Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold173
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: 2040036
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 7 of 16
Found at i:824231 original size:19 final size:21
Alignment explanation
Indices: 824190--824231 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
824180 AGGTGTAAAA
* *
824190 AATATTTTTTAAAAATTTTAT
1 AATATTTTTTAAAAATATAAT
824211 AATA-TTTTT-AAAATATAAT
1 AATATTTTTTAAAAATATAAT
824230 AA
1 AA
824232 AATTATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.53
20 5 0.26
21 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTTTTTAAAAATATAAT
Found at i:824245 original size:27 final size:27
Alignment explanation
Indices: 824207--824267 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
824197 TTTAAAAATT
* *
824207 TTATAATATTTTTAA-AATATAATAAAA
1 TTATAA-ATTTTAAATAAAATAATAAAA
*
824234 TTATAAACTTTTAAATAAAATAATATAA
1 TTATAAA-TTTTAAATAAAATAATAAAA
824262 -TATAAA
1 TTATAAA
824268 AAAATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.03
27 18 0.62
28 10 0.34
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
TTATAAATTTTAAATAAAATAATAAAA
Found at i:824255 original size:25 final size:27
Alignment explanation
Indices: 824207--824256 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
824197 TTTAAAAATT
* *
824207 TTATAATATTTTTAAAATATAATAAAA
1 TTATAATACTTTTAAAATAAAATAAAA
824234 TTATAA-ACTTTT-AAATAAAATAA
1 TTATAATACTTTTAAAATAAAATAA
824257 TATAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 5 0.24
27 6 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTATAATACTTTTAAAATAAAATAAAA
Found at i:824416 original size:2 final size:2
Alignment explanation
Indices: 824409--824444 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
824399 AACAAATCTT
824409 TA TA TA TA TA 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 TA TA TA TA TA
824445 ATTCAAAGAT
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):
TA
Found at i:824719 original size:23 final size:23
Alignment explanation
Indices: 824675--824719 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
824665 CTTTTCACAT
*
824675 AAATTTTTTAATTAATTGATAAAA
1 AAATTTTTTAA-TAATTAATAAAA
824699 AAATATTTTTAA-AATTAATAA
1 AAAT-TTTTTAATAATTAATAA
824720 TTATTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 4 0.21
25 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AAATTTTTTAATAATTAATAAAA
Found at i:825017 original size:14 final size:14
Alignment explanation
Indices: 824998--825028 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
824988 AAAGGTAAAG
824998 ATATAATAATTTTA
1 ATATAATAATTTTA
825012 ATATAATAATTTTA
1 ATATAATAATTTTA
825026 ATA
1 ATA
825029 ATTATTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATAATAATTTTA
Found at i:825169 original size:47 final size:46
Alignment explanation
Indices: 825071--825162 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 46
825061 TTTAAAAATT
* *
825071 ATTATTTTATCTTTATATATTTAATTTTTATAAAATAAATTTAAAC
1 ATTATTTTATCTTTATATATTAAATTTTTATAAAATAAATATAAAC
825117 TATTATTTTAT-TATTATATATTAAATTTTTTATAAAATATAATATA
1 -ATTATTTTATCT-TTATATATTAAA-TTTTTATAAAATA-AATATA
825163 TAATTATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
46 1 0.03
47 21 0.52
48 13 0.32
49 5 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.55
Consensus pattern (46 bp):
ATTATTTTATCTTTATATATTAAATTTTTATAAAATAAATATAAAC
Found at i:825539 original size:20 final size:20
Alignment explanation
Indices: 825514--825553 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
825504 TTTTTTATTT
825514 TAAATA-TTATATATTGAATA
1 TAAATATTTATATATT-AATA
825534 TAAATATTTATATATTAATA
1 TAAATATTTATATATTAATA
825554 ATTTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAAATATTTATATATTAATA
Found at i:825598 original size:18 final size:19
Alignment explanation
Indices: 825577--825612 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
825567 ATATTTTGAG
825577 ATATTCATA-TATTTTTTT
1 ATATTCATATTATTTTTTT
*
825595 ATATTTATATTATTTTTT
1 ATATTCATATTATTTTTT
825613 AAAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
ATATTCATATTATTTTTTT
Found at i:825801 original size:19 final size:19
Alignment explanation
Indices: 825760--825802 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
825750 ATTAATTATT
* *
825760 TTTAGTTTTTAAAGATTTT
1 TTTAGTTTTTAAAGATATA
825779 TTTA-TTTTTAAATGATATA
1 TTTAGTTTTTAAA-GATATA
825798 TTTAG
1 TTTAG
825803 AGGGAGTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (19 bp):
TTTAGTTTTTAAAGATATA
Found at i:826828 original size:3 final size:3
Alignment explanation
Indices: 826820--826856 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
826810 CTTGTAGCTT
826820 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
826857 AATTTTGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:827287 original size:5 final size:5
Alignment explanation
Indices: 827277--827309 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
827267 CTTTGATCAG
*
827277 TATAT TATAT TATAT TATA- TATAT CATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
827310 CACATCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:827305 original size:14 final size:15
Alignment explanation
Indices: 827277--827309 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
827267 CTTTGATCAG
*
827277 TATATTATATTATAT
1 TATATTATATCATAT
827292 TATA-TATATCATAT
1 TATATTATATCATAT
827306 TATA
1 TATA
827310 CACATCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTATATCATAT
Found at i:827478 original size:2 final size:2
Alignment explanation
Indices: 827422--827458 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
827412 CACAATCAGT
827422 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 T
827459 GTGTGTGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:829377 original size:19 final size:19
Alignment explanation
Indices: 829353--829390 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
829343 TTTCAAATTA
829353 AGGAGTGATAATATTTTTT
1 AGGAGTGATAATATTTTTT
829372 AGGAGTGATAATATTTTTT
1 AGGAGTGATAATATTTTTT
829391 CCCTCGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (19 bp):
AGGAGTGATAATATTTTTT
Found at i:829714 original size:3 final size:3
Alignment explanation
Indices: 829706--829735 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
829696 CCTCTTCCAC
829706 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
829736 GTTGTTGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:830243 original size:2 final size:2
Alignment explanation
Indices: 830236--830264 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
830226 GAAAGTTGGC
830236 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
830265 GAATAAAGGC
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:830631 original size:3 final size:3
Alignment explanation
Indices: 830623--830654 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
830613 ATATTTTTTC
*
830623 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
830655 GATTCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:831301 original size:18 final size:20
Alignment explanation
Indices: 831278--831322 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
831268 TAATCAAATA
831278 TTAATTTGT-AAA-TAATTT
1 TTAATTTGTAAAATTAATTT
*
831296 TTAATTTTTAAAATTAATTT
1 TTAATTTGTAAAATTAATTT
*
831316 TAAATTT
1 TTAATTT
831323 AAAAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 3 0.13
20 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTAATTTGTAAAATTAATTT
Found at i:831984 original size:2 final size:2
Alignment explanation
Indices: 831977--832006 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
831967 AGTATTAACG
831977 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
832007 GCTTATTTAA
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:832636 original size:22 final size:22
Alignment explanation
Indices: 832609--832651 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
832599 ACGTAAAATA
*
832609 TTTATAAATTTAAAATCTATAT
1 TTTATAAATTTAAAATATATAT
* *
832631 TTTATATATTTTAAATATATA
1 TTTATAAATTTAAAATATATA
832652 ATTATATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTATAAATTTAAAATATATAT
Found at i:835460 original size:92 final size:93
Alignment explanation
Indices: 835348--835531 Score: 282
Period size: 95 Copynumber: 2.0 Consensus size: 93
835338 AAAATAATAG
* *
835348 TTTTTATAAAAGTGATAGTTTTTTAA-GATAGCGAAAGGTTTTT-TTTAAAAATATATTATATAA
1 TTTTTATAAAAGTAATAG-TTTTTAATGATAACGAAAGGTTTTTCTTTAAAAATATATTATATAA
*
835411 AATAATTTAAAGATATAAATATCTTTGTT
65 AAAAATTTAAAGATATAAATATCTTTGTT
* *
835440 TTTTTATAAAAGTAATAGTTTTTAATGATAATGAAAGTTTTTTCCCTTTAAAAATATATTATATA
1 TTTTTATAAAAGTAATAGTTTTTAATGATAACGAAAGGTTTTT--CTTTAAAAATATATTATATA
835505 AAAAAATTTAAAGATATAAATATCTTT
64 AAAAAATTTAAAGATATAAATATCTTT
835532 ATATTTGATT
Statistics
Matches: 83, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
91 7 0.08
92 31 0.37
95 45 0.54
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (93 bp):
TTTTTATAAAAGTAATAGTTTTTAATGATAACGAAAGGTTTTTCTTTAAAAATATATTATATAAA
AAAATTTAAAGATATAAATATCTTTGTT
Found at i:836019 original size:3 final size:3
Alignment explanation
Indices: 836011--836069 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
836001 AACAAAAATG
*
836011 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
836059 ATA ATA ATA AT
1 ATA ATA ATA AT
836070 TTCTTTTGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:836565 original size:18 final size:19
Alignment explanation
Indices: 836544--836582 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
836534 TCAACTTGAA
836544 TTAAATTAAATTTT-AATT
1 TTAAATTAAATTTTAAATT
*
836562 TTAATTTAAATTTTAAATT
1 TTAAATTAAATTTTAAATT
836581 TT
1 TT
836583 TTAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAAATTAAATTTTAAATT
Found at i:836567 original size:12 final size:13
Alignment explanation
Indices: 836549--836582 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
836539 TTGAATTAAA
836549 TTAAATTTTAATT
1 TTAAATTTTAATT
*
836562 TT-AATTTAAATT
1 TTAAATTTTAATT
836574 TTAAATTTT
1 TTAAATTTT
836583 TTAAATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTAAATTTTAATT
Found at i:837876 original size:21 final size:20
Alignment explanation
Indices: 837836--837880 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
837826 ATCCAGAAAC
837836 TATTAAATAGATTTTTTTATA
1 TATTAAATA-ATTTTTTTATA
837857 TATTAAAT-ATTTATTATTATA
1 TATTAAATAATTT-TT-TTATA
837878 TAT
1 TAT
837881 ATTATACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.18
20 2 0.09
21 16 0.73
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTAAATAATTTTTTTATA
Found at i:837899 original size:23 final size:23
Alignment explanation
Indices: 837846--837907 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
837836 TATTAAATAG
* * * **
837846 ATTTTTTTATATATTAAATATTT
1 ATTTTTATATATATTATACATAA
*
837869 ATTATTATATATATTATACATAA
1 ATTTTTATATATATTATACATAA
*
837892 ATTTTTAT-TATTTTAT
1 ATTTTTATATATATTAT
837908 TAATTTTTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTATATATATTATACATAA
Found at i:838006 original size:18 final size:19
Alignment explanation
Indices: 837964--838007 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
837954 TATTCATTAA
837964 CAAAATTTATAGTTAACATG
1 CAAAATTTATA-TTAACATG
* *
837984 TAAAATTTAT-TTTACATG
1 CAAAATTTATATTAACATG
838002 CAAAAT
1 CAAAAT
838008 ATAAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 12 0.57
20 9 0.43
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (19 bp):
CAAAATTTATATTAACATG
Found at i:841241 original size:27 final size:27
Alignment explanation
Indices: 841208--841261 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
841198 TTGTCTTAAC
841208 AATACAATATCTAAAGTAGACATGTAT
1 AATACAATATCTAAAGTAGACATGTAT
841235 AATACAATATCTAAAGTAGACATGTAT
1 AATACAATATCTAAAGTAGACATGTAT
841262 GATAATATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (27 bp):
AATACAATATCTAAAGTAGACATGTAT
Found at i:841314 original size:28 final size:28
Alignment explanation
Indices: 841263--841317 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
841253 GACATGTATG
* * *
841263 ATAATATAGATGAGTTTGTTTTAATAAA
1 ATAATATAGATGAGGTTATCTTAATAAA
841291 ATAATATAGATGAGGTTATCTTAATAA
1 ATAATATAGATGAGGTTATCTTAATAA
841318 GATCTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.40
Consensus pattern (28 bp):
ATAATATAGATGAGGTTATCTTAATAAA
Found at i:844232 original size:23 final size:22
Alignment explanation
Indices: 844206--844249 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
844196 TTATTGAAAT
844206 AAAAAATT-ATTTTAGAAAATGAA
1 AAAAAATTGA-TTT-GAAAATGAA
*
844229 AAAAATTTGATTTGAAAATGA
1 AAAAAATTGATTTGAAAATGA
844250 TTTTGATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 10 0.53
24 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (22 bp):
AAAAAATTGATTTGAAAATGAA
Found at i:847743 original size:22 final size:21
Alignment explanation
Indices: 847718--847759 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
847708 TTATTAAAAA
* *
847718 ATATTTTTATATTAATATTTAT
1 ATATTTTAAAATTAA-ATTTAT
847740 ATATTTTAAAATTAAATTTA
1 ATATTTTAAAATTAAATTTA
847760 AATAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTAAAATTAAATTTAT
Found at i:848187 original size:21 final size:22
Alignment explanation
Indices: 848148--848191 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
848138 ATTTATGTGT
848148 TAAGTAAAAAGTTAAAAAATAA
1 TAAGTAAAAAGTTAAAAAATAA
*
848170 TAAGTAAAAAGTT-TAAAATAA
1 TAAGTAAAAAGTTAAAAAATAA
848191 T
1 T
848192 TGAATCTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (22 bp):
TAAGTAAAAAGTTAAAAAATAA
Found at i:848661 original size:7 final size:7
Alignment explanation
Indices: 848619--848654 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
848609 TCTTTTCATA
848619 TAATTTT
1 TAATTTT
848626 TAATTTT
1 TAATTTT
848633 TAATTTT
1 TAATTTT
*
848640 TAATTAT
1 TAATTTT
*
848647 TAGTTTT
1 TAATTTT
848654 T
1 T
848655 TTATTTTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (7 bp):
TAATTTT
Found at i:849961 original size:14 final size:14
Alignment explanation
Indices: 849942--849968 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
849932 TTAATTATTT
849942 ATGTATATATATAA
1 ATGTATATATATAA
849956 ATGTATATATATA
1 ATGTATATATATA
849969 CACACATATT
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:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATGTATATATATAA
Found at i:850171 original size:2 final size:2
Alignment explanation
Indices: 850164--850190 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
850154 TTGAATTTCT
850164 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 T
850191 GATTATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:851007 original size:24 final size:23
Alignment explanation
Indices: 850967--851028 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
850957 AAAAAAAAAA
* * *
850967 TAAAATAAATTT-TATATATTTT
1 TAAATTAAATTTAAATATATTAT
850989 TATAATTAAATTTAAATATATTAT
1 TA-AATTAAATTTAAATATATTAT
*
851013 TAAATAATAATTTAAA
1 TAAATTA-AATTTAAA
851029 CCTAGTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 2 0.06
23 13 0.39
24 18 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAATTAAATTTAAATATATTAT
Found at i:860344 original size:12 final size:11
Alignment explanation
Indices: 860319--860352 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
860309 ATATATATAG
860319 TATTTATTATTT
1 TATTT-TTATTT
860331 TATTTTTATATT
1 TATTTTTAT-TT
860343 TATTTTTATT
1 TATTTTTATT
860353 GGACTAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:863000 original size:21 final size:24
Alignment explanation
Indices: 862975--863026 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
862965 AATTATTACT
862975 TAATAATAAA-A-TTTAATTATAA
1 TAATAATAAATATTTTAATTATAA
*
862997 -AATATATAAATATTTTTATTATAA
1 TAATA-ATAAATATTTTAATTATAA
863021 TAATAA
1 TAATAA
863027 ATTTGTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.16
22 5 0.20
23 1 0.04
24 11 0.44
25 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATAATAAATATTTTAATTATAA
Found at i:863027 original size:21 final size:21
Alignment explanation
Indices: 862967--863028 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
862957 TAAGTTTAAA
862967 TTATTACT-TAATAATAAA-AT
1 TTATTA-TATAATAATAAATAT
*
862987 TTAATTATAAAATATATAAATAT
1 TT-ATTATATAATA-ATAAATAT
863010 TT-TTATTATAATAATAAAT
1 TTATTA-TATAATAATAAAT
863029 TTGTAATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 3 0.09
21 17 0.49
22 11 0.31
23 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTATTATATAATAATAAATAT
Found at i:863138 original size:13 final size:13
Alignment explanation
Indices: 863120--863144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
863110 TAAAAAACTC
863120 TATTTTTATTTTT
1 TATTTTTATTTTT
863133 TATTTTTATTTT
1 TATTTTTATTTT
863145 ATAAATTATT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TATTTTTATTTTT
Found at i:866916 original size:43 final size:41
Alignment explanation
Indices: 866838--866934 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 41
866828 TCTTCGTAAG
* *
866838 TTGATCTTAAATCGATTAAATCTGCTCCAAATATCTTTTGAAC
1 TTGATCTTGAATCGATTAAATCT-CTCCAAATATCTTTT-AAA
* *
866881 TTGATCTTGAATCGATTAAAT-TCATTTCAACTATCTTTTAAA
1 TTGATCTTGAATCGATTAAATCTC--TCCAAATATCTTTTAAA
866923 TGTGATCTTGAA
1 T-TGATCTTGAA
866935 AATGAGATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.02
42 4 0.09
43 42 0.89
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.42
Consensus pattern (41 bp):
TTGATCTTGAATCGATTAAATCTCTCCAAATATCTTTTAAA
Found at i:867264 original size:15 final size:15
Alignment explanation
Indices: 867234--867262 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
867224 CTTGAACATT
867234 TAAAATTAAACTAAA
1 TAAAATTAAACTAAA
867249 TAAAATTAAA-TAAA
1 TAAAATTAAACTAAA
867263 ATCTATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAATTAAACTAAA
Found at i:871318 original size:21 final size:22
Alignment explanation
Indices: 871258--871318 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
871248 AATTTTAGTA
871258 ATTTT-TAAC-ATTTTGATAAC
1 ATTTTATAACTATTTTGATAAC
* *
871278 ATTTTAT-A-TAATGTTAATAAC
1 ATTTTATAACT-ATTTTGATAAC
871299 -TTTTATAACTATTTTGATAA
1 ATTTTATAACTATTTTGATAA
871319 TCTTGAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
20 12 0.38
21 19 0.59
22 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.51
Consensus pattern (22 bp):
ATTTTATAACTATTTTGATAAC
Found at i:871329 original size:42 final size:39
Alignment explanation
Indices: 871246--871331 Score: 93
Period size: 42 Copynumber: 2.1 Consensus size: 39
871236 CGTTGCGATA
* * **
871246 ATAATTTTAGTAATTTTTAACATTTTGATAACATTTTAT
1 ATAATGTTAATAATTTTTAACATTTTGATAACATTGAAT
871285 ATAATGTTAATAACTTTTATAACTATTTTGATAATC-TTGAAT
1 ATAATGTTAATAA-TTTT-TAAC-ATTTTGATAA-CATTGAAT
871327 ATAAT
1 ATAAT
871332 TTTGAAAGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
39 11 0.28
40 4 0.10
41 4 0.10
42 19 0.49
43 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (39 bp):
ATAATGTTAATAATTTTTAACATTTTGATAACATTGAAT
Found at i:871442 original size:21 final size:21
Alignment explanation
Indices: 871417--871504 Score: 97
Period size: 21 Copynumber: 4.2 Consensus size: 21
871407 TATGACTGTG
*
871417 ATTTTAATAACCTTTAATATA
1 ATTTTAATAACCTTTGATATA
* *
871438 ATTTTGATAA-CTTTTATATA
1 ATTTTAATAACCTTTGATATA
*
871458 ATTTTATTAACCTTTGATAATA
1 ATTTTAATAACCTTTGAT-ATA
** *
871480 ATTCCAATAACTTTTGATATA
1 ATTTTAATAACCTTTGATATA
871501 ATTT
1 ATTT
871505 GGTTAATCTT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
20 17 0.31
21 21 0.38
22 17 0.31
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTTTAATAACCTTTGATATA
Found at i:871445 original size:27 final size:27
Alignment explanation
Indices: 871383--871445 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
871373 TTTGGAAACA
*
871383 AATTATGATTTTAATAATATTTAATAT
1 AATTATGATTTTAATAACATTTAATAT
* * * *
871410 GACTGTGATTTTAATAACCTTTAATAT
1 AATTATGATTTTAATAACATTTAATAT
*
871437 AATTTTGAT
1 AATTATGAT
871446 AACTTTTATA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (27 bp):
AATTATGATTTTAATAACATTTAATAT
Found at i:872566 original size:16 final size:16
Alignment explanation
Indices: 872547--872579 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
872537 AAAAAATTAT
872547 TTTTATTTTAA-TTAAA
1 TTTTA-TTTAAGTTAAA
872563 TTTTATTTAAGTTAAA
1 TTTTATTTAAGTTAAA
872579 T
1 T
872580 ACATCAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTATTTAAGTTAAA
Found at i:873182 original size:12 final size:11
Alignment explanation
Indices: 873157--873190 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
873147 ATATATATCG
873157 TATTTATTATTT
1 TATTT-TTATTT
873169 TATTTTTATATT
1 TATTTTTAT-TT
873181 TATTTTTATT
1 TATTTTTATT
873191 GGACTAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:873570 original size:2 final size:2
Alignment explanation
Indices: 873563--873593 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
873553 GTAAATAAAC
873563 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
873594 GTTTCAGTTG
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:875851 original size:21 final size:24
Alignment explanation
Indices: 875826--875877 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
875816 AATTATTACT
875826 TAATAATAAA-A-TTTAATTATAA
1 TAATAATAAATATTTTAATTATAA
*
875848 -AATATATAAATATTTTTATTATAA
1 TAATA-ATAAATATTTTAATTATAA
875872 TAATAA
1 TAATAA
875878 ATTTGTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.16
22 5 0.20
23 1 0.04
24 11 0.44
25 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATAATAAATATTTTAATTATAA
Found at i:875878 original size:21 final size:21
Alignment explanation
Indices: 875818--875879 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
875808 TAAGTTTAAA
875818 TTATTACT-TAATAATAAA-AT
1 TTATTA-TATAATAATAAATAT
*
875838 TTAATTATAAAATATATAAATAT
1 TT-ATTATATAATA-ATAAATAT
875861 TT-TTATTATAATAATAAAT
1 TTATTA-TATAATAATAAAT
875880 TTGTAATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 3 0.09
21 17 0.49
22 11 0.31
23 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTATTATATAATAATAAATAT
Found at i:883615 original size:22 final size:22
Alignment explanation
Indices: 883590--883637 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
883580 AGAGAATAGT
*
883590 TTAAAGACAACTAAATATTGTC
1 TTAAAGACAAATAAATATTGTC
883612 TT-AAGACAAATAAATATTGTC
1 TTAAAGACAAATAAATATTGTC
883633 TTAAA
1 TTAAA
883638 TTAGTCAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (22 bp):
TTAAAGACAAATAAATATTGTC
Found at i:884577 original size:7 final size:7
Alignment explanation
Indices: 884565--884597 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
884555 AGGAAATAAA
884565 AAAGAAT
1 AAAGAAT
884572 AAAGAAT
1 AAAGAAT
*
884579 AGA-AAT
1 AAAGAAT
884585 AAAGAAT
1 AAAGAAT
884592 AAAGAA
1 AAAGAA
884598 ACAGAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAGAAT
Found at i:884587 original size:13 final size:13
Alignment explanation
Indices: 884557--884592 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
884547 GGAGGGGAAG
884557 GAAATAAA-AA-A
1 GAAATAAAGAATA
884568 G-AATAAAGAATA
1 GAAATAAAGAATA
884580 GAAATAAAGAATA
1 GAAATAAAGAATA
884593 AAGAAACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.27
11 3 0.14
12 2 0.09
13 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
GAAATAAAGAATA
Found at i:884838 original size:21 final size:21
Alignment explanation
Indices: 884812--884888 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
884802 AAAAATTCCA
884812 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
884833 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* * *
884854 AATGTATCGATATA-TTCTACA
1 AATGTATCGATACATTTGTA-G
884875 AATGTATCGATACA
1 AATGTATCGATACA
884889 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:884948 original size:19 final size:19
Alignment explanation
Indices: 884924--884991 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
884914 AATTCAACAG
884924 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
884943 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
884958 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
884975 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
884992 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:884962 original size:32 final size:32
Alignment explanation
Indices: 884926--884988 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
884916 TTCAACAGTT
*
884926 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
884958 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
884989 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:884963 original size:13 final size:13
Alignment explanation
Indices: 884945--884969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
884935 ACATAAGTTT
884945 TGTATCGATACAA
1 TGTATCGATACAA
884958 TGTATCGATACA
1 TGTATCGATACA
884970 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:885068 original size:33 final size:33
Alignment explanation
Indices: 885011--885077 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
885001 GCCAAGGAAA
*** *
885011 TGTATCGATACATTTTTCTGTGTATTGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
885044 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
885077 T
1 T
885078 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:885611 original size:17 final size:17
Alignment explanation
Indices: 885589--885622 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
885579 AATCCTTTAG
885589 CAAAAAAAAAAAAAAAC
1 CAAAAAAAAAAAAAAAC
* *
885606 CAAAAACAAAGAAAAAC
1 CAAAAAAAAAAAAAAAC
885623 ACTATTCCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAC
Found at i:887483 original size:51 final size:54
Alignment explanation
Indices: 887415--887760 Score: 172
Period size: 52 Copynumber: 6.6 Consensus size: 54
887405 GTTGCGTTTC
* * * *
887415 TCAA-TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAC-
1 TCAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
* *
887467 T-AA-TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACA
1 TCAATTTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
* * * *** *
887519 TCAATTTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGAATAC-
1 TCAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTCCAAAAAACA
*** *** * * ** * *
887571 TCCAACCCCGTT-ATTTTCGAGGGGATACTCCAACCCCGGTTTTATCGCTAAAACAC-
1 T-CAATTTC-TTCACAATC--GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
* * ** *
887627 T-AATTT-TTCCACAATCGGGGATACTCCAACCCCGGTTTTATTT--TTAAAACG
1 TCAATTTCTT-CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
* *
887678 CCAATTTTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC-
1 TCAA-TTT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAA-ACA
*
887732 -CAATTT-TTCACAATCGAGGATACTCCAAC
1 TCAATTTCTTCACAATCGGGGATACTCCAAC
887761 CTCGTTATTT
Statistics
Matches: 223, Mismatches: 47, Indels: 48
0.70 0.15 0.15
Matches are distributed among these distances:
50 8 0.04
51 41 0.18
52 85 0.38
53 21 0.09
54 33 0.15
55 25 0.11
56 6 0.03
57 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (54 bp):
TCAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
Found at i:887607 original size:28 final size:27
Alignment explanation
Indices: 887533--887608 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
887523 TTTCTTCACA
887533 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
887560 ATCGGGAATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
887586 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
887609 GTTTTATCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.09
27 22 0.51
28 17 0.40
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:887660 original size:52 final size:51
Alignment explanation
Indices: 887591--887761 Score: 184
Period size: 52 Copynumber: 3.3 Consensus size: 51
887581 TTATTTTCGA
*
887591 GGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATC-CTAAAACACCAATTTTTCCACAATC
** * **
887643 GGGGATACTCCAACCCCGGTTTTATTTTTAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTA-TCCTAAAACACCAATTTTTCC-ACAATC
* * * *
887695 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACCCCGGTTTTA--TCCTAAAACACCAATTTTTCCACAATC
*
887747 GAGGATACTCCAACC
1 GGGGATACTCCAACC
887762 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
51 6 0.06
52 76 0.78
53 12 0.12
54 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:887780 original size:28 final size:28
Alignment explanation
Indices: 887744--887818 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
887734 ATTTTTCACA
* * *
887744 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
887772 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
887800 CGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
887819 TGACTTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:887789 original size:212 final size:211
Alignment explanation
Indices: 887422--887818 Score: 618
Period size: 212 Copynumber: 1.9 Consensus size: 211
887412 TTCTCAATTC
* * *
887422 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
887487 TACTCTAACTCCGATTTTATTTCCAAAAAACATCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACA-CAATTTCTTCACAATCGAGGATACTCCAACCC
* *
887552 CGTTAATCATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATC
130 CGTTAATCATCGGGAATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGTTTTATC
887617 GCTAAAACACTAATTTT
195 GCTAAAACACTAATTTT
* * * *
887634 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACGCCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGG
887699 ATACTCCAACTCCGATTTTATTTCCAAAAATAC-CAATTT-TTCACAATCGAGGATACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAA-ACACAATTTCTTCACAATCGAGGATACTCCAACC
* * *
887762 TCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCC
129 CCGTTA-ATCATCGGGAATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCC
887819 TGACTTTATT
Statistics
Matches: 168, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
211 28 0.17
212 98 0.58
213 40 0.24
214 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (211 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACAATTTCTTCACAATCGAGGATACTCCAACCCC
GTTAATCATCGGGAATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGTTTTATCG
CTAAAACACTAATTTT
Found at i:887894 original size:28 final size:29
Alignment explanation
Indices: 887854--887908 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
887844 TCTCATAATT
887854 GGGGATACTCCAACCCCG-TTATTTTCGA
1 GGGGATACTCCAACCCCGATTATTTTCGA
* *
887882 GGGGATACTCCAATCCCGATTTTTTTC
1 GGGGATACTCCAACCCCGATTATTTTC
887909 TTCTTCTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGATTATTTTCGA
Found at i:887954 original size:83 final size:79
Alignment explanation
Indices: 887774--887980 Score: 220
Period size: 83 Copynumber: 2.6 Consensus size: 79
887764 GTTATTTCAT
* *
887774 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCTGACTTTATTCCCATAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGACTTTATTCCCATAATAT
* * *
887839 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * *
887853 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTCTTCTTC-T
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCTGACTTTATTC--C--CAT
*
887916 GATCATCGATTTCTCACAAC
61 AAT-ATCGATTTCTCACAAC
* * * * *
887936 CGGGGATACTCCAGCCCCGTTATTTTCAAAGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
887981 CGTTATTATC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
79 47 0.44
80 3 0.03
81 1 0.01
82 6 0.06
83 50 0.47
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGACTTTATTCCCATAATAT
CGATTTCTCACAAC
Found at i:901195 original size:59 final size:59
Alignment explanation
Indices: 901040--902169 Score: 1362
Period size: 59 Copynumber: 19.3 Consensus size: 59
901030 TCCGCTTTTT
* * * *
901040 AGTCCTTAAAGAGCAGGAAGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-C
* * *
901101 AATCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCTACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
901160 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* *
901220 CGTCCCCAAAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
901274 AGTCCTCAAAGAGC-GAGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAG-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
901333 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * *
901392 TGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
901453 AGTCCTCAAAGAGCGGGACGCCTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * * *
901512 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
901571 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTGTT-
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CT-TTC
* * * * *
901632 TGCCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
901693 AGTCCTCAAAGAGCGGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
901752 AGTCCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TC
* * *
901807 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACCAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-C
* * * *
901868 AGTCCTCAAAGAGCGGGACACCTTTTCTTTCAAAGCCTACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * * *
901928 -TTCCCCAAAGAGCAGGAC-CC----CGTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TC
* * * *
901982 AGTCCTCAGAGAGCAGGACGCCTTCTCCTTTTAAAGCCCATACAAGTTGGTGGCACTTCC
1 AGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
*
902042 AGTCCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
902097 AGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTC
902152 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
902170 TACACTTTAT
Statistics
Matches: 942, Mismatches: 90, Indels: 80
0.85 0.08 0.07
Matches are distributed among these distances:
53 4 0.00
54 104 0.11
55 130 0.14
56 4 0.00
58 3 0.00
59 291 0.31
60 191 0.20
61 213 0.23
62 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:901877 original size:175 final size:174
Alignment explanation
Indices: 901066--902169 Score: 1464
Period size: 175 Copynumber: 6.3 Consensus size: 174
901056 GAAGCCTTCT
*
901066 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCTT
* * *
901130 TTAAAGCCTACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAG
65 TTAAAGCCCACACAAGTTGGTGGCATCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAG
* * *
901195 CCCACACAAGTTGGTGGCACCTTTCCGTCCCCAAAGAGCAGGACC
130 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
*
901240 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGC-GAGACACCTTTTCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAG-GACGCCTTTTCTT
*
901303 TTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAG
65 TTAAAGCCCACACAAGTTGGTGGCATCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAG
* * * *
901368 CCCACCCAAGTTGGTGGCACC-TTCTGTCCTCAAAGAGCAAGATGCTTTT
130 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C---A
* * * *
901417 TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCGGGACGCCTTTTTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTT
*
901482 TTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAG
65 TTAAAGCCCACACAAGTTGGTGGCATCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAG
* * *
901547 CCCACCCGAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCTTTT
130 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C---A
* * * *
901596 TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTGTTT--GCCCTCAAAGAGCAGGATGCTTTTTC
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCA-CT-TTTCAGTCCTCAAAGAGCAGGACGCCTTTTC
* *
901659 TTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCGGGACGCCTTTCCTTTT
63 TTTT-AAAGCCCACACAAGTTGGTGGCA-TCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT
901724 AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACA
126 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
** *
901772 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTT-TTCTT
* * * *
901837 TTAAAGCCCACACCAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACACCTTTTCTTTCAAA
65 TTAAAGCCCACACAAGTTGGTGGCATCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
* * * *
901902 GCCTACACAAGTTGGTGGCACCTTTC-TTCCCCAAAGAGCAGGACC
129 GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
* ** * *
901947 CCGTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAGAGAGCAGGACGCCTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTT-TTCTT
* * *
902012 TTAAAGCCCATACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGAC-AC----CTTTTAAA
65 TTAAAGCCCACACAAGTTGGTGGCATCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
902071 GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
129 GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
* * *
902117 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
902170 TACACTTTAT
Statistics
Matches: 846, Mismatches: 64, Indels: 44
0.89 0.07 0.05
Matches are distributed among these distances:
169 32 0.04
170 62 0.07
172 19 0.02
173 109 0.13
174 61 0.07
175 220 0.26
176 14 0.02
177 5 0.01
178 23 0.03
179 196 0.23
180 25 0.03
181 80 0.09
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (174 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTT
TAAAGCCCACACAAGTTGGTGGCATCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGC
CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
Found at i:902323 original size:42 final size:43
Alignment explanation
Indices: 902259--902350 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
902249 TGGGACGTAC
* * *
902259 TCTTCT-TTCACTTTGTCCTCAAGAAGCAGGA-CACTTTCCTTT
1 TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACCA-TTTCATTT
* *
902301 TCTTCTCTTC-CTTGGTCTTCAAGGAGCAAGACCTATTTCATTT
1 TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACC-ATTTCATTT
902344 TCTTCTC
1 TCTTCTC
902351 CTTTGTCCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
42 23 0.55
43 18 0.43
44 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.12, T:0.42
Consensus pattern (43 bp):
TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACCATTTCATTT
Found at i:902993 original size:19 final size:19
Alignment explanation
Indices: 902969--903036 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
902959 AATTCAACAG
902969 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
902988 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
903003 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
903020 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
903037 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:903007 original size:32 final size:32
Alignment explanation
Indices: 902971--903033 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
902961 TTCAACAGTT
*
902971 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
903003 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
903034 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:903008 original size:13 final size:13
Alignment explanation
Indices: 902990--903014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
902980 ACATAAGTTT
902990 TGTATCGATACAA
1 TGTATCGATACAA
903003 TGTATCGATACA
1 TGTATCGATACA
903015 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:905145 original size:52 final size:51
Alignment explanation
Indices: 905079--905249 Score: 166
Period size: 52 Copynumber: 3.3 Consensus size: 51
905069 TTATTTTCGA
*
905079 GGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATC-CTAAAACACCAATTTTTCCACAATC
* ** * **
905131 GGGGATACTCCAACCCCAGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATCCT-AAAACACCAATTTTTCC-ACAATC
* * * * *
905183 GGAGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACCCCGGTTTTA--TCCTAAAACACCAATTTTTCCACAATC
*
905235 GAGGATACTCCAACC
1 GGGGATACTCCAACC
905250 TCGTTATTTC
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
51 7 0.08
52 72 0.77
53 9 0.10
54 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:907269 original size:13 final size:13
Alignment explanation
Indices: 907251--907276 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
907241 TACACCAAGT
907251 ATGTATCGATACA
1 ATGTATCGATACA
907264 ATGTATCGATACA
1 ATGTATCGATACA
907277 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:907274 original size:32 final size:33
Alignment explanation
Indices: 907233--907296 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
907223 TAGCCAAACT
* **
907233 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
907265 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
907297 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:909528 original size:21 final size:21
Alignment explanation
Indices: 909495--909539 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
909485 TTGCAAGATG
*
909495 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
909517 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
909537 AAA
1 AAA
909540 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:911362 original size:15 final size:15
Alignment explanation
Indices: 911342--911380 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
911332 TAAAAATGTC
*
911342 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
911357 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
911372 CCAAATGAA
1 CAAAATGAA
911381 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:913462 original size:13 final size:13
Alignment explanation
Indices: 913444--913482 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
913434 ACATTTTTCT
913444 TTGTATCGATACA
1 TTGTATCGATACA
*
913457 TTGTATTGATACA
1 TTGTATCGATACA
913470 TTGTATCGATACA
1 TTGTATCGATACA
913483 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:913646 original size:20 final size:20
Alignment explanation
Indices: 913603--913648 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
913593 AAATCTTTTG
913603 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
913624 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
913644 CAAAA
1 CAAAA
913649 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:916055 original size:13 final size:13
Alignment explanation
Indices: 916037--916062 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
916027 TACACCAAGT
916037 ATGTATCGATACA
1 ATGTATCGATACA
916050 ATGTATCGATACA
1 ATGTATCGATACA
916063 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:916060 original size:32 final size:33
Alignment explanation
Indices: 916019--916082 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
916009 TAGCCAAACT
* **
916019 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
916051 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
916083 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:922972 original size:16 final size:16
Alignment explanation
Indices: 922951--922982 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
922941 AAAAAGTAAC
922951 ATAATTTTTTAAATAA
1 ATAATTTTTTAAATAA
*
922967 ATAATTTTTTTAATAA
1 ATAATTTTTTAAATAA
922983 TTTAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATAATTTTTTAAATAA
Found at i:926981 original size:20 final size:20
Alignment explanation
Indices: 926916--926993 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
926906 TTTTTACTCA
* *
926916 AATGTATCGATACATTTTTT
1 AATGTATCGATACATTCTTC
* ** * *
926936 AATATATTAATACATGT-ATG
1 AATGTATCGATACAT-TCTTC
*
926956 AATGTATCGATATATTCTTC
1 AATGTATCGATACATTCTTC
926976 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
926994 GTCTTTTTAC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:932216 original size:52 final size:52
Alignment explanation
Indices: 932138--932266 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
932128 CAAAATATGA
*
932138 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* * *
932190 AAATTTGCCTGTATGTATCGATACATTTTATAATGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
932242 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
932267 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:932293 original size:13 final size:13
Alignment explanation
Indices: 932275--932299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
932265 CAAAGATCAG
932275 TGTATCGATACAA
1 TGTATCGATACAA
932288 TGTATCGATACA
1 TGTATCGATACA
932300 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:932379 original size:13 final size:13
Alignment explanation
Indices: 932361--932385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
932351 ACAAAAAAAA
932361 TGTATCGATACAT
1 TGTATCGATACAT
932374 TGTATCGATACA
1 TGTATCGATACA
932386 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:934834 original size:18 final size:19
Alignment explanation
Indices: 934798--934836 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
934788 GGGCCACTCT
*
934798 TTTTTTTTATTGATGTTCA
1 TTTTTTTTATTGATATTCA
*
934817 TTTTTTTT-TTGCTATTCA
1 TTTTTTTTATTGATATTCA
934835 TT
1 TT
934837 CCCATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.13, C:0.08, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTTTTTATTGATATTCA
Found at i:944549 original size:11 final size:11
Alignment explanation
Indices: 944533--944592 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
944523 CTTTACACCC
944533 AAAAAAACAAA
1 AAAAAAACAAA
944544 AAAAAAAC-AA
1 AAAAAAACAAA
944554 AAAAAAACAAA
1 AAAAAAACAAA
** *
944565 AAACCAAGAAA
1 AAAAAAACAAA
* *
944576 AAAATAGCAAA
1 AAAAAAACAAA
944587 AAAAAA
1 AAAAAA
944593 GAAAGGGGTC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
10 10 0.25
11 30 0.75
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:945885 original size:28 final size:28
Alignment explanation
Indices: 945804--946639 Score: 1066
Period size: 28 Copynumber: 29.6 Consensus size: 28
945794 GAATGTTCAT
*
945804 CCCTTTCAAAGCCCACAAGTCAGTGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
945832 CTCTTTTCAAAGCCCACGAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
945861 CCCTTTTAAAACCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
**
945889 TTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
945917 CCCTTTCAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
945945 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
945973 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
946001 CTCTTTCAAAGCCCATAAGACAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
**
946029 CATTTTCAAAG-CCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
946056 CTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
946085 CCCTTTCAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
946113 CCCTGTCAAAGCCCACCAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
946141 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
946169 CTCTTTCAAAGCTCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
946197 TCCTTTCAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
946225 CCCTTTCAAAGCCCACCAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
946253 CCCTTTCAAAGTCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
946281 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
946310 TTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 -CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
946339 TCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
946367 CCCTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
946395 CTCTTTCAAAGCCCACGAGTCAGTAGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* ** *
946423 TCCTTTCAAAGCCTGCAAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
946451 CTCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
946479 CTCTTTTTC-AAGCCCACGAGTCAGTGGAA
1 C-C-CTTTCAAAGCCCACAAGTCAGTGGCA
**
946508 CTTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
946536 TCCTTTCAAAGCCTACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
946564 CCTTTTCAAAACCCACAAATCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
946592 CTCTTTTCAAAGCCCACAAG-CTAGTGGTAA
1 C-CCTTTCAAAGCCCACAAGTC-AGTGG-CA
*
946622 CTCTTTTCAAAGCCCACA
1 C-CCTTTCAAAGCCCACA
946640 CGTGTCGGTG
Statistics
Matches: 709, Mismatches: 88, Indels: 20
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.03
28 535 0.75
29 131 0.18
30 23 0.03
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:947270 original size:20 final size:20
Alignment explanation
Indices: 947243--947316 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
947233 TTTACCCAGG
947243 TGTATCGATACATTTTTCAA
1 TGTATCGATACATTTTTCAA
* * * *
947263 TATATCGATACATGTATGAA
1 TGTATCGATACATTTTTCAA
* * *
947283 TGTATCTATATATTCTTCAA
1 TGTATCGATACATTTTTCAA
947303 TGTATCGATACATT
1 TGTATCGATACATT
947317 CTGTCTTTTT
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTTTCAA
Found at i:949863 original size:13 final size:13
Alignment explanation
Indices: 949847--949877 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
949837 CTTTGTGTGA
949847 ATTATTTTATAAC
1 ATTATTTTATAAC
949860 ATTATTTTATAAC
1 ATTATTTTATAAC
949873 ATTAT
1 ATTAT
949878 AAAAATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTATTTTATAAC
Found at i:963922 original size:11 final size:11
Alignment explanation
Indices: 963906--963956 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
963896 TCCTTTACAC
963906 AAAAAAAAACA
1 AAAAAAAAACA
963917 AAAAAAAAACA
1 AAAAAAAAACA
963928 AAAACAAAATGA-A
1 AAAA-AAAA--ACA
963941 AAAAAAAAACA
1 AAAAAAAAACA
963952 AAAAA
1 AAAAA
963957 CCAAGAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
10 1 0.03
11 21 0.58
12 8 0.22
13 5 0.14
14 1 0.03
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:963966 original size:24 final size:23
Alignment explanation
Indices: 963904--963968 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
963894 CATCCTTTAC
*
963904 ACAAAAA-AAAA-CAAAAAAAAA
1 ACAAAAACAAAAGAAAAAAAAAA
963925 ACAAAAACAAAATGAAAAAAAAAA
1 ACAAAAACAAAA-GAAAAAAAAAA
*
963949 ACAAAAA-ACCAAGAAAAAAA
1 ACAAAAACA-AAAGAAAAAAA
963969 TAGCCAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.18
22 4 0.11
23 9 0.24
24 18 0.47
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.02
Consensus pattern (23 bp):
ACAAAAACAAAAGAAAAAAAAAA
Found at i:963978 original size:35 final size:33
Alignment explanation
Indices: 963905--963981 Score: 77
Period size: 32 Copynumber: 2.3 Consensus size: 33
963895 ATCCTTTACA
*
963905 CAAAAAAAAACAAAAAAAAAACAAAAACAAAATG
1 CAAAAAAAAAC-ACAAAAAAACAAAAACAAAATG
* *
963939 -AAAAAAAAAAACAAAAAACCAAGAAA-AAAATAG
1 CAAAAAAAAACACAAAAAAACAA-AAACAAAAT-G
*
963972 CCAAAAAAAA
1 CAAAAAAAAA
963982 GAAAGGGGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
32 15 0.42
33 13 0.36
34 8 0.22
ACGTcount: A:0.82, C:0.12, G:0.04, T:0.03
Consensus pattern (33 bp):
CAAAAAAAAACACAAAAAAACAAAAACAAAATG
Found at i:965269 original size:28 final size:28
Alignment explanation
Indices: 965197--966635 Score: 1066
Period size: 28 Copynumber: 48.6 Consensus size: 28
965187 GAATGTTCAT
965197 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
965225 CTCTTTTCAAAGCCCACGAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
965254 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
965282 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
965310 CCATTTCAAAGCCCACAAGTCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
965338 CTCTTTTCAAAGCCAATAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
965367 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
965395 CCCTTTCAAAACCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
965423 CCCTTTCAAAACCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
965451 CTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
965480 TCCGTTCAAAGCTCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
965508 CCCTTTCAAAGCCCACAAGTCAGTAGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
965536 CTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
965565 TCCTTTGAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
965593 TCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
965621 CCATTTCAAAGCCCACAAGTCAGTGGTAA
1 CCCTTTCAAAGCCCACAAGTCAGTGG-CA
* *
965650 CTCATTTCAAAGCCCACACAAGTCGGTGGCAA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A
**
965682 CCCATTTCAAAGCCCACACAGGTTGGTGGCAA
1 CCC-TTTCAAAGCCCACA-A-GTCAGTGGC-A
* *
965714 CCCATTTCAAAGCCCACAAAAATCGGTGGCAA
1 CCC-TTTCAAAGCCCAC--AAGTCAGTGGC-A
965746 CCCATTTCAAAGCCCACAAGTC-GATGGCA
1 CCC-TTTCAAAGCCCACAAGTCAG-TGGCA
* * *
965775 TCTTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
965803 CCCTTTTAAAGCCCACAAGTCGGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
965831 TCTTTTCAAAGCCCATAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
965859 CCTTTTCAAAGCCTATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
965887 CCCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
965915 CCCTTTTAAAACCCACAAGTCTGGGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
965943 CTCTTTTCGAAGCCTAAAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
965972 TCC-TTCAAAGTCCACATGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
965999 TCCTTTCAAAGTCCACAAGTCGGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
966027 ACTTTTCAAAGCCCACAAATCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
966055 CCC-TTCAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
**
966082 CTCCTTTCAAAGCCCACAAGTTGGTGGCAA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGC-A
* * * ** *
966112 TTCATTTGAAAGCCCACATAAGTTGGTGGTAA
1 -CCCTTTCAAAGCCCAC--AAGTCAGTGG-CA
966144 CCCATTTCAAAGCCCACATAAGTCAGTGGCAA
1 CCC-TTTCAAAGCCCAC--AAGTCAGTGGC-A
* * **
966176 CTCATTTGAAAGCCCACACAAGTTGGTGGCAA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A
* *
966208 CCCATTTCAAAACCCACACAAGTCGGTGGCAA
1 CCC-TTTC-AAAGCC-CACAAGTCAGTGGC-A
* * * **
966240 CTCATTTGAAAACCCACACAAGTTGGTGGCAA
1 C-CCTTT-CAAAGCC-CACAAGTCAGTGGC-A
* **
966272 CCCATTTGAAAGCCCACACAAGTTGGTGGCAA
1 CCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A
**
966304 CCCATTTCAAAGCCCACACAAGTTTGTGGCAA
1 CCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A
* * * **
966336 TTCATTTGAAAGCCCACAAGTTGGTGGCAA
1 -CCCTTTCAAAGCCCACAAGTCAGTGGC-A
* * * ** **
966366 TTCATTTGAAAGCCCACATAAGTTGGTAGTAA
1 -CCCTTTCAAAGCCCAC--AAGTCAGT-GGCA
* **
966398 CCCATTTCAAAGCCTACATAAGTTGGTGGCAA
1 CCC-TTTCAAAGCC--CACAAGTCAGTGGC-A
* * **
966430 CTCATTTGAAAGCCCACACAAGTTGGTGGCAA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A
*
966462 CCCATTTCAAAACCCACACAAGTCAGTGGCAA
1 CCC-TTTC-AAAGCC-CACAAGTCAGTGGC-A
* * **
966494 CTCATTTGAAAGCCCACACAAGTTGGTGGCAA
1 C-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A
**
966526 CCCATTTCAAAGCCCACACAAGTTGGTGGCAA
1 CCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A
**
966558 CCCATTTCAAAGCCCACACGAGTTTGTGGCA
1 CCC-TTTCAAAGCCCACA--AGTCAGTGGCA
*
966589 GCCCATTTCAAAGCCCACAAGTTAGTGGCA
1 -CCC-TTTCAAAGCCCACAAGTCAGTGGCA
**
966619 CTATTTCAAAGCCCACA
1 CCCTTTCAAAGCCCACA
966636 CAAATCGGTG
Statistics
Matches: 1195, Mismatches: 162, Indels: 108
0.82 0.11 0.07
Matches are distributed among these distances:
27 44 0.04
28 482 0.40
29 144 0.12
30 82 0.07
31 24 0.02
32 396 0.33
33 17 0.01
34 6 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:965342 original size:113 final size:113
Alignment explanation
Indices: 965200--966795 Score: 1093
Period size: 113 Copynumber: 13.4 Consensus size: 113
965190 TGTTCATCCC
*
965200 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
965265 CCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCA
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCA
* * * *
965313 TTTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCAATAAGTCAGTGGCACTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
965378 CCCACAAGTCAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCACCC
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCA
* * * *
965426 TTTCAAAACCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCGTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
965491 CTCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTCT
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CA
* * * * *
965540 TTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTGAAAGCCCACAAGTTAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
965604 CCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGTAACTCA
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG-CAC-CA
* * * **
965654 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAGGTTGGTGGCAACCCAT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACA-A-GTCAGTGGC-ACCC-T
* * * *
965719 TTCAAAGCCCACAAAAATCGGTGGCAACCCATTTCAAAGCCCACAAGTC-GATGGCATCT
59 TTCAAAGCCCAC--AAGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTCAG-TGGCACCA
* * * * *
965778 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTT-AAAGCCCACAAGTCGGTGGCATCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * * *
965842 CCCATAAGTTAGTGGCACCTTTTCAAAGCCTATAAGTCAGTGGCACCC
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCA
* * * * * * *
965890 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTT-AAAACCCACAAGTCTGGGGCACTCTTTTCGAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * * * *
965954 GCCTAAAAGTCAGTGGCATCC-TTCAAAGTCCACATGTCAGTGGCATCC-
65 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCA
* * * * *
966002 TTTCAAAGTCCACAAGTCGGTGGCA-ACTTTTCAAAGCCCACAAATCAATGGCACCC-TTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* ** *
966065 CCCATAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTGGTGGCAATTCA
66 CCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGC-A-CCA
* ** * * * *
966116 TTTGAAAGCCCACATAAGTTGGTGGTAACCCATTTCAAAGCCCACATAAGTCAGTGGCAACTCAT
1 TTTCAAAGCCCAC--AAGTCAGTGG-CACTCTTTTCAAAGCCCAC--AAGTCAGTGGC-AC-CCT
* ** * *
966181 TTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACTCA
59 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTC-AAAGCC-CACAAGTCAGTGGC-AC-CA
* * ** * * * **
966244 TTTGAAAACCCACACAAGTTGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTT-CAAAGCC-CACAAGTCAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
** * * * ** *
966309 TTCAAAGCCCACACAAGTTTGTGGCAATTCATTTGAAAGCCCACAAGTTGGTGGCAATTCA
59 TTCAAAG-CC-CACAAGTCAGTGGC-A-CCCTTTCAAAGCCCACAAGTCAGTGGC-A-CCA
* ** ** * * * ** *
966370 TTTGAAAGCCCACATAAGTTGGTAGTAACCCATTTCAAAGCCTACATAAGTTGGTGGCAACTCAT
1 TTTCAAAGCCCAC--AAGTCAGT-GGCACTCTTTTCAAAGCC--CACAAGTCAGTGGC-AC-CCT
* ** *
966435 TTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAACCCACACAAGTCAGTGGCAACTCA
59 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTC-AAAGCC-CACAAGTCAGTGGC-AC-CA
* ** * * **
966498 TTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
** * *
966563 TTCAAAGCCCACACGAGTTTGTGGCAGCCCATTTCAAAGCCCACAAGTTAGTGGCACTA
59 TTCAAAGCCCACA--AGTCAGTGGCA-CCC-TTTCAAAGCCCACAAGTCAGTGGCACCA
* * * * ** * *
966622 TTTCAAAGCCCACACAAATCGGTGGCAATTCATTTGGAAGCCCACATAAGTCGGTGGCAACTCAT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAGCCCAC--AAGTCAGTGGC-AC-CCT
* * * *
966687 TTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAATGCCCATACAAGTCGGTGGCAACCTA
59 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCC--ACAAGTCAGTGGC-ACC-A
* ** * *
966750 TTTCAAAGCTCACACAGGTTGGTGGCAACCCATTTCAAAGCCCACA
1 TTTCAAAGC-C-CACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACA
966796 CAAGTAGGTG
Statistics
Matches: 1238, Mismatches: 170, Indels: 137
0.80 0.11 0.09
Matches are distributed among these distances:
110 21 0.02
111 8 0.01
112 150 0.12
113 314 0.25
114 55 0.04
115 2 0.00
116 33 0.03
117 4 0.00
118 36 0.03
119 2 0.00
120 27 0.02
121 12 0.01
122 29 0.02
123 10 0.01
124 99 0.08
125 32 0.03
126 146 0.12
127 31 0.03
128 206 0.17
129 12 0.01
130 9 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (113 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCA
Found at i:965615 original size:254 final size:259
Alignment explanation
Indices: 965200--966852 Score: 1253
Period size: 284 Copynumber: 6.1 Consensus size: 259
965190 TGTTCATCCC
* * *
965200 TTTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
965264 GCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCACAA
66 GCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAA
* * * * *
965328 GTCAATGGCACTCTTTTCAAAGCCAATAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTG
130 GTTAGTGGCA-TCCTTTCAAAGCCCATAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTG
*
965392 GCACCCTTTCAAAACC-CACAAGTCAGTGGC-ACCCTTTCAAAACCCACAAGTCAGTGGC-ACTC
194 GCACCCTTTCAAAACCACACAAGTCAGTGGCAACCCTTTCAAAACCCACAAGTCGGTGGCAACTC
*
965454 T
259 A
* * * *
965455 TTTCAAAGCCCACAAGTTAGTGGC-ATCC-GTTCAAAGCTCACAAGTCAGTGGCACCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * *
965518 GCCCACAAGTCAGTAGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTGAAAGCCCACAA
66 GCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAA
*
965583 GTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCACAAGTCAGTGG
130 GTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGG
* * * * * *
965647 TAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAGGTTGGTGGC
195 -CAC-CCTTTCAAA-ACCACACAAGTCAGTGGCAACCC-TTTCAAAACCCACA-A-GTCGGTGGC
*
965712 AACCCA
254 AACTCA
* * * *
965718 TTTCAAAGCCCACAAAAATCGGTGGCAACCCATTTCAAAGCCCACAAGTC-GATGGCATCTTTTC
1 TTTCAAAGCCCAC--AAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAG-TGGCACCCTTTC
* * * * * *
965782 AAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCGGTGGCATCTTTTCAAAGCCCAT
63 AAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
* *
965847 AAGTTAGTGGCA-CCTTTTCAAAGCCTATAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTTAG
128 AAGTTAGTGGCATCC-TTTCAAAGCCCATAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAG
* * * * * * * * *
965910 TGGCACCCTTTTAAAACC-CACAAGTCTGGGGC-ACTCTTTTCGAAGCCTAAAAGTCAGTGGC-A
192 TGGCACCCTTTCAAAACCACACAAGTCAGTGGCAAC-CCTTTCAAAACCCACAAGTCGGTGGCAA
965972 -TC-
256 CTCA
* * * * * * * *
965974 CTTCAAAGTCCACATGTCAGTGGC-ATCC-TTTCAAAGTCCACAAGTCGGTGGCAACTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * * *
966037 GCCCACAAATCAATGGCAC-CCTTCAAAGCCCATAAGTCAGTGGCACTCCTTTCAAAGCCCACAA
66 GCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAA
* * * ** *
966101 GTTGGTGGCAATTCATTTGAAAGCCCACATAAGTTGGTGGTAACCCATTTCAAAGCCCACATAAG
130 GTTAGTGGC-A-TCCTTTCAAAG-CC-CATAAGTCAGTGG-CACCCATTTCAAAGCCCAC--AAG
* * * **
966166 TCAGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAACCCACACAAGT
188 TCAGTGGC-AC-CCTTTCAAA-ACCACACAAGTCAGTGGCAACCC-TTTCAAAA-CC-CACAAGT
966231 CGGTGGCAACTCA
247 CGGTGGCAACTCA
* * ** * **
966244 TTTGAAAACCCACACAAGTTGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTT-CAAAGCC-CACAAGTCAGTGGCAACCCATTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
** * * ** * *
966309 TTCAAAGCCCACACAAGTTTGTGGCAATTCATTTGAAAGCCCACAAGTTGGTGGCAATTCATTTG
60 TTCAAAG-CC-CACAAGTCAGTGGC-ACTC-TTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTC
* ** * ** * *
966374 AAAGCCCACATAAGTTGGTAGTAACCCATTTCAAAGCCTACATAAGTTGGTGGCAACTCATTTGA
119 AAAGCCCAC--AAGTTAGT-GGCATCC-TTTCAAAGCC--CATAAGTCAGTGGC-ACCCATTTCA
** * *
966439 AAGCCCACACAAGTTGGTGGCAACCCATTTCAAAACCCACACAAGTCAGTGGCAACTCATTTGAA
177 AAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAA-CCACACAAGTCAGTGGCAAC-CCTTTCAA
* * *
966504 AGCCCACACAAGTTGGTGGCAACCCA
236 A-ACC-CACAAGTCGGTGGCAACTCA
** **
966530 TTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACGAGTTTGTGGCAGCCCAT
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACCCATTTCAAAGCCCACA--AGTCAGTGGCA-CCC-T
* * * * * **
966595 TTCAAAGCCCACAAGTTAGTGGCACTATTTCAAAGCCCACACAAATCGGTGGCAATTCATTTGGA
60 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAA
** * * * * *
966660 AGCCCACATAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAT
121 AGCCCAC--AAGTTAGTGGC-A-TCCTTTCAAAG-CC-CATAAGTCAGTGGC-ACCCATTTCAAA
* * * * **
966725 GCCCATACAAGTCGGTGGCAACCTATTTCAAAGCTCACACAGGTTGGTGGCAACCCATTTCAAAG
179 GCCC--ACAAGTCAGTGGC-ACC-CTTTCAAAAC-CACACAAGTCAGTGGCAACCC-TTTCAAA-
* * *
966790 CCCACACAAGTAGGTGGCAACAT-G
237 ACC-CACAAGTCGGTGGCAAC-TCA
*
966814 TTTCAAAGCCCACGCAAGTC-GATGGCAACCCTTTTCAAA
1 TTTCAAAGCCCA--CAAGTCAG-TGGCAACCCATTTCAAA
966853 TCACCACTTT
Statistics
Matches: 1137, Mismatches: 175, Indels: 143
0.78 0.12 0.10
Matches are distributed among these distances:
251 22 0.02
252 71 0.06
253 6 0.01
254 115 0.10
255 76 0.07
256 31 0.03
257 7 0.01
258 27 0.02
259 11 0.01
260 24 0.02
261 16 0.01
262 27 0.02
263 20 0.02
264 19 0.02
265 20 0.02
266 98 0.09
267 60 0.05
268 1 0.00
269 2 0.00
270 2 0.00
271 4 0.00
272 11 0.01
273 3 0.00
274 7 0.01
275 1 0.00
276 13 0.01
277 2 0.00
278 8 0.01
279 2 0.00
280 10 0.01
281 1 0.00
282 11 0.01
283 31 0.03
284 198 0.17
285 15 0.01
286 158 0.14
287 4 0.00
288 3 0.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (259 bp):
TTTCAAAGCCCACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
GCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
TTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGC
ACCCTTTCAAAACCACACAAGTCAGTGGCAACCCTTTCAAAACCCACAAGTCGGTGGCAACTCA
Found at i:965688 original size:32 final size:30
Alignment explanation
Indices: 965200--966852 Score: 1186
Period size: 32 Copynumber: 55.2 Consensus size: 30
965190 TGTTCATCCC
* *
965200 TTTCAAAGCCCACAAGTCAGTGGC-ACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
*
965229 TTTCAAAGCCCACGAGTCAGTGGC-ACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
*
965257 TTTCAAAGCCCACAAGTCAGTGGC-ACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
965285 TTTCAAAGCCCACAAGTCAGTGGC-A-CCA
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * *
965313 TTTCAAAGCCCACAAGTCAATGGC-ACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * *
965342 TTTCAAAGCCAATAAGTCAGTGGC-ACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
965370 TTTCAAAGCCCACAAGTCAGTGGC-ACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
*
965398 TTTCAAAACCCACAAGTCAGTGGC-ACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * *
965426 TTTCAAAACCCACAAGTCAGTGGC-ACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* *
965455 TTTCAAAGCCCACAAGTTAGTGGC-ATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* *
965483 GTTCAAAGCTCACAAGTCAGTGGC-ACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * *
965511 TTTCAAAGCCCACAAGTCAGTAGC-ACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* *
965540 TTTCAAAGCCCACAAGTTAGTGGC-ATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * *
965568 TTTGAAAGCCCACAAGTTAGTGGC-ATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
965596 TTTCAAAGCCCACAAGTCAGTGGC-A-CCA
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* *
965624 TTTCAAAGCCCACAAGTCAGTGGTAACTCA
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
*
965654 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACCCA
**
965686 TTTCAAAGCCCACACAGGTTGGTGGCAACCCA
1 TTTCAAAGCCCACA-A-GTCAGTGGCAACCCA
* *
965718 TTTCAAAGCCCACAAAAATCGGTGGCAACCCA
1 TTTCAAAGCCCAC--AAGTCAGTGGCAACCCA
* *
965750 TTTCAAAGCCCACAAGTC-GATGGC-A-TCT
1 TTTCAAAGCCCACAAGTCAG-TGGCAACCCA
*
965778 TTTCAAAGCCCACAAGTTAGTGGC-ACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * * *
965806 TTTTAAAGCCCACAAGTCGGTGGC-A-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * *
965834 TTTCAAAGCCCATAAGTTAGTGGC-A-CCT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* *
965862 TTTCAAAGCCTATAAGTCAGTGGC-ACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
*
965890 TTTCAAAGCCCACAAGTTAGTGGC-ACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * * * * *
965918 TTTTAAAACCCACAAGTCTGGGGC-ACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * * *
965947 TTTCGAAGCCTAAAAGTCAGTGGC-ATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * *
965975 -TTCAAAGTCCACATGTCAGTGGC-ATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * *
966002 TTTCAAAGTCCACAAGTCGGTGGCAA--CT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* *
966030 TTTCAAAGCCCACAAATCAATGGC-ACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
*
966058 -TTCAAAGCCCATAAGTCAGTGGC-ACTCC-
1 TTTCAAAGCCCACAAGTCAGTGGCAAC-CCA
** **
966086 TTTCAAAGCCCACAAGTTGGTGGCAATTCA
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* ** *
966116 TTTGAAAGCCCACATAAGTTGGTGGTAACCCA
1 TTTCAAAGCCCAC--AAGTCAGTGGCAACCCA
*
966148 TTTCAAAGCCCACATAAGTCAGTGGCAACTCA
1 TTTCAAAGCCCAC--AAGTCAGTGGCAACCCA
* **
966180 TTTGAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACCCA
* * *
966212 TTTCAAAACCCACACAAGTCGGTGGCAACTCA
1 TTTC-AAAGCC-CACAAGTCAGTGGCAACCCA
* * **
966244 TTTGAAAACCCACACAAGTTGGTGGCAACCCA
1 TTT-CAAAGCC-CACAAGTCAGTGGCAACCCA
* **
966276 TTTGAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACCCA
** **
966308 TTTCAAAGCCCACACAAGTTTGTGGCAATTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACCCA
* ** **
966340 TTTGAAAGCCCACAAGTTGGTGGCAATTCA
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* ** * *
966370 TTTGAAAGCCCACATAAGTTGGTAGTAACCCA
1 TTTCAAAGCCCAC--AAGTCAGTGGCAACCCA
* ** *
966402 TTTCAAAGCCTACATAAGTTGGTGGCAACTCA
1 TTTCAAAGCC--CACAAGTCAGTGGCAACCCA
* **
966434 TTTGAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACCCA
* *
966466 TTTCAAAACCCACACAAGTCAGTGGCAACTCA
1 TTTC-AAAGCC-CACAAGTCAGTGGCAACCCA
* **
966498 TTTGAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACCCA
**
966530 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACCCA
** *
966562 TTTCAAAGCCCACACGAGTTTGTGGCAGCCCA
1 TTTCAAAGCCCACA--AGTCAGTGGCAACCCA
* *
966594 TTTCAAAGCCCACAAGTTAGTGGC-A-CTA
1 TTTCAAAGCCCACAAGTCAGTGGCAACCCA
* * **
966622 TTTCAAAGCCCACACAAATCGGTGGCAATTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACCCA
** * *
966654 TTTGGAAGCCCACATAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCAC--AAGTCAGTGGCAACCCA
* *
966686 TTTGAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCAACCCA
* * *
966718 TTTCAATGCCCATACAAGTCGGTGGCAACCTA
1 TTTCAAAGCCC--ACAAGTCAGTGGCAACCCA
* **
966750 TTTCAAAGCTCACACAGGTTGGTGGCAACCCA
1 TTTCAAAGC-C-CACAAGTCAGTGGCAACCCA
***
966782 TTTCAAAGCCCACACAAGT-AGGTGGCAACATG
1 TTTCAAAG-CC-CACAAGTCA-GTGGCAACCCA
*
966814 TTTCAAAGCCCACGCAAGTC-GATGGCAACCCT
1 TTTCAAAGCCCA--CAAGTCAG-TGGCAACCCA
966846 TTTCAAA
1 TTTCAAA
966853 TCACCACTTT
Statistics
Matches: 1384, Mismatches: 178, Indels: 121
0.82 0.11 0.07
Matches are distributed among these distances:
27 50 0.04
28 466 0.34
29 151 0.11
30 97 0.07
31 23 0.02
32 572 0.41
33 15 0.01
34 10 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (30 bp):
TTTCAAAGCCCACAAGTCAGTGGCAACCCA
Found at i:966971 original size:48 final size:48
Alignment explanation
Indices: 966917--967038 Score: 181
Period size: 48 Copynumber: 2.5 Consensus size: 48
966907 GGCACCTTTA
*
966917 TTAGCTCAATGTCGCTAGCCTTGAATCAGAACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGAACATTGTCCACTTTTCCC
* * * *
966965 TTAGCTCAATGTCGCTGGCCTTTAATCAGCATATTGTCCACTTTTCCT
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGAACATTGTCCACTTTTCCC
* *
967013 TTAGCTCGATGTCGTTGGCCTTGAAT
1 TTAGCTCAATGTCGCTGGCCTTGAAT
967039 TGGCACATTG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTGAATCAGAACATTGTCCACTTTTCCC
Found at i:967473 original size:20 final size:20
Alignment explanation
Indices: 967427--967480 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
967417 TTTTACCCAG
* * *
967427 ATGTATCGATACGTTTTTCA
1 ATGTATCGATACATGTATCA
* *
967447 ATATATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
967467 ATGTATCGATACAT
1 ATGTATCGATACAT
967481 CTAGGTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:980852 original size:20 final size:20
Alignment explanation
Indices: 980827--980865 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
980817 TATCATTTTA
* *
980827 TTAAAAATATTTTTTAATTT
1 TTAAAAATAATTATTAATTT
980847 TTAAAAATAATTATTAATT
1 TTAAAAATAATTATTAATT
980866 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAAAATAATTATTAATTT
Found at i:981078 original size:17 final size:16
Alignment explanation
Indices: 981056--981088 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
981046 ACAAGAACTT
981056 TAATATAAGTTTGTTTC
1 TAATATAAGTTT-TTTC
981073 TAATATAAGTTTTTTC
1 TAATATAAGTTTTTTC
981089 CACAAACACT
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:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (16 bp):
TAATATAAGTTTTTTC
Found at i:982315 original size:20 final size:20
Alignment explanation
Indices: 982290--982343 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
982280 TTTTTTTACA
982290 AAATTA-TATCAAATATTAAT
1 AAATTATTAT-AAATATTAAT
982310 AAATTATTATAAATATT-AT
1 AAATTATTATAAATATTAAT
982329 CAAAATTATTATAAA
1 --AAATTATTATAAA
982344 GTTATATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.06
20 13 0.42
21 16 0.52
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTATTATAAATATTAAT
Found at i:982328 original size:9 final size:10
Alignment explanation
Indices: 982290--982360 Score: 60
Period size: 10 Copynumber: 7.0 Consensus size: 10
982280 TTTTTTTACA
982290 AAATTA-TAT
1 AAATTATTAT
982299 CAAA-TATTAAT
1 -AAATTATT-AT
982310 AAATTATTAT
1 AAATTATTAT
982320 AAA-TATTAT
1 AAATTATTAT
982329 CAAAATTATTAT
1 --AAATTATTAT
982341 AAAGTTA-TAT
1 AAA-TTATTAT
*
982351 AAATAATTAT
1 AAATTATTAT
982361 TAAAACTATT
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
9 10 0.19
10 24 0.46
11 12 0.23
12 6 0.12
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (10 bp):
AAATTATTAT
Found at i:982336 original size:21 final size:20
Alignment explanation
Indices: 982285--982343 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 20
982275 TTTTGTTTTT
982285 TTACAAAATTA-TATCAAATA
1 TTACAAAATTATTAT-AAATA
982305 TTA-ATAAATTATTATAAATA
1 TTACA-AAATTATTATAAATA
982325 TTATCAAAATTATTATAAA
1 TTA-CAAAATTATTATAAA
982344 GTTATATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.03
20 17 0.49
21 16 0.46
22 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TTACAAAATTATTATAAATA
Found at i:982339 original size:32 final size:31
Alignment explanation
Indices: 982296--982370 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 31
982286 TACAAAATTA
982296 TATC-AAATATTAATAAA-TTATTATAAAT-AT
1 TATCAAAATATT-ATAAAGTTA-TATAAATAAT
982326 TATCAAAATTATTATAAAGTTATATAAATAAT
1 TATCAAAA-TATTATAAAGTTATATAAATAAT
*
982358 TATTAAAACTATT
1 TATCAAAA-TATT
982371 TCAAATGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 4 0.10
31 15 0.38
32 20 0.51
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (31 bp):
TATCAAAATATTATAAAGTTATATAAATAAT
Found at i:982523 original size:11 final size:11
Alignment explanation
Indices: 982483--982576 Score: 50
Period size: 11 Copynumber: 9.5 Consensus size: 11
982473 TATTAAAGAT
*
982483 TATCAAAACTA
1 TATCAAAATTA
**
982494 TATCAAAGCT-
1 TATCAAAATTA
*
982504 TACCAAAATTA
1 TATCAAAATTA
982515 TATCAAAATT-
1 TATCAAAATTA
982525 TAT--AAA-TA
1 TATCAAAATTA
982533 TATCACAAA-TA
1 TATCA-AAATTA
982544 T-T----ATTA
1 TATCAAAATTA
*
982550 TATCAAAAAT-
1 TATCAAAATTA
982560 TATCAAAATTA
1 TATCAAAATTA
982571 TATCAA
1 TATCAA
982577 TGATTAAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 24
0.67 0.07 0.25
Matches are distributed among these distances:
5 1 0.02
6 3 0.05
7 2 0.03
8 6 0.09
10 20 0.31
11 32 0.50
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (11 bp):
TATCAAAATTA
Found at i:982561 original size:15 final size:15
Alignment explanation
Indices: 982511--982562 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 15
982501 GCTTACCAAA
*
982511 ATTATATCAAAATTT
1 ATTATATCAAAAATT
982526 ATAAATATATCACAAATATT
1 AT---TATATCA-AAA-ATT
982546 ATTATATCAAAAATT
1 ATTATATCAAAAATT
982561 AT
1 AT
982563 CAAAATTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
15 7 0.23
16 3 0.10
17 7 0.23
18 7 0.23
19 3 0.10
20 4 0.13
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTATATCAAAAATT
Found at i:982571 original size:21 final size:21
Alignment explanation
Indices: 982385--982576 Score: 93
Period size: 21 Copynumber: 9.6 Consensus size: 21
982375 ATGTTACTTC
* *
982385 AAATTATATCAAAGATTTTC-
1 AAATTATATCAAAAATTATCA
*
982405 -AATTATAT-AAAAATTATACT
1 AAATTATATCAAAAATTAT-CA
* * *
982425 AAATT-TTTAAAAAAATTATTA
1 AAATTATAT-CAAAAATTATCA
* **
982446 AAATTATATTAAAGGTTA-CTA
1 AAATTATATCAAAAATTATC-A
* * * *
982467 AAGTCATATTAAAGATTATCA
1 AAATTATATCAAAAATTATCA
* ** *
982488 AAACTATATCAAAGCTTACCA
1 AAATTATATCAAAAATTATCA
*
982509 AAATTATATCAAAATTTAT--
1 AAATTATATCAAAAATTATCA
*
982528 AAA-TATATCACAAA-TAT--
1 AAATTATATCAAAAATTATCA
*
982545 -TATTATATCAAAAATTATCA
1 AAATTATATCAAAAATTATCA
982565 AAATTATATCAA
1 AAATTATATCAA
982577 TGATTAAAAA
Statistics
Matches: 131, Mismatches: 28, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
16 1 0.01
17 13 0.10
18 19 0.15
19 12 0.09
20 2 0.02
21 72 0.55
22 12 0.09
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (21 bp):
AAATTATATCAAAAATTATCA
Found at i:982588 original size:21 final size:21
Alignment explanation
Indices: 982546--982588 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
982536 CACAAATATT
**
982546 ATTATATCAAAAATTATCAAA
1 ATTATATCAAAAATTAAAAAA
**
982567 ATTATATCAATGATTAAAAAA
1 ATTATATCAAAAATTAAAAAA
982588 A
1 A
982589 ATACTAGTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
ATTATATCAAAAATTAAAAAA
Found at i:982663 original size:21 final size:21
Alignment explanation
Indices: 982605--982743 Score: 97
Period size: 21 Copynumber: 6.7 Consensus size: 21
982595 GTATTAAATT
* * *
982605 AAAAGTTATTAAAATCATAT-
1 AAAAATTATCAAAATTATATC
* *
982625 AAAAGATTATC--AACTATATT
1 AAAA-ATTATCAAAATTATATC
*
982645 AAAAATTATCCAAATTATATC
1 AAAAATTATCAAAATTATATC
* *
982666 AAAAGTTATCAGAATTATTATC
1 AAAAATTATCAAAATTA-TATC
* ** *
982688 AAAGATTAAGAAAATTATA-A
1 AAAAATTATCAAAATTATATC
*
982708 AAAAATTATCAAAATTAAATC
1 AAAAATTATCAAAATTATATC
* *
982729 AAAGATTATCGAAAT
1 AAAAATTATCAAAAT
982744 GACAAACATA
Statistics
Matches: 91, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
19 12 0.13
20 23 0.25
21 40 0.44
22 16 0.18
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.32
Consensus pattern (21 bp):
AAAAATTATCAAAATTATATC
Found at i:982685 original size:40 final size:40
Alignment explanation
Indices: 982602--982720 Score: 91
Period size: 40 Copynumber: 2.9 Consensus size: 40
982592 CTAGTATTAA
* * *
982602 ATTAAAAGTTATTAAAATCATATAAAAGATTATCAACTAT
1 ATTAAAAATTATCAAAATCATATAAAAGATTATCAAATAT
* *
982642 ATTAAAAATTATCCAAATTATATCAAAAG-TTATCAGAAT-T
1 ATTAAAAATTATCAAAATCATAT-AAAAGATTATCA-AATAT
** * *
982682 ATTATCAAAGATTAAGAAAATTATA-AAAAAATTATCAAA
1 ATTA--AAA-ATTATCAAAATCATATAAAAGATTATCAAA
982721 ATTAAATCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
40 30 0.47
41 13 0.20
42 9 0.14
43 12 0.19
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.33
Consensus pattern (40 bp):
ATTAAAAATTATCAAAATCATATAAAAGATTATCAAATAT
Found at i:982736 original size:41 final size:43
Alignment explanation
Indices: 982656--982736 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
982646 AAAATTATCC
* * * *
982656 AAATTATATCAAAAGTTATCAGAATTATTATCAAAGATTAAGA
1 AAATTATATAAAAAATTATCAAAATTATAATCAAAGATTAAGA
982699 AAATTATA-AAAAAATTATCAAAATTA-AATCAAAGATTA
1 AAATTATATAAAAAATTATCAAAATTATAATCAAAGATTA
982737 TCGAAATGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 11 0.32
42 15 0.44
43 8 0.24
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (43 bp):
AAATTATATAAAAAATTATCAAAATTATAATCAAAGATTAAGA
Found at i:983058 original size:21 final size:21
Alignment explanation
Indices: 983003--983190 Score: 85
Period size: 21 Copynumber: 8.7 Consensus size: 21
982993 AACTATTATT
*
983003 AAAATTATATAAAAAATTACC
1 AAAATTATATCAAAAATTACC
* *
983024 AAAATTATAACAAAATTTACC
1 AAAATTATATCAAAAATTACC
* *
983045 CAAATTATATCAAAAGTTATCAAAACC
1 AAAATTATATCAAAA---AT---TACC
* *
983072 AAAATTAT-TACAAATATTAAC
1 AAAATTATAT-CAAAAATTACC
* * * **
983093 AAAATCATGT-AAAACTTTATT
1 AAAATTATATCAAAA-ATTACC
* ** *
983114 GAAATTATATCAAATGTTA-T
1 AAAATTATATCAAAAATTACC
* *
983134 AGAAATTATATTAAAGATTACC
1 A-AAATTATATCAAAAATTACC
* *
983156 AAAATTATATAAAAAATTATC
1 AAAATTATATCAAAAATTACC
*
983177 AAAATCATATCAAA
1 AAAATTATATCAAA
983191 TCCTATTAAA
Statistics
Matches: 124, Mismatches: 31, Indels: 24
0.69 0.17 0.13
Matches are distributed among these distances:
20 4 0.03
21 97 0.78
22 5 0.04
24 3 0.02
26 1 0.01
27 14 0.11
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAATTATATCAAAAATTACC
Found at i:983264 original size:104 final size:103
Alignment explanation
Indices: 983116--983309 Score: 248
Period size: 104 Copynumber: 1.9 Consensus size: 103
983106 ACTTTATTGA
* * *
983116 AATTATATCAAATGTTATAGAAATTATATTAAAGATTACCAAAATTATATAAAAAATTATCAAAA
1 AATTATACCAAATGTTATAGAAATTATATTAAAGATTACAAAAATTACATAAAAAATTATCAAAA
**
983181 TCATATCAAATCCTATTAAAATCATACGAAAAGTTACTC
66 TCATAT-AAAAACTATTAAAATCATACGAAAAGTTACTC
* * ** *
983220 AATTATACCAAATGTTACTA-AAATTATATTTAACG-TTAGAAAAATTACATATGAAGTTATCAA
1 AATTATACCAAATGTTA-TAGAAATTATA-TTAAAGATTACAAAAATTACATAAAAAATTATCAA
*
983283 ATTCATATAAAAACTATTAAAATCATA
64 AATCATATAAAAACTATTAAAATCATA
983310 TCAAAGTTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
103 17 0.22
104 53 0.69
105 7 0.09
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.34
Consensus pattern (103 bp):
AATTATACCAAATGTTATAGAAATTATATTAAAGATTACAAAAATTACATAAAAAATTATCAAAA
TCATATAAAAACTATTAAAATCATACGAAAAGTTACTC
Found at i:983519 original size:21 final size:21
Alignment explanation
Indices: 983375--983571 Score: 153
Period size: 21 Copynumber: 9.4 Consensus size: 21
983365 TATAAAAGGC
* * *
983375 TATCAAAACTATATCAAAAAC
1 TATCAAAATTATATTAAAAAT
* **
983396 TATTAAAATTATATTAAAGCT
1 TATCAAAATTATATTAAAAAT
* * * **
983417 TCTTAAAATTATATCAAATGT
1 TATCAAAATTATATTAAAAAT
*
983438 TATCAAAATTATATTAAATAT
1 TATCAAAATTATATTAAAAAT
* * **
983459 TATCAAAATTGTGTTAAATGT
1 TATCAAAATTATATTAAAAAT
* * *
983480 GATCAAAATTACATAAAAAAT
1 TATCAAAATTATATTAAAAAT
* **
983501 TATTAAAATTATATTAAAAGC
1 TATCAAAATTATATTAAAAAT
* *
983522 TA-CCAAATTATATCAAAAAT
1 TATCAAAATTATATTAAAAAT
*
983542 TATCAAAATTATATAAAAAAT
1 TATCAAAATTATATTAAAAAT
983563 ATATCAAAA
1 -TATCAAAA
983572 ATTACAAACT
Statistics
Matches: 137, Mismatches: 37, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
20 15 0.11
21 114 0.83
22 8 0.06
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (21 bp):
TATCAAAATTATATTAAAAAT
Found at i:983551 original size:9 final size:10
Alignment explanation
Indices: 983532--983579 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
983522 TACCAAATTA
983532 TATCAAAAAT
1 TATCAAAAAT
*
983542 TATCAAAATT
1 TATCAAAAAT
*
983552 ATATAAAAAAT
1 -TATCAAAAAT
983563 ATATCAAAAAT
1 -TATCAAAAAT
983574 TA-CAAA
1 TATCAAA
983580 CTGAATTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 4 0.12
10 11 0.33
11 18 0.55
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (10 bp):
TATCAAAAAT
Found at i:983565 original size:11 final size:11
Alignment explanation
Indices: 983530--983573 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
983520 GCTACCAAAT
983530 TATATCAAAAA
1 TATATCAAAAA
*
983541 T-TATCAAAAT
1 TATATCAAAAA
*
983551 TATATAAAAAA
1 TATATCAAAAA
983562 TATATCAAAAA
1 TATATCAAAAA
983573 T
1 T
983574 TACAAACTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (11 bp):
TATATCAAAAA
Done.