAAC
1127854 TCAATAAATTAATTCATAA
1 TCAATAAATTAATTCATAA
1127873 TTAACAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (20 bp):
TCAATAAATTAATTCATAAC
Found at i:1129584 original size:2 final size:2
Alignment explanation
Indices: 1129577--1129607 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1129567 GATGAGGGTC
1129577 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1129608 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1137883 original size:14 final size:16
Alignment explanation
Indices: 1137864--1137895 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
1137854 CGTATAAGAT
1137864 ATAATT-TTTAAA-AA
1 ATAATTATTTAAATAA
1137878 ATAATTATTTAAATAA
1 ATAATTATTTAAATAA
1137894 AT
1 AT
1137896 TAAATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTATTTAAATAA
Found at i:1138955 original size:20 final size:21
Alignment explanation
Indices: 1138932--1138970 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1138922 TATATATTTA
*
1138932 AATTGATAT-TTATTTTAATT
1 AATTGATATAATATTTTAATT
*
1138952 AATTTATATAATATTTTAA
1 AATTGATATAATATTTTAA
1138971 AGATATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
AATTGATATAATATTTTAATT
Found at i:1139399 original size:13 final size:13
Alignment explanation
Indices: 1139383--1139423 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
1139373 ATTTTTTTTA
*
1139383 AATATTTATATTT
1 AATATTTATATAT
1139396 AATATTTATATAT
1 AATATTTATATAT
*
1139409 AATATATAATATAT
1 AATAT-TTATATAT
1139423 A
1 A
1139424 TACGAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATATTTATATAT
Found at i:1142680 original size:2 final size:2
Alignment explanation
Indices: 1142675--1142700 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1142665 TGTATTTATG
1142675 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1142701 AGTTGTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1149003 original size:21 final size:19
Alignment explanation
Indices: 1148959--1149006 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
1148949 TGCAAAACAA
1148959 TATTAT-TTTAACAAAATT
1 TATTATATTTAACAAAATT
* *
1148977 TTTTATATTTAACACATTATT
1 TATTATATTTAACA-A-AATT
1148998 TATTATATT
1 TATTATATT
1149007 CAATAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 1 0.04
21 11 0.46
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATATTTAACAAAATT
Found at i:1149385 original size:17 final size:16
Alignment explanation
Indices: 1149354--1149397 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
1149344 AAAAAAAAGT
1149354 TAAAATATATATGATA
1 TAAAATATATATGATA
*
1149370 TAAAATATTTTATGATA
1 TAAAATA-TATATGATA
*
1149387 AAAAATA-ATAT
1 TAAAATATATAT
1149398 AAATATGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 14 0.58
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
TAAAATATATATGATA
Found at i:1149416 original size:19 final size:20
Alignment explanation
Indices: 1149380--1149430 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1149370 TAAAATATTT
1149380 TATGATAAAAAATAATATAAA
1 TATGAT-AAAAATAATATAAA
1149401 TATGATAAAAAT-ATATAAA
1 TATGATAAAAATAATATAAA
*
1149420 TGT-ATAAAAAT
1 TATGATAAAAAT
1149431 TTTATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 6 0.21
21 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
TATGATAAAAATAATATAAA
Found at i:1149888 original size:40 final size:39
Alignment explanation
Indices: 1149812--1149899 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 39
1149802 TACTATTAAT
1149812 ATAATAA-AAATATTTTTATTTAAATTTAATTATAAATA
1 ATAATAATAAATATTTTTATTTAAATTTAATTATAAATA
* * *
1149850 ATAATAATAAATATTTTATTTTTTAATATT-ATTTTAAATA
1 ATAATAATAAATATTTT-TATTTAAAT-TTAATTATAAATA
1149890 ATAAT-ATAAA
1 ATAATAATAAA
1149900 CTTTTAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
38 7 0.16
39 14 0.32
40 21 0.48
41 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (39 bp):
ATAATAATAAATATTTTTATTTAAATTTAATTATAAATA
Found at i:1152952 original size:15 final size:15
Alignment explanation
Indices: 1152929--1152963 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1152919 TAAGTTTGAG
* *
1152929 TATTAAATATGAATA
1 TATTTAATATAAATA
1152944 TATTTAATATAAATA
1 TATTTAATATAAATA
1152959 TATTT
1 TATTT
1152964 TATTTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TATTTAATATAAATA
Found at i:1155399 original size:17 final size:18
Alignment explanation
Indices: 1155368--1155412 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
1155358 ACTTCATTAT
1155368 TATTTTAGATA-A-TTTAA
1 TATTTTA-ATATATTTTAA
1155385 TATTTTAATATATTTTAA
1 TATTTTAATATATTTTAA
*
1155403 -ATATTAATAT
1 TATTTTAATAT
1155413 TAATAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 3 0.12
17 17 0.68
18 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTTTAATATATTTTAA
Found at i:1155517 original size:14 final size:14
Alignment explanation
Indices: 1155498--1155524 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1155488 AATAAGAAAA
1155498 AAATTTATTTATTT
1 AAATTTATTTATTT
1155512 AAATTTATTTATT
1 AAATTTATTTATT
1155525 ATTAATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AAATTTATTTATTT
Found at i:1157756 original size:2 final size:2
Alignment explanation
Indices: 1157749--1157782 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1157739 TCTCCTTTGT
1157749 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1157783 ATTTATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Done.