Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 71 of 120
Found at i:21314708 original size:40 final size:40
Alignment explanation
Indices: 21314464--21314722 Score: 157
Period size: 40 Copynumber: 6.5 Consensus size: 40
21314454 TGAATAAGTG
* * * ** *
21314464 CTCCTGATAGTACTACGGTGCTCCTGGA-AATACTTTCGTA
1 CTCCTGTTAGCACTACGGTGCT-CTTGATAGCACTTTCGAA
* * * * ** * *
21314504 CTCCTGATAACACTACGGTGCTCCTGACAATACTTTTGTA
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCACTTTCGAA
* * * * * *
21314544 CTCTTGATAGCACTACGGTGCTCCTGACAGTAGTTTC-ATA
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCACTTTCGA-A
* * * * * ** * *
21314584 CTCCTGATAGCACTATGGTGCTCCTAACAGTTCTTTTGTA
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCACTTTCGAA
* * *
21314624 CTCCTATTAGCACTACGGTGCTCTTGATAGTACTTTCGTA
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCACTTTCGAA
21314664 CTCCTGTTAGCACTACGGTGCTCTTGATAGCA-TATTC-AA
1 CTCCTGTTAGCACTACGGTGCTCTTGATAGCACT-TTCGAA
*
21314703 GCTCCTGTTTGCACTACGGT
1 -CTCCTGTTAGCACTACGGT
21314723 ACCCCTAATT
Statistics
Matches: 184, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
39 5 0.03
40 179 0.97
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (40 bp):
CTCCTGTTAGCACTACGGTGCTCTTGATAGCACTTTCGAA
Found at i:21314708 original size:80 final size:79
Alignment explanation
Indices: 21314475--21314722 Score: 214
Period size: 80 Copynumber: 3.1 Consensus size: 79
21314465 TCCTGATAGT
* * * * * *
21314475 ACTACGGTGCTCCTGGA-AATACTTTCGTACTCCTGATAACACTACGGTGCTCCTGACAATACTT
1 ACTACGGTGCTCCT-GACAGTACTTTCATACTCCTGATAGCACTACGGTGCTCCTAACAGT-CTA
** *
21314539 TTGTACTCTTGA-TAGC
64 TTCAACTCCT-ATTAGC
* * *
21314555 ACTACGGTGCTCCTGACAGTAGTTTCATACTCCTGATAGCACTATGGTGCTCCTAACAGTTCTTT
1 ACTACGGTGCTCCTGACAGTACTTTCATACTCCTGATAGCACTACGGTGCTCCTAACAG-TCTAT
**
21314620 TGTACTCCTATTAGC
65 TCAACTCCTATTAGC
* * * * * * *
21314635 ACTACGGTGCTCTTGATAGTACTTTCGTACTCCTGTTAGCACTACGGTGCTCTTGATAG-CATAT
1 ACTACGGTGCTCCTGACAGTACTTTCATACTCCTGATAGCACTACGGTGCTCCTAACAGTC-TAT
* *
21314699 TCAAGCTCCTGTTTGC
65 TCAA-CTCCTATTAGC
21314715 ACTACGGT
1 ACTACGGT
21314723 ACCCCTAATT
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
78 1 0.01
79 7 0.05
80 132 0.94
81 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (79 bp):
ACTACGGTGCTCCTGACAGTACTTTCATACTCCTGATAGCACTACGGTGCTCCTAACAGTCTATT
CAACTCCTATTAGC
Found at i:21314708 original size:120 final size:120
Alignment explanation
Indices: 21314463--21314722 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 120
21314453 TTGAATAAGT
*
21314463 GCTCCTGATAGTACTACGGTGCTCCTGGAAATACTTTCGTACTCCTGATAACACTACGGTGCTCC
1 GCTCCTGATAGCACTACGGTGCTCCT-GAAATACTTTCGTACTCCTGATAACACTACGGTGCTCC
* * *
21314528 TGACAATACTTTTGTACTCTTGATAGCACTACGGTGCTCCTGACAGTAGTTTCATA
65 TGACAATACTTTCGTACTCCTGATAGCACTACGGTGCTCCTGACAGCAGTTTCATA
* * * *
21314584 -CTCCTGATAGCACTATGGTGCTCCT-AACAGTTCTTTTGTACTCCT-ATTAGCACTACGGTGCT
1 GCTCCTGATAGCACTACGGTGCTCCTGAA-A-TACTTTCGTACTCCTGA-TAACACTACGGTGCT
* * * * * *
21314646 CTTGATAGTACTTTCGTACTCCTGTTAGCACTACGGTGCTCTTGATAGCA-TATTCA-A
63 CCTGACAATACTTTCGTACTCCTGATAGCACTACGGTGCTCCTGACAGCAGT-TTCATA
* *
21314703 GCTCCTGTTTGCACTACGGT
1 GCTCCTGATAGCACTACGGT
21314723 ACCCCTAATT
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
118 2 0.02
119 4 0.03
120 111 0.95
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (120 bp):
GCTCCTGATAGCACTACGGTGCTCCTGAAATACTTTCGTACTCCTGATAACACTACGGTGCTCCT
GACAATACTTTCGTACTCCTGATAGCACTACGGTGCTCCTGACAGCAGTTTCATA
Found at i:21315592 original size:3 final size:3
Alignment explanation
Indices: 21315584--21315610 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21315574 TTTGGTCTAT
21315584 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
21315611 ATTTGATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:21324780 original size:29 final size:29
Alignment explanation
Indices: 21324743--21324820 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
21324733 TTTCAGAGTT
21324743 TCACCACAAAAGCTTCCTTTTAAAAGAGA
1 TCACCACAAAAGCTTCCTTTTAAAAGAGA
* *
21324772 TCACCACAAAGGCTTCCTTTTAATAGAGA
1 TCACCACAAAAGCTTCCTTTTAAAAGAGA
**
21324801 TCGTCAC-AAAGACTTCCTTT
1 TCACCACAAAAG-CTTCCTTT
21324821 CAAAGATAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 3 0.07
29 40 0.93
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.28
Consensus pattern (29 bp):
TCACCACAAAAGCTTCCTTTTAAAAGAGA
Found at i:21336495 original size:14 final size:15
Alignment explanation
Indices: 21336470--21336498 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21336460 AAAAAAAGGG
21336470 TCTAGTTGAACCGAA
1 TCTAGTTGAACCGAA
21336485 TCTAG-TGAACCGAA
1 TCTAGTTGAACCGAA
21336499 CCAGCCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (15 bp):
TCTAGTTGAACCGAA
Found at i:21341751 original size:16 final size:16
Alignment explanation
Indices: 21341730--21341764 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
21341720 TTTTATTTTC
21341730 ATAATAAATTTTAAA-A
1 ATAAT-AATTTTAAATA
21341746 ATAATAATTTTAAATA
1 ATAATAATTTTAAATA
21341762 ATA
1 ATA
21341765 TTATTCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATAATTTTAAATA
Found at i:21341817 original size:15 final size:15
Alignment explanation
Indices: 21341783--21341847 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
21341773 GTATTATTGA
21341783 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
21341796 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
21341811 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
21341830 AAATATATTAATAAT
1 AAATATTTTAATAAT
21341845 AAA
1 AAA
21341848 AAAACTTAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
13 4 0.10
14 6 0.15
15 14 0.34
16 2 0.05
17 4 0.10
18 1 0.02
19 10 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:21342323 original size:14 final size:14
Alignment explanation
Indices: 21342304--21342356 Score: 81
Period size: 14 Copynumber: 3.8 Consensus size: 14
21342294 TCAGAAAAGT
21342304 AAATCATTTTCCAG
1 AAATCATTTTCCAG
21342318 AAATCATTTTCCA-
1 AAATCATTTTCCAG
21342331 AAAGTCATTTTCCAG
1 AAA-TCATTTTCCAG
*
21342346 AAGTCATTTTC
1 AAATCATTTTC
21342357 AGTGAAACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
13 3 0.08
14 31 0.86
15 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:21342983 original size:65 final size:65
Alignment explanation
Indices: 21342879--21343005 Score: 227
Period size: 65 Copynumber: 2.0 Consensus size: 65
21342869 AAAACATTTT
* *
21342879 AGCCCGTCATTTAATTTTTTATCTTTTTTAGCTCTTAAACCTGCGTTTTTGTCAAATCATCCCAA
1 AGCCCGTCATTTAATTTTTCATCTTTTTTAGCTCTTAAACCTGCGTTTTTATCAAATCATCCCAA
*
21342944 AGCCCGTCATTTAATTTTTCATCTTTTTTAGCTCTTAAACTTGCGTTTTTATCAAATCATCC
1 AGCCCGTCATTTAATTTTTCATCTTTTTTAGCTCTTAAACCTGCGTTTTTATCAAATCATCC
21343006 AAAAATGGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (65 bp):
AGCCCGTCATTTAATTTTTCATCTTTTTTAGCTCTTAAACCTGCGTTTTTATCAAATCATCCCAA
Found at i:21346183 original size:34 final size:33
Alignment explanation
Indices: 21346109--21346181 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 33
21346099 CAAAATTGCA
*
21346109 TAAATATT-TAAAATTTGAAAAACAAAAAATATT
1 TAAA-ATTGTAAAATTTGAAAAACAAAAAATACT
21346142 TAGAAATTGTAAAATTTGAAAAAACGAAAAAATACT
1 TA-AAATTGTAAAATTTG-AAAAAC-AAAAAATACT
21346178 TAAA
1 TAAA
21346182 TTTTTGTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
33 5 0.14
34 11 0.31
35 8 0.23
36 11 0.31
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (33 bp):
TAAAATTGTAAAATTTGAAAAACAAAAAATACT
Found at i:21364118 original size:9 final size:9
Alignment explanation
Indices: 21364104--21364166 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
21364094 TTATTAGAAA
21364104 TGAGAGACT
1 TGAGAGACT
21364113 TGAGAGACT
1 TGAGAGACT
21364122 TGAGAGGGA-T
1 TGAGA--GACT
* *
21364132 TGATAGAATT
1 TGAGAG-ACT
*
21364142 TGAGAGAAT
1 TGAGAGACT
*
21364151 TGAGAGAGT
1 TGAGAGACT
21364160 TGAGAGA
1 TGAGAGA
21364167 AGGATGTGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 1 0.02
9 32 0.70
10 11 0.24
11 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.37, T:0.24
Consensus pattern (9 bp):
TGAGAGACT
Found at i:21366297 original size:20 final size:20
Alignment explanation
Indices: 21366274--21366312 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21366264 TATATATAAT
*
21366274 TGTTTGAAAATTTAAAAATA
1 TGTTAGAAAATTTAAAAATA
**
21366294 TGTTAGAATTTTTAAAAAT
1 TGTTAGAAAATTTAAAAAT
21366313 TGTAAAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (20 bp):
TGTTAGAAAATTTAAAAATA
Found at i:21366311 original size:28 final size:27
Alignment explanation
Indices: 21366245--21366320 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
21366235 CCTAAAAAAT
* *
21366245 ATTTTTAAATAA-TTATAAATATATATA
1 ATTTTTAAA-AATTTAAAAATATATAGA
* *
21366272 ATTGTTTGAAAATTTAAAAATATGTTAGA
1 ATT-TTTAAAAATTTAAAAATAT-ATAGA
21366301 ATTTTTAAAAATTGTAAAAA
1 ATTTTTAAAAATT-TAAAAA
21366321 ATAATTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 5 0.12
28 23 0.57
29 12 0.30
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (27 bp):
ATTTTTAAAAATTTAAAAATATATAGA
Found at i:21366329 original size:11 final size:10
Alignment explanation
Indices: 21366307--21366451 Score: 89
Period size: 10 Copynumber: 15.5 Consensus size: 10
21366297 TAGAATTTTT
*
21366307 AAAAATTGTA
1 AAAAATTATA
* *
21366317 AAAAATAATT
1 AAAAATTATA
21366327 AAAAATTATA
1 AAAAATTATA
21366337 AAAAATTATA
1 AAAAATTATA
*
21366347 AAAAA--CT-
1 AAAAATTATA
* *
21366354 AGAAATTGT-
1 AAAAATTATA
*
21366363 AAAAATCAT-
1 AAAAATTATA
21366372 AAAAATTAT-
1 AAAAATTATA
21366381 -AAAATTAT-
1 AAAAATTATA
21366389 -AAAATTAT-
1 AAAAATTATA
21366397 -AAAATTAT-
1 AAAAATTATA
21366405 AAAAATTATAA
1 AAAAATTAT-A
*
21366416 AAAAATTGTA
1 AAAAATTATA
* *
21366426 AAAGATTGTA
1 AAAAATTATA
*
21366436 AAAAATAATTA
1 AAAAATTA-TA
21366447 AAAAA
1 AAAAA
21366452 CAAAAAAAAC
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
7 4 0.04
8 25 0.22
9 23 0.21
10 45 0.40
11 15 0.13
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:21366359 original size:17 final size:16
Alignment explanation
Indices: 21366337--21366419 Score: 78
Period size: 17 Copynumber: 4.9 Consensus size: 16
21366327 AAAAATTATA
21366337 AAAAATTATAAAAAACT
1 AAAAATTATAAAAAA-T
* *
21366354 AGAAATTGTAAAAATCAT
1 AAAAATTATAAAAA--AT
*
21366372 AAAAATTAT-AAAATT
1 AAAAATTATAAAAAAT
*
21366387 ATAAAATTATAAAATTAT
1 A-AAAATTATAAAA-AAT
21366405 AAAAATTATAAAAAA
1 AAAAATTATAAAAAA
21366420 ATTGTAAAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
15 2 0.04
16 9 0.17
17 31 0.58
18 10 0.19
19 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:21366428 original size:8 final size:8
Alignment explanation
Indices: 21366323--21366417 Score: 86
Period size: 8 Copynumber: 11.2 Consensus size: 8
21366313 TGTAAAAAAT
21366323 AATTA-AA
1 AATTATAA
21366330 AATTATAAAA
1 AATTAT--AA
21366340 AATTATAA
1 AATTATAA
*
21366348 AA-AACTAGA
1 AATTA-TA-A
*
21366357 AATTGTAAA
1 AATTAT-AA
*
21366366 AATCATAAA
1 AATTAT-AA
21366375 AATTATAA
1 AATTATAA
21366383 AATTATAA
1 AATTATAA
21366391 AATTATAA
1 AATTATAA
21366399 AATTATAAA
1 AATTAT-AA
21366408 AATTATAA
1 AATTATAA
21366416 AA
1 AA
21366418 AAATTGTAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
7 6 0.08
8 34 0.46
9 25 0.34
10 9 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATTATAA
Found at i:21366428 original size:9 final size:9
Alignment explanation
Indices: 21366306--21366418 Score: 110
Period size: 9 Copynumber: 12.7 Consensus size: 9
21366296 TTAGAATTTT
*
21366306 TAAAAATTG
1 TAAAAATTA
*
21366315 TAAAAAATAA
1 T-AAAAATTA
21366325 TTAAAAATTA
1 -TAAAAATTA
21366335 TAAAAAATTA
1 T-AAAAATTA
21366345 TAAAAA--A
1 TAAAAATTA
* *
21366352 CTAGAAATTG
1 -TAAAAATTA
*
21366362 TAAAAATCA
1 TAAAAATTA
21366371 TAAAAATTA
1 TAAAAATTA
21366380 T-AAAATTA
1 TAAAAATTA
21366388 T-AAAATTA
1 TAAAAATTA
21366396 T-AAAATTA
1 TAAAAATTA
21366404 TAAAAATTA
1 TAAAAATTA
21366413 TAAAAA
1 TAAAAA
21366419 AATTGTAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
7 1 0.01
8 29 0.33
9 35 0.40
10 22 0.25
11 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:21367072 original size:17 final size:17
Alignment explanation
Indices: 21367058--21367092 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
21367048 TTTATAATCT
21367058 TCCTATTTTTTTAATAA
1 TCCTATTTTTTTAATAA
*
21367075 TCCTATTTTTTAAATAA
1 TCCTATTTTTTTAATAA
21367092 T
1 T
21367093 TTTGTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (17 bp):
TCCTATTTTTTTAATAA
Found at i:21368133 original size:28 final size:25
Alignment explanation
Indices: 21368079--21368149 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 25
21368069 AAATCATAGT
21368079 TTACTTATGATAATTTA--TTTAAAA
1 TTACTTA-GATAATTTATTTTTAAAA
21368103 TTACTTAGATAATTTATTGTTTAGATAA
1 TTACTTAGATAATTTATT-TTTA-A-AA
*
21368131 TTATTTAGATAAATTTATT
1 TTACTTAGAT-AATTTATT
21368150 AAGAATATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 9 0.22
24 7 0.17
26 4 0.10
27 1 0.03
28 11 0.28
29 8 0.20
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (25 bp):
TTACTTAGATAATTTATTTTTAAAA
Found at i:21368139 original size:12 final size:13
Alignment explanation
Indices: 21368087--21368149 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 13
21368077 GTTTACTTAT
21368087 GATAATTTATTTA
1 GATAATTTATTTA
*
21368100 -A-AA-TTACTTA
1 GATAATTTATTTA
21368110 GATAATTTATTGTTTA
1 GATAATTTA---TTTA
21368126 GATAA-TTATTTA
1 GATAATTTATTTA
21368138 GATAAATTTATT
1 GAT-AATTTATT
21368150 AAGAATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
10 6 0.15
11 3 0.08
12 10 0.25
13 5 0.12
14 5 0.12
15 3 0.08
16 8 0.20
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (13 bp):
GATAATTTATTTA
Found at i:21368175 original size:41 final size:41
Alignment explanation
Indices: 21368130--21368247 Score: 127
Period size: 41 Copynumber: 3.2 Consensus size: 41
21368120 TGTTTAGATA
21368130 ATTATTTAGATAAATTTATTAAGAATATATTAATAACTTAG
1 ATTATTTAGATAAATTTATTAAGAATATATTAATAACTTAG
* *
21368171 ATTATTTAAAT-AATTTA-T-AG----T-TT-AT---TTAT
1 ATTATTTAGATAAATTTATTAAGAATATATTAATAACTTAG
21368200 A-TATTTAGATAAATTTATTAAGAATATATTAATAACTTAG
1 ATTATTTAGATAAATTTATTAAGAATATATTAATAACTTAG
21368240 ATTATTTA
1 ATTATTTA
21368248 AATCATTTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 26
0.67 0.04 0.29
Matches are distributed among these distances:
28 8 0.13
29 10 0.17
30 1 0.02
31 2 0.03
32 2 0.03
33 2 0.03
34 1 0.02
35 1 0.02
36 2 0.03
37 2 0.03
38 2 0.03
39 1 0.02
40 10 0.17
41 16 0.27
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (41 bp):
ATTATTTAGATAAATTTATTAAGAATATATTAATAACTTAG
Found at i:21368194 original size:69 final size:69
Alignment explanation
Indices: 21368102--21368274 Score: 258
Period size: 69 Copynumber: 2.5 Consensus size: 69
21368092 TTTATTTAAA
* * *
21368102 ATTACTTAGATAATTTATTGTTTAGATAAT-TATTTAGATAAATTTATTAAGAATATATTAATAA
1 ATTATTTAAATAATTTATAGTTTA-ATAATATATTTAGATAAATTTATTAAGAATATATTAATAA
21368166 CTTAG
65 CTTAG
* *
21368171 ATTATTTAAATAATTTATAGTTTATTTATATATTTAGATAAATTTATTAAGAATATATTAATAAC
1 ATTATTTAAATAATTTATAGTTTAATAATATATTTAGATAAATTTATTAAGAATATATTAATAAC
21368236 TTAG
66 TTAG
* * *
21368240 ATTATTTAAATCATTTATAGTTTATTTATATATTT
1 ATTATTTAAATAATTTATAGTTTAATAATATATTT
21368275 TTTAGACAAA
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
68 3 0.03
69 94 0.97
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.50
Consensus pattern (69 bp):
ATTATTTAAATAATTTATAGTTTAATAATATATTTAGATAAATTTATTAAGAATATATTAATAAC
TTAG
Found at i:21368240 original size:32 final size:32
Alignment explanation
Indices: 21368135--21368241 Score: 99
Period size: 32 Copynumber: 3.2 Consensus size: 32
21368125 AGATAATTAT
21368135 TTAGATAAATTTATTAAGAATATATTAATAAC
1 TTAGATAAATTTATTAAGAATATATTAATAAC
* * * * * *
21368167 TTAGAT-TATTTAAATAATTTATAGTTTATTTATATAT
1 TTAGATAAATTT-ATTAA--GA-A-TATATTAATA-AC
21368204 TTAGATAAATTTATTAAGAATATATTAATAAC
1 TTAGATAAATTTATTAAGAATATATTAATAAC
21368236 TTAGAT
1 TTAGAT
21368242 TATTTAAATC
Statistics
Matches: 56, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
31 4 0.07
32 17 0.30
33 8 0.14
34 2 0.04
35 2 0.04
36 8 0.14
37 11 0.20
38 4 0.07
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (32 bp):
TTAGATAAATTTATTAAGAATATATTAATAAC
Found at i:21368301 original size:69 final size:69
Alignment explanation
Indices: 21368132--21368274 Score: 277
Period size: 69 Copynumber: 2.1 Consensus size: 69
21368122 TTTAGATAAT
21368132 TATTTAGATAAATTTATTAAGAATATATTAATAACTTAGATTATTTAAATAATTTATAGTTTATT
1 TATTTAGATAAATTTATTAAGAATATATTAATAACTTAGATTATTTAAATAATTTATAGTTTATT
21368197 TATA
66 TATA
*
21368201 TATTTAGATAAATTTATTAAGAATATATTAATAACTTAGATTATTTAAATCATTTATAGTTTATT
1 TATTTAGATAAATTTATTAAGAATATATTAATAACTTAGATTATTTAAATAATTTATAGTTTATT
21368266 TATA
66 TATA
21368270 TATTT
1 TATTT
21368275 TTTAGACAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (69 bp):
TATTTAGATAAATTTATTAAGAATATATTAATAACTTAGATTATTTAAATAATTTATAGTTTATT
TATA
Found at i:21368824 original size:18 final size:18
Alignment explanation
Indices: 21368780--21368825 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
21368770 TGTAATTTGA
* *
21368780 AAATAATATATTTATTAC
1 AAATTATATTTTTATTAC
*
21368798 AAA-TATATTTTTATTTC
1 AAATTATATTTTTATTAC
21368815 AAATTATATTT
1 AAATTATATTT
21368826 GCTTTGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (18 bp):
AAATTATATTTTTATTAC
Found at i:21378190 original size:106 final size:106
Alignment explanation
Indices: 21378018--21378226 Score: 325
Period size: 106 Copynumber: 2.0 Consensus size: 106
21378008 CATAGCATTG
* * *
21378018 AAGAAGACCATATCGTGTAAGATAGTAACTGATGGGTTATGACATCATATGTGAAGAAGTCTATA
1 AAGAAGACCATATCGTGTAAGATAGTAACTGATAGGTTATGACATCATATGTGAAGAAGACCATA
* *
21378083 TCATGTAGGACTATAACTGGTGGGTTATGGCATCATATATA
66 TCATGTAAGACTATAACTGGTGGGTTATGACATCATATATA
21378124 AAGAAGACCATATCGTGTAAGACT-GTAACT-AGTAGGTTATGACATCATATG-GAAAGAAGACC
1 AAGAAGACCATATCGTGTAAGA-TAGTAACTGA-TAGGTTATGACATCATATGTG-AAGAAGACC
21378186 ATATCATGTAAGACTATAACTGGTGGGTTATGACATCATAT
63 ATATCATGTAAGACTATAACTGGTGGGTTATGACATCATAT
21378227 GGGGAAGTTT
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
105 2 0.02
106 92 0.97
107 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (106 bp):
AAGAAGACCATATCGTGTAAGATAGTAACTGATAGGTTATGACATCATATGTGAAGAAGACCATA
TCATGTAAGACTATAACTGGTGGGTTATGACATCATATATA
Found at i:21378228 original size:53 final size:53
Alignment explanation
Indices: 21378018--21378228 Score: 282
Period size: 53 Copynumber: 4.0 Consensus size: 53
21378008 CATAGCATTG
* *
21378018 AAGAAGACCATATCGTGTAAGA-TAGTAACTGATGGGTTATGACATCATATGTG-
1 AAGAAGACCATATCATGTAAGACTA-TAACTGGTGGGTTATGACATCATATG-GA
* * * * **
21378071 AAGAAGTCTATATCATGTAGGACTATAACTGGTGGGTTATGGCATCATATATA
1 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGGA
* * * *
21378124 AAGAAGACCATATCGTGTAAGACTGTAACTAGTAGGTTATGACATCATATGGA
1 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGGA
21378177 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGG
1 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGG
21378229 GGAAGTTTAA
Statistics
Matches: 134, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
53 132 0.99
54 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (53 bp):
AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGGA
Found at i:21378568 original size:29 final size:27
Alignment explanation
Indices: 21378523--21378611 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 27
21378513 ACTTCTGTTT
*
21378523 AAGGAAGCATTTGTGGCAAAACTCTAGA
1 AAGGAAGCCTTTGTGGCAAAACTCT-GA
* * * *
21378551 AAGGCAAGCCTTTTTGGCGAACCTCTTA
1 AAGG-AAGCCTTTGTGGCAAAACTCTGA
*
21378579 AA-GAACGCCTTTGTGGCAAATCTCTGA
1 AAGGAA-GCCTTTGTGGCAAAACTCTGA
21378606 AAGGAA
1 AAGGAA
21378612 ATGTCTTTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
26 2 0.04
27 20 0.41
28 10 0.20
29 17 0.35
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (27 bp):
AAGGAAGCCTTTGTGGCAAAACTCTGA
Found at i:21378624 original size:29 final size:28
Alignment explanation
Indices: 21378550--21378668 Score: 100
Period size: 29 Copynumber: 4.2 Consensus size: 28
21378540 AAAACTCTAG
* * *
21378550 AAAGGCAAGCCTTTTTGGCGAACCTCT-T
1 AAAGGAAAGCCTTTATGGC-AATCTCTGT
* *
21378578 AAA-GAACGCCTTTGTGGCAAATCTCTG-
1 AAAGGAAAGCCTTTATGGC-AATCTCTGT
* *
21378605 AAAGGAAATGTCTTTATGGCGATCTCTGT
1 AAAGGAAA-GCCTTTATGGCAATCTCTGT
* *
21378634 CAAAGGAAAGCCTCTATGGCCATCTCTGT
1 -AAAGGAAAGCCTTTATGGCAATCTCTGT
21378663 AAAGGA
1 AAAGGA
21378669 GTGGCTATAC
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
27 21 0.28
28 19 0.26
29 26 0.35
30 8 0.11
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (28 bp):
AAAGGAAAGCCTTTATGGCAATCTCTGT
Found at i:21381682 original size:3 final size:3
Alignment explanation
Indices: 21381674--21381743 Score: 95
Period size: 3 Copynumber: 23.0 Consensus size: 3
21381664 TGACCCAAAC
* * * *
21381674 TAT TAT TAT TAT TAT CAT TAC TAC TAT TAT TAAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
21381720 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
21381744 CTTTTTTTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
3 58 0.97
4 2 0.03
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:21382603 original size:159 final size:155
Alignment explanation
Indices: 21382332--21382639 Score: 449
Period size: 159 Copynumber: 2.0 Consensus size: 155
21382322 TTTTTTAAAT
21382332 AAAAGAGAAAGTTTAGACTTTTAAAAATAAAAAAATATTTTTAGACATTTTAAAGGAAAGTTTAA
1 AAAAGAGAAAGTTTAGACTTTTAAAAATAAAAAAATATTTTTAGACATTTTAAAGGAAAGTTTAA
* * *
21382397 ATGTTTAAAACAAAGTTTTGATTTTTTTTTTAAATATTTCGAAATAAAAGCTTTAA-TCTTTAAT
66 ATGTTTAAAACAAAGTTTTGA-TTCTTTTTCAAATATTTCGAAATAAAA-CTTTAATTCTTTAAG
21382461 AAAAGTAGTGAATTTTTTAAAAGAAGAA
129 AAAAGTAGTG-ATTTTTTAAAAGAAGAA
* *
21382489 AAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATATATTTTTTAGTCATTTTAAAGGTAAAGT
1 AAAAGAGAAAGTTTAGACTTTTAAAAATAAAAA-A-ATA-TTTTTAGACATTTTAAAGG-AAAGT
* * * * *
21382554 TTAAATTTTTAAAATAAAGTTTTGA-TCTTTTTCAACTATTTCGAAATAAAACTTTAATTTTTTT
62 TTAAATGTTTAAAACAAAGTTTTGATTCTTTTTCAAATATTTCGAAATAAAACTTTAATTCTTTA
21382618 AGAAAAGTAGTGATTTTTTAAA
127 AGAAAAGTAGTGATTTTTTAAA
21382640 GGAAATTTTG
Statistics
Matches: 136, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
157 32 0.24
158 17 0.12
159 41 0.30
160 18 0.13
161 28 0.21
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (155 bp):
AAAAGAGAAAGTTTAGACTTTTAAAAATAAAAAAATATTTTTAGACATTTTAAAGGAAAGTTTAA
ATGTTTAAAACAAAGTTTTGATTCTTTTTCAAATATTTCGAAATAAAACTTTAATTCTTTAAGAA
AAGTAGTGATTTTTTAAAAGAAGAA
Found at i:21384660 original size:23 final size:24
Alignment explanation
Indices: 21384622--21384667 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
21384612 GTTTGAGAGC
*
21384622 TAGATTTTTTAGTATTTGTGCATAT
1 TAGATTTTTTA-TATTCGTGCATAT
21384647 TAGATTTTTT-TATTCGTGCAT
1 TAGATTTTTTATATTCGTGCAT
21384668 TAATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
25 10 0.50
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.57
Consensus pattern (24 bp):
TAGATTTTTTATATTCGTGCATAT
Found at i:21385935 original size:27 final size:26
Alignment explanation
Indices: 21385895--21385964 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 26
21385885 TTTGTTTAAT
21385895 TTTATAATTA-ATGATATTTAAAT-ATAA
1 TTTAT-ATTATATGATATTT--ATGATAA
21385922 TTTATATTATATGA-ATTTATGATAA
1 TTTATATTATATGATATTTATGATAA
*
21385947 -TTAAATTATAATGATATT
1 TTTATATTAT-ATGATATT
21385965 ATATTATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
24 10 0.26
25 8 0.21
26 11 0.29
27 9 0.24
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTATATTATATGATATTTATGATAA
Found at i:21385945 original size:35 final size:35
Alignment explanation
Indices: 21385900--21385968 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
21385890 TTAATTTTAT
* *
21385900 AATTAATGATATTTAAA-TATAATTTATATTATATG
1 AATTAATGATAATTAAATTATAA-TGATATTATATG
*
21385935 AATTTATGATAATTAAATTATAATGATATTATAT
1 AATTAATGATAATTAAATTATAATGATATTATAT
21385969 TATTAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 25 0.83
36 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (35 bp):
AATTAATGATAATTAAATTATAATGATATTATATG
Found at i:21385960 original size:25 final size:23
Alignment explanation
Indices: 21385916--21385976 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
21385906 TGATATTTAA
*
21385916 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
21385940 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
21385965 ATATTATTAAAT
1 ATATAATTAAAT
21385977 AAATCAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:21387290 original size:12 final size:12
Alignment explanation
Indices: 21387273--21387335 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
21387263 ATGTTAGGTA
*
21387273 AGTATTAATATT
1 AGTATTATTATT
* *
21387285 AGTATTAGTAAT
1 AGTATTATTATT
21387297 AGTATTATTATT
1 AGTATTATTATT
*
21387309 ATTATTATTATT
1 AGTATTATTATT
*
21387321 ATTATTATTATT
1 AGTATTATTATT
21387333 AGT
1 AGT
21387336 GGGAATTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (12 bp):
AGTATTATTATT
Found at i:21387307 original size:3 final size:3
Alignment explanation
Indices: 21387275--21387333 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
21387265 GTTAGGTAAG
* * * * *
21387275 TAT TAA TAT TAG TAT TAG TAA TAG TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21387323 TAT TAT TAT TA
1 TAT TAT TAT TA
21387334 GTGGGAATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:21392296 original size:47 final size:48
Alignment explanation
Indices: 21392220--21392337 Score: 132
Period size: 47 Copynumber: 2.5 Consensus size: 48
21392210 TTCTAGTTGG
* * * * ** *
21392220 CCTTTGTGGTGTATTCGGTTTGTTGCCTTTGTTTCATACTCTGGTA-T
1 CCTTTGTGGCGTATTCGGTATGTTACCTTTATGGCATACTCTGATAGT
* *
21392267 CCTTTGTGGCGTATTTGGTATGTTACCTTTATGGCGTACTCTGATAGT
1 CCTTTGTGGCGTATTCGGTATGTTACCTTTATGGCATACTCTGATAGT
*
21392315 -CTTTGTGGCGTATTCAGTATGTT
1 CCTTTGTGGCGTATTCGGTATGTT
21392338 GTCTAGCGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 58 0.98
48 1 0.02
ACGTcount: A:0.12, C:0.16, G:0.25, T:0.47
Consensus pattern (48 bp):
CCTTTGTGGCGTATTCGGTATGTTACCTTTATGGCATACTCTGATAGT
Found at i:21395221 original size:24 final size:24
Alignment explanation
Indices: 21395190--21395243 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
21395180 ATGGAGCATT
21395190 ATCA-AACAATAAAAAAAATTAA-C
1 ATCATAAC-ATAAAAAAAATTAATC
* *
21395213 ATCATAACATTAAATAAATTAATC
1 ATCATAACATAAAAAAAATTAATC
*
21395237 ATAATAA
1 ATCATAA
21395244 AAACCAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (24 bp):
ATCATAACATAAAAAAAATTAATC
Found at i:21398639 original size:46 final size:46
Alignment explanation
Indices: 21398480--21398650 Score: 134
Period size: 46 Copynumber: 3.7 Consensus size: 46
21398470 TTTGATCTTC
* **
21398480 TGCATA-GTTTGCAGACTCAAGAATATAGGAATAGGTTGTGAGCTCT
1 TGCATATG-TTGCAGACTCGAGAATATAGGAATAGGTTCCGAGCTCT
* * * * *
21398526 TGCATATGTTGC-GAACTCGAGAACACAAGAATAGGTTTCGAGCTCC
1 TGCATATGTTGCAG-ACTCGAGAATATAGGAATAGGTTCCGAGCTCT
* * * * * * *
21398572 TACATCTATTACGGAC-CTGAGAATTTAGGTATAGGTTCCGAGCTCT
1 TGCATATGTTGCAGACTC-GAGAATATAGGAATAGGTTCCGAGCTCT
*
21398618 TGCATATGTTGCAGACTTGAGAATACT-GGAATA
1 TGCATATGTTGCAGACTCGAGAATA-TAGGAATA
21398651 TTAAGCCCTA
Statistics
Matches: 93, Mismatches: 26, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
45 2 0.02
46 88 0.95
47 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (46 bp):
TGCATATGTTGCAGACTCGAGAATATAGGAATAGGTTCCGAGCTCT
Found at i:21399493 original size:27 final size:27
Alignment explanation
Indices: 21399439--21399494 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
21399429 TTCATCATAT
* *
21399439 ATATATACACATAACATAGCATTTATC
1 ATATATACACATAACATAGCACTCATC
21399466 ATATATACACATAACATAGCACTCATC
1 ATATATACACATAACATAGCACTCATC
21399493 AT
1 AT
21399495 TAACATGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (27 bp):
ATATATACACATAACATAGCACTCATC
Found at i:21402044 original size:25 final size:25
Alignment explanation
Indices: 21402015--21402079 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
21402005 TATTGTACAT
*
21402015 GTATGCTCATATGAGCTATGAACCG
1 GTATGCTCATATGAGCTATAAACCG
* **
21402040 GTATGCTC-TCACGAGCTATAAATTG
1 GTATGCTCAT-ATGAGCTATAAACCG
*
21402065 GTAAGCTCATATGAG
1 GTATGCTCATATGAG
21402080 TTGAGAATCG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (25 bp):
GTATGCTCATATGAGCTATAAACCG
Found at i:21402113 original size:24 final size:24
Alignment explanation
Indices: 21402085--21402135 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
21402075 ATGAGTTGAG
*
21402085 AATCGGTAAACTTTAACGAGCTAA
1 AATCGGTAAACTCTAACGAGCTAA
* * *
21402109 AATCGGTAAGCTCTCACGAGCTGA
1 AATCGGTAAACTCTAACGAGCTAA
21402133 AAT
1 AAT
21402136 AAAAAATCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (24 bp):
AATCGGTAAACTCTAACGAGCTAA
Found at i:21404117 original size:44 final size:44
Alignment explanation
Indices: 21404068--21404156 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
21404058 ATTCCCATAC
*
21404068 TTAAAGATAAACTCAAATGTATATAACTCAATTTACTTTTCAAA
1 TTAAAGATAAACTCAAATGCATATAACTCAATTTACTTTTCAAA
21404112 TTAAAGATAAACTCAAATGCATATAACTCAATTTACTTTTCAAA
1 TTAAAGATAAACTCAAATGCATATAACTCAATTTACTTTTCAAA
21404156 T
1 T
21404157 GAATAACTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (44 bp):
TTAAAGATAAACTCAAATGCATATAACTCAATTTACTTTTCAAA
Found at i:21408762 original size:19 final size:19
Alignment explanation
Indices: 21408738--21408780 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
21408728 CATGTTCAAA
* *
21408738 ATTTTAATACAATTTAATT
1 ATTTTAATAAAAATTAATT
21408757 ATTTT-ATAAAAATTAATT
1 ATTTTAATAAAAATTAATT
21408775 ATTTTA
1 ATTTTA
21408781 TGAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTAATAAAAATTAATT
Found at i:21408774 original size:18 final size:19
Alignment explanation
Indices: 21408751--21408787 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
21408741 TTAATACAAT
21408751 TTAATTATTTTAT-AAAAA
1 TTAATTATTTTATGAAAAA
21408769 TTAATTATTTTATGAAAAA
1 TTAATTATTTTATGAAAAA
21408788 AATTATATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTAATTATTTTATGAAAAA
Found at i:21408793 original size:17 final size:17
Alignment explanation
Indices: 21408752--21408793 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
21408742 TAATACAATT
21408752 TAATTATTTTATAAAAA
1 TAATTATTTTATAAAAA
21408769 TTAATTATTTTATGAAAAA
1 -TAATTATTTTAT-AAAAA
21408788 -AATTAT
1 TAATTAT
21408794 ATCGAAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.26
18 12 0.52
19 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TAATTATTTTATAAAAA
Found at i:21423183 original size:40 final size:40
Alignment explanation
Indices: 21423121--21424156 Score: 1046
Period size: 40 Copynumber: 26.0 Consensus size: 40
21423111 GCCTTTACGA
* * * * * *
21423121 GTACCGGAGTACTAACAAGGGCACGTATGTGCTTTCAGGA
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * * *
21423161 GTACCAAAGTACAGACAGGGGCACGTATGTGCATTTAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * *
21423201 GTACCGAAGTACAAATAGGGGCACGTATGTTCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * * * * * *
21423241 GTACTGAAGTACAAATAAGGGCACATATGTGAATTTAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* *
21423281 GTATCGAAGTACAAACAGGGGGACGTGTGTGCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* *
21423321 GTGCCGAAGTACAAACAGGGGCACTTGTGTGCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
*
21423361 GTACCGAAGTATAAACAGGGGCACGTGTGTGCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * *
21423401 GTACCGAAGTACAAACAGGGGAACTTGTGTTCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
*
21423441 GTACCGAAGTACAAACAAGGGCACGTGTGTGCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * * *
21423481 GTACTGAAGTACAAATAGGGGCACGTCTGTGCATTCAAGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * * *
21423521 GTACCGAAGTAAAAACAAGGGCAAGTGTGTGCATTTAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * * * *
21423561 GTA-CTAAGTACAAACAAGGGCACGTAG-GTGAATTTAGAG
1 GTACCGAAGTACAAACAGGGGCACGT-GTGTGCATTCAGGG
* * * *
21423600 GTATCGAAGTACAAATAAGGGG-ACATGTGTGCATTTAGGG
1 GTACCGAAGTACAAA-CAGGGGCACGTGTGTGCATTCAGGG
* * * * *
21423640 TTATCAAAGTACAAACAGGGGGATGTGTGTGCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* *
21423680 GTATCGAAGTACAGAA-AGGAGCACGTGTGTGCATTCAGGG
1 GTACCGAAGTACA-AACAGGGGCACGTGTGTGCATTCAGGG
* * *
21423720 GTACCGAAGTACAAACAAGGGCACATGTGTACATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * *
21423760 GTACCGAAGTACAAACAGGTGCACGTCTGTGCATTTAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * * *
21423800 GTACCGAAGTACAAATAGGGGCACATCTGTGCATTTAGAGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAG-GG
* * * *
21423841 GTA-CTAAGTACAAACAAGGGCACATCTGTGCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
** * ** * *
21423880 GTATTGAAGTACAAACAAGGGCATATGTGTGCATTTATGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* *
21423920 GTATCAAAGTACAAACAGGGGCACGTGTGTGCATTCA-GG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* ** * *
21423959 GTACCAAAGTAC-AACTATTGGCATGTGTGTGCATTCGGGG
1 GTACCGAAGTACAAAC-AGGGGCACGTGTGTGCATTCAGGG
* * * ** *
21423999 GTATCGAAGCAC-AACAGGGGCATGCATGTGCATTCAAGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * * *
21424038 GTACCGAAGTACAAACAAGGGCATGTATGTGGATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
* * * **
21424078 GTACCGAAGTACAAATAAGGGCATGCATGTGCATTCCA-GG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATT-CAGGG
* * * * *
21424118 GTACCGAAGTACAGACAAGGGCATGTATGTACATTCAGG
1 GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGG
21424157 TAATAATTAT
Statistics
Matches: 847, Mismatches: 135, Indels: 28
0.84 0.13 0.03
Matches are distributed among these distances:
38 3 0.00
39 105 0.12
40 726 0.86
41 13 0.02
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (40 bp):
GTACCGAAGTACAAACAGGGGCACGTGTGTGCATTCAGGG
Found at i:21423419 original size:20 final size:20
Alignment explanation
Indices: 21423316--21423457 Score: 56
Period size: 20 Copynumber: 7.1 Consensus size: 20
21423306 TGTGTGCATT
*
21423316 CAGGGGTGCCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * **
21423336 CAGGGGCACTTG-TGTGCATT
1 CAGGGGTAC-CGAAGTACAAA
*
21423356 CAGGGGTACCGAAGTATAAA
1 CAGGGGTACCGAAGTACAAA
* ** * **
21423376 CAGGGGCA-CGTGTGTGCATT
1 CAGGGGTACCG-AAGTACAAA
21423396 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * **
21423416 CAGGGGAACTTG-TGTTCATT
1 CAGGGGTAC-CGAAGTACAAA
21423436 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
21423456 CA
1 CA
21423458 AGGGCACGTG
Statistics
Matches: 77, Mismatches: 39, Indels: 12
0.60 0.30 0.09
Matches are distributed among these distances:
19 4 0.05
20 69 0.90
21 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.19
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:21423778 original size:20 final size:20
Alignment explanation
Indices: 21423715--21423778 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
21423705 TGTGTGCATT
21423715 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * **
21423735 CAAGGGCACATG-TGTACATT
1 CAGGGGTAC-CGAAGTACAAA
21423755 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
21423775 CAGG
1 CAGG
21423779 TGCACGTCTG
Statistics
Matches: 30, Mismatches: 12, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.30, T:0.14
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:21424802 original size:13 final size:13
Alignment explanation
Indices: 21424786--21424810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21424776 AAAATAATTT
21424786 AAAAAATAAAAGA
1 AAAAAATAAAAGA
21424799 AAAAAATAAAAG
1 AAAAAATAAAAG
21424811 TATTTTAAAA
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAATAAAAGA
Found at i:21429897 original size:39 final size:39
Alignment explanation
Indices: 21429843--21429920 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
21429833 AGATTATCGA
21429843 AGCGAGCTAATCCCCCATAATCAGATTTGATTTATTCTT
1 AGCGAGCTAATCCCCCATAATCAGATTTGATTTATTCTT
21429882 AGCGAGCTAATCCCCCATAATCAGATTTGATTTATTCTT
1 AGCGAGCTAATCCCCCATAATCAGATTTGATTTATTCTT
21429921 CCTTTTTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (39 bp):
AGCGAGCTAATCCCCCATAATCAGATTTGATTTATTCTT
Found at i:21431580 original size:46 final size:46
Alignment explanation
Indices: 21431530--21431632 Score: 125
Period size: 46 Copynumber: 2.2 Consensus size: 46
21431520 TGCAGAATCA
*
21431530 AGAATATAGGAATAGGTTCTAAGCTCCAACATATGTTGCGGACTTG
1 AGAATATAGGAATAGGTTCCAAGCTCCAACATATGTTGCGGACTTG
* * * * ** **
21431576 AGAATATATGTATTGGTTCCGAGCTCTTACATATGTTGCGGGGTTG
1 AGAATATAGGAATAGGTTCCAAGCTCCAACATATGTTGCGGACTTG
21431622 AGAATATAGGA
1 AGAATATAGGA
21431633 CAAAGTCCTG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (46 bp):
AGAATATAGGAATAGGTTCCAAGCTCCAACATATGTTGCGGACTTG
Found at i:21437303 original size:28 final size:29
Alignment explanation
Indices: 21437264--21437362 Score: 130
Period size: 28 Copynumber: 3.4 Consensus size: 29
21437254 CTATCGAATT
*
21437264 ATGAAAAGGGATTGTGATGACCATCAATA
1 ATGAAAAGGGATTGTGAAGACCATCAATA
* *
21437293 ATG-AAAGGGATGGTGACGACCATCAATA
1 ATGAAAAGGGATTGTGAAGACCATCAATA
*
21437321 ATGAAAAGGGATTGTGAAGGCCATCAA-A
1 ATGAAAAGGGATTGTGAAGACCATCAATA
21437349 CTATGAAAAGGGAT
1 --ATGAAAAGGGAT
21437363 GGCTTCGGCT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 27 0.44
29 23 0.37
30 12 0.19
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.20
Consensus pattern (29 bp):
ATGAAAAGGGATTGTGAAGACCATCAATA
Found at i:21437467 original size:30 final size:30
Alignment explanation
Indices: 21437260--21437536 Score: 177
Period size: 30 Copynumber: 9.4 Consensus size: 30
21437250 TCGGCTATCG
*
21437260 AATTATGAAAAGGGAT-TGTGATGACCATC-
1 AATTATGAAAAGGGATGT-TGACGACCATCA
* *
21437289 AATAATG-AAAGGGATGGTGACGACCATC-
1 AATTATGAAAAGGGATGTTGACGACCATCA
* * *
21437317 AATAATGAAAAGGGAT-TGTGAAGGCCATCA
1 AATTATGAAAAGGGATGT-TGACGACCATCA
* * *
21437347 AACTATGAAAAGGGATGGCTT--CGGCTATCA
1 AATTATGAAAAGGGAT-G-TTGACGACCATCA
* *
21437377 AATTATGAAAAGGGATGGCTT--CGACTATCG
1 AATTATGAAAAGGGAT-G-TTGACGACCATCA
** * *
21437407 AATTACAAAAAGGGATAGCTTCA-G-CTATCA
1 AATTATGAAAAGGGAT-G-TTGACGACCATCA
21437437 AATTATGAAAAGGGATGTTGACGACCATC-
1 AATTATGAAAAGGGATGTTGACGACCATCA
* * *
21437466 AATAATGAAAAGGGGTGGTGACGACCATCA
1 AATTATGAAAAGGGATGTTGACGACCATCA
** * *
21437496 ACA--ATGAGCAGGGATGGTGATGACCATCA
1 A-ATTATGAAAAGGGATGTTGACGACCATCA
21437525 AATTATGAAAAG
1 AATTATGAAAAG
21437537 AGTTTGCTTT
Statistics
Matches: 203, Mismatches: 30, Indels: 29
0.77 0.11 0.11
Matches are distributed among these distances:
28 29 0.14
29 74 0.36
30 96 0.47
31 2 0.01
32 1 0.00
33 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (30 bp):
AATTATGAAAAGGGATGTTGACGACCATCA
Found at i:21437556 original size:178 final size:177
Alignment explanation
Indices: 21437238--21437570 Score: 470
Period size: 178 Copynumber: 1.9 Consensus size: 177
21437228 CGACTAATGG
* * *
21437238 AAAGGGATAACTTCGGCTATCGAATTATGAAAAGGGATTGTGATGACCATCAATAATGAAAGGGA
1 AAAGGGATAACTTCAGCTATCAAATTATGAAAAGGGATTGTGACGACCATCAATAATGAAAGGGA
* * * *
21437303 TGGTGACGACCATCAATAATGAAAAGGGATTGTGAAGGCCATCAAACTATGAAAAGGGATGGCTT
66 TGGTGACGACCATCAACAATGAAAAGGGATGGTGAAGACCATCAAACTATGAAAAGAGATGGCTT
*
21437368 CGGCTATCAAATTATGAAAAGGGATGGCTTCGACTATCGAATTACAA
131 CGGCTATCAAAATATGAAAAGGGATGGCTTCGACTATCGAATTACAA
*
21437415 AAAGGGATAGCTTCAGCTATCAAATTATGAAAAGGGA-TGTTGACGACCATCAATAATGAAAAGG
1 AAAGGGATAACTTCAGCTATCAAATTATGAAAAGGGATTG-TGACGACCATCAATAATG-AAAGG
* ** * * * *
21437479 GGTGGTGACGACCATCAACAATGAGCAGGGATGGTGATGACCATCAAATTATGAAAAGAGTTTGC
64 GATGGTGACGACCATCAACAATGAAAAGGGATGGTGAAGACCATCAAACTATGAAAAGAGATGGC
** *
21437544 TTTTGCTATCAAAATATGGAAAGGGAT
129 TTCGGCTATCAAAATATGAAAAGGGAT
21437571 AGTTTCGGCA
Statistics
Matches: 135, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
176 2 0.01
177 51 0.38
178 82 0.61
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (177 bp):
AAAGGGATAACTTCAGCTATCAAATTATGAAAAGGGATTGTGACGACCATCAATAATGAAAGGGA
TGGTGACGACCATCAACAATGAAAAGGGATGGTGAAGACCATCAAACTATGAAAAGAGATGGCTT
CGGCTATCAAAATATGAAAAGGGATGGCTTCGACTATCGAATTACAA
Found at i:21451080 original size:3 final size:3
Alignment explanation
Indices: 21451072--21451097 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21451062 TAACAAATAT
21451072 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
21451098 TGCATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:21451224 original size:22 final size:22
Alignment explanation
Indices: 21451177--21451227 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
21451167 ATTAAACTAT
21451177 TTTAATTTTATAAAGACTTGTA
1 TTTAATTTTATAAAGACTTGTA
* *
21451199 -TTAATTTT-TGAATGATTTGTA
1 TTTAATTTTAT-AAAGACTTGTA
21451220 TTTAATTT
1 TTTAATTT
21451228 AGACTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (22 bp):
TTTAATTTTATAAAGACTTGTA
Found at i:21454162 original size:12 final size:12
Alignment explanation
Indices: 21454147--21454171 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21454137 GATCCTTATG
21454147 AAGAAAGTGATC
1 AAGAAAGTGATC
21454159 AAGAAAGTGATC
1 AAGAAAGTGATC
21454171 A
1 A
21454172 TTCATCTGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (12 bp):
AAGAAAGTGATC
Found at i:21464379 original size:15 final size:15
Alignment explanation
Indices: 21464359--21464389 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21464349 GTAGGATGGG
21464359 GGATTGGGTTGAGGA
1 GGATTGGGTTGAGGA
*
21464374 GGATTGGGTTGGGGA
1 GGATTGGGTTGAGGA
21464389 G
1 G
21464390 AGGAAGGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.58, T:0.26
Consensus pattern (15 bp):
GGATTGGGTTGAGGA
Found at i:21472583 original size:20 final size:20
Alignment explanation
Indices: 21472558--21472633 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
21472548 AAGCTTATGC
21472558 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
21472578 TAAGTAAAT-GAAGTAGAAAG
1 TAAGTAAATGGAA-TGGAAAG
* * *
21472598 TAAGTAAATAGAACGGTAAG
1 TAAGTAAATGGAATGGAAAG
21472618 TAAGTAAATGGAATGG
1 TAAGTAAATGGAATGG
21472634 TTCATCATCT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.06
20 42 0.88
21 3 0.06
ACGTcount: A:0.50, C:0.01, G:0.28, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:21477560 original size:22 final size:21
Alignment explanation
Indices: 21477525--21477658 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
21477515 AAAGGGTATC
* *
21477525 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
21477546 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
21477569 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
21477588 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
21477607 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
21477626 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
21477645 TGCATATCATATCT
1 TACAAATCATATCT
21477659 AAGACTTCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:21477568 original size:23 final size:22
Alignment explanation
Indices: 21477525--21477582 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
21477515 AAAGGGTATC
* *
21477525 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
21477546 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
21477569 TGCATATCATATCT
1 TACAAATCATATCT
21477583 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:21477585 original size:19 final size:19
Alignment explanation
Indices: 21477561--21477671 Score: 161
Period size: 19 Copynumber: 5.8 Consensus size: 19
21477551 AATCATATCT
21477561 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
21477580 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
21477599 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
21477618 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
21477637 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21477656 TCTAAGACTT-CATATC
1 TCTAAGA-TTGCATATC
21477672 CCTGAAGATT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
19 79 0.98
20 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:21477608 original size:38 final size:38
Alignment explanation
Indices: 21477561--21477662 Score: 195
Period size: 38 Copynumber: 2.7 Consensus size: 38
21477551 AATCATATCT
21477561 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
21477599 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
21477637 TCTAAGATTGCATATCATATCTAAGA
1 TCTAAGATTGCATATCATATCTAAGA
21477663 CTTCATATCC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:21478053 original size:43 final size:44
Alignment explanation
Indices: 21477949--21478055 Score: 119
Period size: 43 Copynumber: 2.4 Consensus size: 44
21477939 AAGAATTGGT
*
21477949 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
1 GCTTCAATCTACTCCACTGC-ATACCAAGGAGATAGGACTTACAA
* * * * *
21477994 TCTTCAACCTATTCCACTGC-TGACCAAGGAGATATGA-TTACTA
1 GCTTCAATCTACTCCACTGCAT-ACCAAGGAGATAGGACTTACAA
*
21478037 GCTTCAATGTACTCCACTG
1 GCTTCAATCTACTCCACTG
21478056 TAACCACAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
43 21 0.41
44 13 0.25
45 17 0.33
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTGCATACCAAGGAGATAGGACTTACAA
Found at i:21478214 original size:132 final size:132
Alignment explanation
Indices: 21477992--21478490 Score: 813
Period size: 132 Copynumber: 3.8 Consensus size: 132
21477982 TAGGACTTAC
* * * * *
21477992 AATCTTCAACCTATTCCACTGCTGACCAAGG-AGATATG-ATTACTAGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
* *
21478055 GTAACCACAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
64 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
*
21478120 CTAA
129 CTGA
21478124 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
21478189 AACCACAGGGAGGTAAAATCCGCCATCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
21478254 GA
131 GA
* *
21478256 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGATTTATTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
21478321 AACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
21478386 GA
131 GA
* * *
21478388 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATCACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
21478453 AACCACGGGGAGGTAAAATCCGCCATATTCGATCTGCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
21478491 TTGCTGTCAA
Statistics
Matches: 344, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 341 0.99
133 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:21478419 original size:44 final size:44
Alignment explanation
Indices: 21478081--21478419 Score: 138
Period size: 44 Copynumber: 7.7 Consensus size: 44
21478071 AAAATCCGCC
* * ** *
21478081 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAAA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAA
* * *
21478125 ATCTTCAATCTATTCCACTGTTGTCCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGA-TAAG-A-T-CTGAA
* * ** * * * **
21478169 -GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGCC-CAGGGAGATAAGATCTGAA
* * * * **
21478213 ATCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAA
* * * *
21478257 ATCTTCAATCTATTCCACTGTTGTCCAGGGA-AGT-AGAT-T-TA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGA-TAAGATCTGAA
* * ** * * * **
21478298 TTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCC
1 AT--CTTCAATCTACTCCACTATTGCC-CAGGGAGATAAGATCTGAA
** * * **
21478345 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAA
* *
21478389 ATCTTCAATCTATTCCACTGTTGCCCAGGGA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGA
21478420 AGTAGAATCA
Statistics
Matches: 200, Mismatches: 77, Indels: 36
0.64 0.25 0.12
Matches are distributed among these distances:
41 2 0.01
42 3 0.01
43 43 0.22
44 113 0.56
45 36 0.18
46 2 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAA
Found at i:21482456 original size:24 final size:24
Alignment explanation
Indices: 21482428--21482473 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21482418 ATCATTTTTT
* *
21482428 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
21482452 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
21482474 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:21485359 original size:19 final size:19
Alignment explanation
Indices: 21485335--21485445 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
21485325 AATCATATCT
*
21485335 TCTAAGATTGCGTATCATA
1 TCTAAGATTGCATATCATA
**
21485354 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
21485373 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
21485392 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
21485411 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21485430 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
21485446 CCTGAAGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:21485382 original size:38 final size:38
Alignment explanation
Indices: 21485335--21485438 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
21485325 AATCATATCT
*
21485335 TCTAAGATTGCGTATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
21485373 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
21485411 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
21485439 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:21485695 original size:17 final size:17
Alignment explanation
Indices: 21485652--21485699 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
21485642 ATTGGTTCCA
21485652 ATTAA-AAATTAATA-T
1 ATTAATAAATTAATATT
21485667 A--AATACAA-TAATATT
1 ATTAATA-AATTAATATT
21485682 ATTAATAAATTAATATT
1 ATTAATAAATTAATATT
21485699 A
1 A
21485700 ATAGAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
13 2 0.07
14 6 0.22
15 5 0.19
16 2 0.07
17 12 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTAATAAATTAATATT
Found at i:21485698 original size:14 final size:14
Alignment explanation
Indices: 21485652--21485702 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
21485642 ATTGGTTCCA
21485652 ATTAA-AAATTAAT
1 ATTAATAAATTAAT
* *
21485665 ATAAATACAATAATATT
1 ATTAATA-AAT--TAAT
21485682 ATTAATAAATTAAT
1 ATTAATAAATTAAT
21485696 ATTAATA
1 ATTAATA
21485703 GAAACATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 4 0.13
14 11 0.37
15 3 0.10
16 3 0.10
17 9 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTAATAAATTAAT
Found at i:21486424 original size:13 final size:13
Alignment explanation
Indices: 21486406--21486438 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
21486396 GAGGCCTGCG
21486406 CATTATGGGTAAT
1 CATTATGGGTAAT
21486419 CATTATGGGTAAT
1 CATTATGGGTAAT
21486432 CATTATG
1 CATTATG
21486439 CAAAGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (13 bp):
CATTATGGGTAAT
Found at i:21497533 original size:14 final size:15
Alignment explanation
Indices: 21497511--21497587 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
21497501 CAATCAAACA
21497511 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
21497525 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
21497540 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
21497560 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
21497574 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
21497588 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:21497552 original size:20 final size:20
Alignment explanation
Indices: 21497527--21497566 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
21497517 AATATTTTCC
*
21497527 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
21497547 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
21497567 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:21497572 original size:34 final size:35
Alignment explanation
Indices: 21497515--21497581 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
21497505 CAAACACCAG
*
21497515 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
21497550 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
21497582 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:21500126 original size:17 final size:17
Alignment explanation
Indices: 21500074--21500126 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
21500064 ATTTTTCCGG
*
21500074 ACTCGAATTTATTATAA
1 ACTCAAATTTATTATAA
* *
21500091 ACTCAAGCTTT-CT-TAA
1 ACTCAA-ATTTATTATAA
21500107 ACTCAAATTTATTATAA
1 ACTCAAATTTATTATAA
21500124 ACT
1 ACT
21500127 TGGGTTATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 3 0.11
16 10 0.36
17 12 0.43
18 3 0.11
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.40
Consensus pattern (17 bp):
ACTCAAATTTATTATAA
Found at i:21523925 original size:3 final size:3
Alignment explanation
Indices: 21523912--21523956 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
21523902 GAGATACATC
*
21523912 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21523957 TTACAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:21525325 original size:42 final size:41
Alignment explanation
Indices: 21525184--21525424 Score: 191
Period size: 42 Copynumber: 5.7 Consensus size: 41
21525174 CTCGGTGGAT
* * * *
21525184 TCAGCACTTAGCAAGCACC-TTAAATTCAGTGATACGAGGAA
1 TCAGCACTTAGCAA-CCCCTTTAAATTCAATAATACGGGGAA
* * * * * * * *
21525225 TCAACACATAGCAACCCCTTTCACAGTAAAAAAAACGGTGGAT
1 TCAGCACTTAGCAACCCCTTT-AAATTCAATAATACGG-GGAA
* *
21525268 TCAGCACTTAGCAACCACCTTTATATTCAGTAATACGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAATAATACGGGGAA
* *
21525310 TCAGCACATATCAACCCCTTTCACAA-TCAA-AGATACGGTGGAA
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAATA-ATACGG-GGAA
* * *
21525353 TCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAATAATACGGGGAA
**
21525395 TCAGCACTTAGCAACCCCTTTTTATTCAAT
1 TCAGCACTTAGCAACCCCTTTAAATTCAAT
21525425 GTTTTTGGGT
Statistics
Matches: 157, Mismatches: 32, Indels: 22
0.74 0.15 0.10
Matches are distributed among these distances:
40 3 0.02
41 31 0.20
42 57 0.36
43 55 0.35
44 11 0.07
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (41 bp):
TCAGCACTTAGCAACCCCTTTAAATTCAATAATACGGGGAA
Found at i:21525325 original size:85 final size:85
Alignment explanation
Indices: 21525176--21525415 Score: 329
Period size: 85 Copynumber: 2.8 Consensus size: 85
21525166 ATCCGTTACT
* * * *
21525176 CGGTGGATTCAGCACTTAGCAAGCACC-TTAAATTCAGTGATACGAGGAATCAACACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGGGAATCAGCACATAGCAAC
*
21525240 CCCTTTCACAGTAAAAAAAA
66 CCCTTTCACAATAAAAAAAA
* *
21525260 CGGTGGATTCAGCACTTAGCAACCACCTTTATATTCAGTAATACGGGGAATCAGCACATATCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGGGAATCAGCACATAGCAAC
* * *
21525325 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATAAAAAAAA
* * * * * *
21525345 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAATCAGCACTTAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGGGAATCAGCACATAGCAAC
21525410 CCCTTT
66 CCCTTT
21525416 TTATTCAATG
Statistics
Matches: 137, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
84 26 0.19
85 111 0.81
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.23
Consensus pattern (85 bp):
CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGGGAATCAGCACATAGCAAC
CCCTTTCACAATAAAAAAAA
Found at i:21532885 original size:54 final size:54
Alignment explanation
Indices: 21532823--21532932 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
21532813 CTAACCTAAG
21532823 TATGCTCAAAATTAAATTAAACATATAATAATTAAATATGCAACTTTTAAGAGT
1 TATGCTCAAAATTAAATTAAACATATAATAATTAAATATGCAACTTTTAAGAGT
21532877 TATGCTCAAAATTAAATTAAACATATAATAATTAAATATGCAACTTTTAAGAGT
1 TATGCTCAAAATTAAATTAAACATATAATAATTAAATATGCAACTTTTAAGAGT
21532931 TA
1 TA
21532933 ATCACAATAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (54 bp):
TATGCTCAAAATTAAATTAAACATATAATAATTAAATATGCAACTTTTAAGAGT
Found at i:21538512 original size:27 final size:27
Alignment explanation
Indices: 21538467--21538619 Score: 155
Period size: 27 Copynumber: 5.7 Consensus size: 27
21538457 AACACGCTAA
* *
21538467 AAAAGGAAGCCTTCATGGTGATCTATG
1 AAAAGGAAGCCTTCGTGGCGATCTATG
* * * *
21538494 AAGAGGAAGCCTTTGTGGTGATCTATA
1 AAAAGGAAGCCTTCGTGGCGATCTATG
* *
21538521 AAAAGGAAGCCTTCATTGCGATCTATG
1 AAAAGGAAGCCTTCGTGGCGATCTATG
* * ** *
21538548 -AAAGGAAATCCTTTGTGGAAATTTATG
1 AAAAGG-AAGCCTTCGTGGCGATCTATG
*
21538575 AAAAAGAAGCCTTCGTGGCGATCTATG
1 AAAAGGAAGCCTTCGTGGCGATCTATG
*
21538602 AAAAGGAAGCCTTTGTGG
1 AAAAGGAAGCCTTCGTGG
21538620 AAATTGATGA
Statistics
Matches: 99, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
26 5 0.05
27 90 0.91
28 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (27 bp):
AAAAGGAAGCCTTCGTGGCGATCTATG
Found at i:21538624 original size:54 final size:55
Alignment explanation
Indices: 21538466--21538634 Score: 218
Period size: 54 Copynumber: 3.1 Consensus size: 55
21538456 GAACACGCTA
* * ** *
21538466 AAAAAGGAAGCCTTCATGGTGATCTATGAAGAGGAAGCCTTTGTGGTGATCTAT-
1 AAAAAGGAAGCCTTCATGGCGATCTATGAAAAGGAAGCCTTTGTGGAAATTTATG
* *
21538520 AAAAAGGAAGCCTTCATTGCGATCTATG-AAAGGAAATCCTTTGTGGAAATTTATG
1 AAAAAGGAAGCCTTCATGGCGATCTATGAAAAGG-AAGCCTTTGTGGAAATTTATG
* *
21538575 AAAAA-GAAGCCTTCGTGGCGATCTATGAAAAGGAAGCCTTTGTGGAAATTGATG
1 AAAAAGGAAGCCTTCATGGCGATCTATGAAAAGGAAGCCTTTGTGGAAATTTATG
*
21538629 ATAAAG
1 AAAAAG
21538635 AAATCCTATG
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.04
54 85 0.86
55 10 0.10
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (55 bp):
AAAAAGGAAGCCTTCATGGCGATCTATGAAAAGGAAGCCTTTGTGGAAATTTATG
Found at i:21539969 original size:27 final size:27
Alignment explanation
Indices: 21539931--21539984 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
21539921 TACTTATGGC
21539931 TAGTTTGCTTTAACCATTAATGATCAT
1 TAGTTTGCTTTAACCATTAATGATCAT
21539958 TAGTTTGCTTTAACCATTAATGATCAT
1 TAGTTTGCTTTAACCATTAATGATCAT
21539985 GTTGAATTGA
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:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (27 bp):
TAGTTTGCTTTAACCATTAATGATCAT
Found at i:21553831 original size:42 final size:42
Alignment explanation
Indices: 21553681--21553815 Score: 243
Period size: 42 Copynumber: 3.2 Consensus size: 42
21553671 ACCAGCACTT
* *
21553681 AGCCTGCTAAACATATAGTCTGAAATTGTTTCACCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
21553723 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
*
21553765 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACTGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
21553807 AGCCTGCTA
1 AGCCTGCTA
21553816 AGCGCTAAGC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (42 bp):
AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
Found at i:21559220 original size:101 final size:101
Alignment explanation
Indices: 21559045--21559242 Score: 315
Period size: 101 Copynumber: 2.0 Consensus size: 101
21559035 TTGACAGATA
* * * *
21559045 AGACCATGGTTGGACCATGGCAATGTTTATATGTAACACCATAGTTGGGCTATGGCATTTTAATG
1 AGACCAGGGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATG
*
21559110 AAAAGACCATAACTGGGTTATGGCACTTTGAACCTG
66 AAAAGACCATAACTGGGTTATGGCACTATGAACCTG
* * *
21559146 AGACCAGGGTTGGACTATGGCAATATTTATAAGTAAGACCATAGTTGGGCTATGGCATTCTGATG
1 AGACCAGGGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATG
*
21559211 ATAAGACCATAACTGGGTTATGGCACTATGAA
66 AAAAGACCATAACTGGGTTATGGCACTATGAA
21559243 TGTAAGACCA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 88 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (101 bp):
AGACCAGGGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATG
AAAAGACCATAACTGGGTTATGGCACTATGAACCTG
Found at i:21559221 original size:33 final size:32
Alignment explanation
Indices: 21559082--21559301 Score: 106
Period size: 33 Copynumber: 6.6 Consensus size: 32
21559072 TATATGTAAC
* *
21559082 ACCATAGTTGGGCTATGGCATTTTAATGAAAAG
1 ACCATAGTTGGGCTATGGCA-TTTGATGATAAG
** * *** *
21559115 ACCATAACTGGGTTATGGCACTTTGAACCTGAG
1 ACCATAGTTGGGCTATGGCA-TTTGATGATAAG
** * * *
21559148 ACCAGGGTTGGACTATGGCAATATTTATAAGTAAG
1 ACCATAGTTGGGCTATGGC-AT-TTGATGA-TAAG
21559183 ACCATAGTTGGGCTATGGCATTCTGATGATAAG
1 ACCATAGTTGGGCTATGGCATT-TGATGATAAG
** * *
21559216 ACCATAACTGGGTTATGGCACTATGAATG-TAAG
1 ACCATAGTTGGGCTATGGCA-TTTG-ATGATAAG
* * *
21559249 ACCAT-GACTGGG-TCATGGCA-ATGCATGTGTAAG
1 ACCATAG-TTGGGCT-ATGGCATTTG-ATG-ATAAG
*
21559282 ACCATAGTTGGACTATGGCA
1 ACCATAGTTGGGCTATGGCA
21559302 CAAAGAAAAT
Statistics
Matches: 141, Mismatches: 34, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
31 6 0.04
32 1 0.01
33 99 0.70
34 16 0.11
35 19 0.13
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (32 bp):
ACCATAGTTGGGCTATGGCATTTGATGATAAG
Found at i:21559267 original size:101 final size:100
Alignment explanation
Indices: 21559060--21559301 Score: 290
Period size: 101 Copynumber: 2.4 Consensus size: 100
21559050 ATGGTTGGAC
* * *
21559060 CATGGCAATGTTTATATGTAACACCATAGTTGGGCTATGGCATTTTAATGAAAAGACCATAACTG
1 CATGGCAATATTTATATGTAAGACCATAGTTGGGCTATGGCATTCTAATGAAAAGACCATAACTG
* * ** *
21559125 GGTTATGGCACTTTGAACCTGAGACCAGGGTTGGA
66 GGTTATGGCACTATGAACCTAAGACCAGACTGGGA
* * *
21559160 CTATGGCAATATTTATAAGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACCATAACT
1 C-ATGGCAATATTTATATGTAAGACCATAGTTGGGCTATGGCATTCTAATGAAAAGACCATAACT
** *
21559225 GGGTTATGGCACTATGAATGTAAGACCATGACTGGGT
65 GGGTTATGGCACTATGAACCTAAGACCA-GACTGGGA
** * *
21559262 CATGGC-A-ATGCATGTGTAAGACCATAGTTGGACTATGGCA
1 CATGGCAATATTTATATGTAAGACCATAGTTGGGCTATGGCA
21559302 CAAAGAAAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
99 28 0.23
100 2 0.02
101 86 0.71
102 5 0.04
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (100 bp):
CATGGCAATATTTATATGTAAGACCATAGTTGGGCTATGGCATTCTAATGAAAAGACCATAACTG
GGTTATGGCACTATGAACCTAAGACCAGACTGGGA
Found at i:21563458 original size:54 final size:54
Alignment explanation
Indices: 21563378--21563484 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
21563368 TTTAGATGTC
*
21563378 TTTTTGTCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
1 TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
21563432 TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGC
1 TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGC
21563485 CATGTTCATC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (54 bp):
TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
Found at i:21564442 original size:9 final size:8
Alignment explanation
Indices: 21564426--21564455 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
21564416 AAAAGTCCTC
21564426 AGAAAAAA
1 AGAAAAAA
21564434 AGAAAAAA
1 AGAAAAAA
21564442 AG-AAAAA
1 AGAAAAAA
21564449 AGAAAAA
1 AGAAAAA
21564456 CTTGCACACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:21573737 original size:21 final size:21
Alignment explanation
Indices: 21573711--21573753 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21573701 TCTAAACATA
21573711 AACCAAGTCCACTAGGCAAAG
1 AACCAAGTCCACTAGGCAAAG
21573732 AACCAAGTCCACTAGGCAAAG
1 AACCAAGTCCACTAGGCAAAG
21573753 A
1 A
21573754 TAAATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (21 bp):
AACCAAGTCCACTAGGCAAAG
Found at i:21582830 original size:17 final size:17
Alignment explanation
Indices: 21582810--21582857 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
21582800 GTATAATATG
*
21582810 AAATAGAAAATAATTTT
1 AAATGGAAAATAATTTT
*
21582827 AAATGGAAAACAATTTT
1 AAATGGAAAATAATTTT
21582844 AAATGGAAAATAAT
1 AAATGGAAAATAAT
21582858 CCATTGTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.29
Consensus pattern (17 bp):
AAATGGAAAATAATTTT
Found at i:21589891 original size:15 final size:15
Alignment explanation
Indices: 21589871--21589903 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
21589861 ATATAAAATA
21589871 TTAACTAAATATTAT
1 TTAACTAAATATTAT
*
21589886 TTAACTAAATATTGT
1 TTAACTAAATATTAT
21589901 TTA
1 TTA
21589904 CCAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (15 bp):
TTAACTAAATATTAT
Found at i:21591973 original size:16 final size:17
Alignment explanation
Indices: 21591952--21591985 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
21591942 TTAAAATTAA
21591952 AATTTTATTA-TTTATT
1 AATTTTATTATTTTATT
*
21591968 AATTTTTTTATTTTATT
1 AATTTTATTATTTTATT
21591985 A
1 A
21591986 TTGTTGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTTATTATTTTATT
Found at i:21599642 original size:18 final size:19
Alignment explanation
Indices: 21599597--21599645 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
21599587 GAATATTTAC
*
21599597 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
21599617 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
21599635 ATAAAAATAAA
1 ATAAAAATAAA
21599646 AATAAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:21601332 original size:40 final size:40
Alignment explanation
Indices: 21601256--21601332 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
21601246 ATGTGTGACC
* *
21601256 AGGGGCACCGAAGTACAAACAGGGGCACAGATGTGCATTT
1 AGGGGCACCGAAGTACAAACAAGGGCACAGAAGTGCATTT
* *
21601296 AGGGGTACTGAAGTACAAACAAGGGCAC-GTAAGTGCA
1 AGGGGCACCGAAGTACAAACAAGGGCACAG-AAGTGCA
21601333 ATCATTCGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 31 0.97
ACGTcount: A:0.35, C:0.18, G:0.32, T:0.14
Consensus pattern (40 bp):
AGGGGCACCGAAGTACAAACAAGGGCACAGAAGTGCATTT
Found at i:21604053 original size:50 final size:49
Alignment explanation
Indices: 21603984--21604128 Score: 146
Period size: 50 Copynumber: 2.9 Consensus size: 49
21603974 TATTGAGGTT
* * * * * *
21603984 ATGAGAGGTCACGCATAAGACCATGTCTCGGACATAGCATTGGCACTGAG
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACAT-GCATTGGCACCGAG
* * * *
21604034 ATGAGAGGTCCCCCGTAAGACAATATCTGGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACATG-CATTGGCACCGAG
* * *
21604084 ATGAGAGCTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGACAT-GCATTGGCA
21604129 GTTTAGGAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
49 1 0.01
50 76 0.97
51 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.21
Consensus pattern (49 bp):
ATGAGAGGTCCCACGTAAGACCATATCTGGGACATGCATTGGCACCGAG
Found at i:21604404 original size:20 final size:20
Alignment explanation
Indices: 21604379--21604417 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21604369 AGAGTTATTT
21604379 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
21604399 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
21604418 GAAGAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:21613211 original size:50 final size:50
Alignment explanation
Indices: 21613157--21613251 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
21613147 TATTGAGGTT
* * * *
21613157 ATGAGAGGTCACACATAAGACTATGTCTCGGACATAGCATTGGCACCAAG
1 ATGAGAGGTCACACATAAGACAATATCTAGGACATAGCATGGGCACCAAG
* * *
21613207 ATGAGAGGTCACCCGTAAGACAATATCTAGGACATGGCATGGGCA
1 ATGAGAGGTCACACATAAGACAATATCTAGGACATAGCATGGGCA
21613252 ACGATATGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCACACATAAGACAATATCTAGGACATAGCATGGGCACCAAG
Found at i:21613261 original size:50 final size:50
Alignment explanation
Indices: 21613156--21613262 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
21613146 TTATTGAGGT
* * * * *
21613156 TATGAGAGGTCACACATAAGACTATGTCTCGGACATAGCATTGGCACCAA
1 TATGAGAGGTCACACATAAGACAATATCTAGGACATAGCATGGGCAACAA
* * * * *
21613206 GATGAGAGGTCACCCGTAAGACAATATCTAGGACATGGCATGGGCAACGA
1 TATGAGAGGTCACACATAAGACAATATCTAGGACATAGCATGGGCAACAA
21613256 TATGAGA
1 TATGAGA
21613263 ACTCCTATGT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (50 bp):
TATGAGAGGTCACACATAAGACAATATCTAGGACATAGCATGGGCAACAA
Found at i:21613577 original size:20 final size:20
Alignment explanation
Indices: 21613552--21613600 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21613542 TGAGTTATTT
*
21613552 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAACTAAAC
*
21613572 AAGTAAG-AGAGTAACTAAAG
1 AAGTAAGCA-AGTAACTAAAC
21613592 AAG-AAGCAA
1 AAGTAAGCAA
21613601 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.57, C:0.08, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAACTAAAC
Found at i:21619312 original size:40 final size:40
Alignment explanation
Indices: 21619227--21619465 Score: 175
Period size: 40 Copynumber: 6.0 Consensus size: 40
21619217 AATGTGTGAC
* * *
21619227 CAGGGGCACCAAAGTACAAACAGGGGCA--TAAATGTGCATT
1 CAGGGGTACCGAAGTACAAACAGGGGCACGT-AA-GTGCAAT
* * *
21619267 TAGGGGTACTGAAGTACAAACAGGGGCACGTAAGTGTAAT
1 CAGGGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAAT
* * * * *
21619307 CAGGGGTACCGAAGCACCAACAAGGGCACGTAACTGAAAT
1 CAGGGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAAT
* * * * * *
21619347 CAGGGGTACCAAAGTACAAACAAGGGCATGCACGTCCAAT
1 CAGGGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAAT
* *
21619387 CAGGGGGT--CGAAGTAGAAACAGGGGCAGGTAA--GCAAT
1 CA-GGGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAAT
* * *** * *
21619424 TAAGGGTATTAAAATACAAACAGGGGCATGTAAGTGCAAT
1 CAGGGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAAT
21619464 CA
1 CA
21619466 TTCAATAATT
Statistics
Matches: 155, Mismatches: 37, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
36 4 0.03
37 5 0.03
38 19 0.12
39 18 0.12
40 101 0.65
41 7 0.05
42 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.29, T:0.15
Consensus pattern (40 bp):
CAGGGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAAT
Found at i:21620592 original size:21 final size:21
Alignment explanation
Indices: 21620566--21620619 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
21620556 TTTCTAAAAT
*
21620566 CACTTGACCTTGGGGTCTTAC
1 CACTTGACCTTAGGGTCTTAC
21620587 CACTTGACCTTAGGGTCTTAC
1 CACTTGACCTTAGGGTCTTAC
*
21620608 CACTTGAACTTA
1 CACTTGACCTTA
21620620 ATAAATCACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (21 bp):
CACTTGACCTTAGGGTCTTAC
Found at i:21623389 original size:4 final size:4
Alignment explanation
Indices: 21623380--21623410 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
21623370 AAACTAAGTA
21623380 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
21623411 AATAAAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:21630933 original size:15 final size:15
Alignment explanation
Indices: 21630896--21630933 Score: 69
Period size: 14 Copynumber: 2.6 Consensus size: 15
21630886 AACTCGACAT
21630896 TTACTTGTTAGTTTA
1 TTACTTGTTAGTTTA
21630911 TTAC-TGTTAGTTTA
1 TTACTTGTTAGTTTA
21630925 TTACTTGTT
1 TTACTTGTT
21630934 GCGATTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.18, C:0.08, G:0.13, T:0.61
Consensus pattern (15 bp):
TTACTTGTTAGTTTA
Found at i:21634211 original size:29 final size:29
Alignment explanation
Indices: 21634175--21634627 Score: 443
Period size: 29 Copynumber: 15.8 Consensus size: 29
21634165 CGATGGTGAA
**
21634175 ACCATCCCTTTTCATATTAAATGGTCGTC
1 ACCATCCCTTTTCATATTTGATGGTCGTC
* * **
21634204 ACTATCCCTTTTCGTATTCAATGGTCGTC
1 ACCATCCCTTTTCATATTTGATGGTCGTC
* * ** **
21634233 ACTATCCTTTTTCATATTCAATGGTCGAA
1 ACCATCCCTTTTCATATTTGATGGTCGTC
21634262 ACCATCCCTTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTTGATGGTCGTC
21634291 ACCATCCCTTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTTGATGGTCGTC
** * * *
21634320 AGAATCCCTTTTCATAGTCGATGGTCATC
1 ACCATCCCTTTTCATATTTGATGGTCGTC
* **
21634349 ACCATCCCTTTTCATATTTGATGGTTGGA
1 ACCATCCCTTTTCATATTTGATGGTCGTC
* *
21634378 ACCATCTCTTTGCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTTGATGGTCGTC
* * *** **
21634407 ACCA----TGTGC-TAAACGATGGTCGAA
1 ACCATCCCTTTTCATATTTGATGGTCGTC
* * **
21634431 ACCATCCTTTTTCATATTCGATGGTCGAA
1 ACCATCCCTTTTCATATTTGATGGTCGTC
* *
21634460 ACCATCCTTTTTCATATTTGATGGTCATC
1 ACCATCCCTTTTCATATTTGATGGTCGTC
21634489 ACCATCCCTTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTTGATGGTCGTC
* * **
21634518 ACCATCCCTTTTCATATTTTAGGGTCGAA
1 ACCATCCCTTTTCATATTTGATGGTCGTC
*
21634547 ACTAT-CCTTTTGCATATTTGATGGTCGTC
1 ACCATCCCTTTT-CATATTTGATGGTCGTC
* * * *
21634576 ACTATCCCTTTTCATATTCGATTGTCG-A
1 ACCATCCCTTTTCATATTTGATGGTCGTC
*
21634604 ACCGTCCCTTTTCATATTTGATGG
1 ACCATCCCTTTTCATATTTGATGG
21634628 GTGTCGATAT
Statistics
Matches: 354, Mismatches: 63, Indels: 15
0.82 0.15 0.03
Matches are distributed among these distances:
24 14 0.04
25 4 0.01
28 29 0.08
29 301 0.85
30 6 0.02
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTTGATGGTCGTC
Found at i:21634318 original size:87 final size:87
Alignment explanation
Indices: 21634165--21634627 Score: 503
Period size: 87 Copynumber: 5.4 Consensus size: 87
21634155 GTGTGCTAAA
** ** * * **
21634165 CGATGGT-GAAACCATCCCTTTTCATATTAAATGGTCGTCACTATCCCTTTTCGTATTCAATGGT
1 CGATGGTCGAAACCATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTTTCATATTTGATGGT
*
21634229 CGTCACTATCCTTTTTCATATT
66 CGTCACTATCCCTTTTCATATT
* **
21634251 CAATGGTCGAAACCATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTCATATTTGATGGT
1 CGATGGTCGAAACCATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTTTCATATTTGATGGT
** *
21634316 CGTCAGAATCCCTTTTCATAGT
66 CGTCACTATCCCTTTTCATATT
* * * * *
21634338 CGATGGTC-ATCACCATCCCTTTTCATATTTGATGGTTGGAACCATCTCTTTGCATATTTGATGG
1 CGATGGTCGA-AACCATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTTTCATATTTGATGG
* * * **
21634402 TCGT--C-A-CCATGTGC-TAAA
65 TCGTCACTATCCCTTTTCATATT
* * *
21634420 CGATGGTCGAAACCATCCTTTTTCATATTCGATGGTCGAAACCATCCTTTTTCATATTTGATGGT
1 CGATGGTCGAAACCATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTTTCATATTTGATGGT
* *
21634485 CATCACCATCCCTTTTCATATT
66 CGTCACTATCCCTTTTCATATT
* ** * * *
21634507 TGATGGTCGTCACCATCCCTTTTCATATTTTAGGGTCGAAACTAT-CCTTTTGCATATTTGATGG
1 CGATGGTCGAAACCATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTTT-CATATTTGATGG
21634571 TCGTCACTATCCCTTTTCATATT
65 TCGTCACTATCCCTTTTCATATT
* *
21634594 CGATTGTCG-AACCGTCCCTTTTCATATTTGATGG
1 CGATGGTCGAAACCATCCCTTTTCATATTTGATGG
21634628 GTGTCGATAT
Statistics
Matches: 313, Mismatches: 55, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
82 59 0.19
83 6 0.02
84 2 0.01
85 1 0.00
86 38 0.12
87 207 0.66
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (87 bp):
CGATGGTCGAAACCATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTTTCATATTTGATGGT
CGTCACTATCCCTTTTCATATT
Found at i:21634466 original size:169 final size:169
Alignment explanation
Indices: 21634253--21634577 Score: 490
Period size: 169 Copynumber: 1.9 Consensus size: 169
21634243 TTCATATTCA
* ** *
21634253 ATGGTCGAAACCATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTCATATTTGATGGTCG
1 ATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATATTTGATGGTCA
* * * *
21634318 TCAGAATCCCTTTTCATAGTCGATGGTCATCACCATCCCTTTTCATATTTGATGGTTGGAACCAT
66 TCACAATCCCTTTTCATAGTCGATGGTCATCACCATCCCTTTTCATATTTGAGGGTCGAAACCAT
21634383 -CTCTTTGCATATTTGATGGTCGTCACCATGTGCTAAACG
131 CCT-TTTGCATATTTGATGGTCGTCACCATGTGCTAAACG
* *
21634422 ATGGTCGAAACCATCCTTTTTCATATTCGATGGTCGAAACCATCCTTTTTCATATTTGATGGTCA
1 ATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATATTTGATGGTCA
* * * * * *
21634487 TCACCATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTCATATTTTAGGGTCGAAACTAT
66 TCACAATCCCTTTTCATAGTCGATGGTCATCACCATCCCTTTTCATATTTGAGGGTCGAAACCAT
21634552 CCTTTTGCATATTTGATGGTCGTCAC
131 CCTTTTGCATATTTGATGGTCGTCAC
21634578 TATCCCTTTT
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
169 137 0.99
170 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (169 bp):
ATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATATTTGATGGTCA
TCACAATCCCTTTTCATAGTCGATGGTCATCACCATCCCTTTTCATATTTGAGGGTCGAAACCAT
CCTTTTGCATATTTGATGGTCGTCACCATGTGCTAAACG
Found at i:21634479 original size:111 final size:111
Alignment explanation
Indices: 21634207--21634522 Score: 294
Period size: 111 Copynumber: 2.8 Consensus size: 111
21634197 GGTCGTCACT
* * * * * * * **
21634207 ATCCCTTTTCGTATTCAATGGTCGTCACTATCCTTTTTCATATTCAATGGTC-GAAACCATCCCT
1 ATCCCTTTTCATAGTCGATGGTCATAACCATCCCTTTTCATATTTGATGGTCAG-AACCATCCCT
* * * *** ** **
21634271 TTTCATATTTGATGGTCGTCACCATCCCTTTTCATATTTGATGGTCGTCAGA
65 TTGCATATTTGATGGTCGTCACCA----TGTGC-TAAACGATGGTCGAAACC
* ** *
21634323 ATCCCTTTTCATAGTCGATGGTCATCACCATCCCTTTTCATATTTGATGGTTGGAACCATCTCTT
1 ATCCCTTTTCATAGTCGATGGTCATAACCATCCCTTTTCATATTTGATGGTCAGAACCATCCCTT
21634388 TGCATATTTGATGGTCGTCACCATGTGCTAAACGATGGTCGAAACC
66 TGCATATTTGATGGTCGTCACCATGTGCTAAACGATGGTCGAAACC
* * * **
21634434 ATCCTTTTTCATATTCGATGGTCGA-AACCATCCTTTTTCATATTTGATGGTCATCACCATCCCT
1 ATCCCTTTTCATAGTCGATGGTC-ATAACCATCCCTTTTCATATTTGATGGTCAGAACCATCCCT
*
21634498 TTTCATATTTGATGGTCGTCACCAT
65 TTGCATATTTGATGGTCGTCACCAT
21634523 CCCTTTTCAT
Statistics
Matches: 168, Mismatches: 30, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
111 88 0.52
112 4 0.02
116 75 0.45
117 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (111 bp):
ATCCCTTTTCATAGTCGATGGTCATAACCATCCCTTTTCATATTTGATGGTCAGAACCATCCCTT
TGCATATTTGATGGTCGTCACCATGTGCTAAACGATGGTCGAAACC
Found at i:21634483 original size:140 final size:140
Alignment explanation
Indices: 21634281--21634536 Score: 368
Period size: 140 Copynumber: 1.8 Consensus size: 140
21634271 TTTCATATTT
** * ** *
21634281 GATGGTCGTCACCATCCCTTTTCATATTTGATGGTCGTCAGAATCCCTTTTCATAGTCGATGGTC
1 GATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGAAACAATCCCTTTTCATAGTCGATGGTC
* *
21634346 ATCACCATCCCTTTTCATATTTGATGGTTGGAACCATCTCTTTGCATATTTGATGGTCGTCACCA
66 ATCACCATCCCTTTTCATATTTGATGGTCGGAACCATCCCTTTGCATATTTGATGGTCGTCACCA
21634411 TGTGCTAAAC
131 TGTGCTAAAC
* * * * *
21634421 GATGGTCGAAACCATCCTTTTTCATATTCGATGGTCGAAACCATCCTTTTTCATATTTGATGGTC
1 GATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGAAACAATCCCTTTTCATAGTCGATGGTC
** *
21634486 ATCACCATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTCATATTT
66 ATCACCATCCCTTTTCATATTTGATGGTCGGAACCATCCCTTTGCATATTT
21634537 TAGGGTCGAA
Statistics
Matches: 100, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
140 100 1.00
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (140 bp):
GATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGAAACAATCCCTTTTCATAGTCGATGGTC
ATCACCATCCCTTTTCATATTTGATGGTCGGAACCATCCCTTTGCATATTTGATGGTCGTCACCA
TGTGCTAAAC
Found at i:21641080 original size:22 final size:22
Alignment explanation
Indices: 21641038--21641086 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
21641028 CATAATAGCC
21641038 ACATACCAAAATCACATTCAA-
1 ACATACCAAAATCACATTCAAT
**
21641059 ACATACCAAAAGTGTCATTCAAT
1 ACATACCAAAA-TCACATTCAAT
21641082 ACATA
1 ACATA
21641087 TCATCACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.46
22 8 0.33
23 5 0.21
ACGTcount: A:0.49, C:0.24, G:0.04, T:0.22
Consensus pattern (22 bp):
ACATACCAAAATCACATTCAAT
Found at i:21641712 original size:29 final size:29
Alignment explanation
Indices: 21641649--21641819 Score: 175
Period size: 29 Copynumber: 5.9 Consensus size: 29
21641639 GTGTGCTAAA
** *
21641649 TGATGGTCGAAACCATCCCCTTTTCATATT
1 TGATGGTCGTCACCAT-CCCTTTTTATATT
21641679 TGATGGTCGTCACCATCCCTTTTTATATT
1 TGATGGTCGTCACCATCCCTTTTTATATT
* * ** * *
21641708 CGATGGTTGAAACCATCCCTTTTCACATT
1 TGATGGTCGTCACCATCCCTTTTTATATT
* *
21641737 TGATAGTCGTCACCAT-CCTTTTTCATTTT
1 TGATGGTCGTCACCATCCCTTTTT-ATATT
*
21641766 TGATGGTCATCACCAT-CCTTTTTCATATT
1 TGATGGTCGTCACCATCCCTTTTT-ATATT
* *
21641795 CGATGGTTGTCACCATCCCTTTTTA
1 TGATGGTCGTCACCATCCCTTTTTA
21641820 AGTCATCACC
Statistics
Matches: 116, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
28 6 0.05
29 89 0.77
30 21 0.18
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.42
Consensus pattern (29 bp):
TGATGGTCGTCACCATCCCTTTTTATATT
Found at i:21641746 original size:58 final size:58
Alignment explanation
Indices: 21641650--21641819 Score: 209
Period size: 58 Copynumber: 2.9 Consensus size: 58
21641640 TGTGCTAAAT
*
21641650 GATGGTCGAAACCATCCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTTATATTC
1 GATGGTTGAAACCAT-CCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTTATATTC
* * * *
21641709 GATGGTTGAAACCATCCCTTTTCACATTTGATAGTCGTCACCAT-CCTTTTTCATTTTT
1 GATGGTTGAAACCATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTT-ATATTC
* * * * *
21641767 GATGG-TCATCACCATCCTTTTTCATATTCGATGGTTGTCACCATCCCTTTTTA
1 GATGGTTGA-AACCATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTTA
21641820 AGTCATCACC
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
57 9 0.09
58 66 0.69
59 21 0.22
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (58 bp):
GATGGTTGAAACCATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTTATATTC
Found at i:21641862 original size:28 final size:28
Alignment explanation
Indices: 21641827--21641883 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
21641817 TTAAGTCATC
*
21641827 ACCATCCCTTTTCATATTCGATGGTCAA
1 ACCATCCCTTATCATATTCGATGGTCAA
*
21641855 ACCATCCCTTATCATATTTGATGGTCAA
1 ACCATCCCTTATCATATTCGATGGTCAA
21641883 A
1 A
21641884 ACATTGGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (28 bp):
ACCATCCCTTATCATATTCGATGGTCAA
Found at i:21646569 original size:25 final size:26
Alignment explanation
Indices: 21646527--21646580 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
21646517 TTCTCCTAAA
*
21646527 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
21646553 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
21646578 TTT
1 TTT
21646581 ATGCAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:21656302 original size:27 final size:25
Alignment explanation
Indices: 21656272--21656340 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
21656262 CGTTCCGACC
*
21656272 CACAGCTCGTGTGAGCAGACCCATTTT
1 CACAGCTCGTGTGAGCA-ACCCA-ATT
** *
21656299 CACAGCTCGTGTGAGCATTCTAATT
1 CACAGCTCGTGTGAGCAACCCAATT
21656324 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
21656341 TACATGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 19 0.50
26 2 0.05
27 17 0.45
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCAACCCAATT
Found at i:21663481 original size:29 final size:29
Alignment explanation
Indices: 21663435--21663562 Score: 202
Period size: 29 Copynumber: 4.4 Consensus size: 29
21663425 CCCTCAGATA
*
21663435 ATGAAAAGGGATAGCTTCGGTTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
21663464 ATGAAAAGAGATAACTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
21663493 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
21663522 ATAAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
21663551 ATGAAAAGGGAT
1 ATGAAAAGGGAT
21663563 GGTGACGACC
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:21663582 original size:29 final size:29
Alignment explanation
Indices: 21663486--21663664 Score: 121
Period size: 29 Copynumber: 6.1 Consensus size: 29
21663476 AACTTCAGCT
* * * *
21663486 ATCGAATATGAAAAGGGATAGCT-TCGGCT
1 ATCGAATATGAAAAGGGAT-GGTGACGACC
* * * * *
21663515 ATCGAATATAAAAAGGGATAGCT-TCGGCT
1 ATCGAATATGAAAAGGGAT-GGTGACGACC
*
21663544 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
**
21663573 ATC-AACTATGAAAAGATATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
**
21663602 ATCGAATATGAAAAGGGATGGTTTCGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
* * * * * *
21663631 GTTGATTAAAGAAAAGGGATGTTTACGACC
1 ATCGAAT-ATGAAAAGGGATGGTGACGACC
21663661 ATCG
1 ATCG
21663665 TTTAGCACAC
Statistics
Matches: 124, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.02
29 98 0.79
30 23 0.19
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.23
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Done.