Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 48 of 127
Found at i:9515961 original size:26 final size:26
Alignment explanation
Indices: 9515904--9515956 Score: 83
Period size: 24 Copynumber: 2.1 Consensus size: 26
9515894 TTTTATACCT
9515904 CTATGTGGAAAAATTAAAAACTAAAA
1 CTATGTGGAAAAATTAAAAACTAAAA
*
9515930 CTATGT-GAAAAATT-AAAAGTAAAA
1 CTATGTGGAAAAATTAAAAACTAAAA
9515954 CTA
1 CTA
9515957 AATGTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 12 0.46
25 8 0.31
26 6 0.23
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.25
Consensus pattern (26 bp):
CTATGTGGAAAAATTAAAAACTAAAA
Found at i:9520208 original size:21 final size:22
Alignment explanation
Indices: 9520182--9520224 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9520172 TTTTTTGTCC
*
9520182 TTAATTATA-TGATACAAATAT
1 TTAATTATAGAGATACAAATAT
*
9520203 TTAATTCTAGAGATACAAATAT
1 TTAATTATAGAGATACAAATAT
9520225 AAATATATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
TTAATTATAGAGATACAAATAT
Found at i:9520235 original size:22 final size:22
Alignment explanation
Indices: 9520184--9520235 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
9520174 TTTTGTCCTT
* *
9520184 AATTATA-TGATACAAATATTT
1 AATTATAGAGATACAAATATTA
*
9520205 AATTCTAGAGATACAAATA-TA
1 AATTATAGAGATACAAATATTA
9520226 AATATATAGA
1 AAT-TATAGA
9520236 TTACAAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.35
Consensus pattern (22 bp):
AATTATAGAGATACAAATATTA
Found at i:9521338 original size:24 final size:26
Alignment explanation
Indices: 9521293--9521341 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 26
9521283 AATCTATTCT
9521293 TATGGAAAAACTAAAAAATAAAACTG
1 TATGGAAAAACTAAAAAATAAAACTG
9521319 TATGG-AAAACT-AAAAATAAAACT
1 TATGGAAAAACTAAAAAATAAAACT
9521342 TAATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 12 0.52
25 6 0.26
26 5 0.22
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.20
Consensus pattern (26 bp):
TATGGAAAAACTAAAAAATAAAACTG
Found at i:9525617 original size:22 final size:22
Alignment explanation
Indices: 9525592--9525657 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
9525582 ATTTTTGTTC
*
9525592 TTAATTCTAGATATACAAATAT
1 TTAATTCTAGAGATACAAATAT
* * * *
9525614 TTAATTTTAGGGATATAAATAC
1 TTAATTCTAGAGATACAAATAT
*
9525636 TAAATTCTAGAGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
9525658 AAATATATAG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAT
Found at i:9525668 original size:22 final size:22
Alignment explanation
Indices: 9525594--9525668 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
9525584 TTTTGTTCTT
* * * *
9525594 AATTCTAGATATACAAATATTT
1 AATTATAGAGATACAAATACTA
* * *
9525616 AATTTTAGGGATATAAATACTA
1 AATTATAGAGATACAAATACTA
*
9525638 AATTCTAGAGATACAAATA-TA
1 AATTATAGAGATACAAATACTA
9525659 AATATATAGA
1 AAT-TATAGA
9525669 TTATAAGATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
21 5 0.12
22 37 0.88
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
AATTATAGAGATACAAATACTA
Found at i:9530155 original size:26 final size:26
Alignment explanation
Indices: 9530121--9530171 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
9530111 ATCCATTAAC
*
9530121 AAAAGTAAAATATAACTAGATAAATT
1 AAAAATAAAATATAACTAGATAAATT
*
9530147 AAAAATAAAATATAATTAGATAAAT
1 AAAAATAAAATATAACTAGATAAAT
9530172 GCAACATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (26 bp):
AAAAATAAAATATAACTAGATAAATT
Found at i:9530935 original size:34 final size:34
Alignment explanation
Indices: 9530882--9530958 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 34
9530872 CATTATATAG
* * *
9530882 GAAAATGTATTTTCGAAAAATATTACAATTATCC
1 GAAAATGTATTTTCAAAAAACATTACAATTATCA
* **
9530916 GAAAATGTATTTTTAAAAAACATTGTAATTATCA
1 GAAAATGTATTTTCAAAAAACATTACAATTATCA
*
9530950 AAAAATGTA
1 GAAAATGTA
9530959 CTCTGAAAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (34 bp):
GAAAATGTATTTTCAAAAAACATTACAATTATCA
Found at i:9536882 original size:8 final size:8
Alignment explanation
Indices: 9536871--9536905 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
9536861 AGAGAGAGAG
9536871 TGATTAAA
1 TGATTAAA
9536879 TGATTAAAAA
1 TGATT--AAA
9536889 TGATTAAA
1 TGATTAAA
9536897 TGATTAAA
1 TGATTAAA
9536905 T
1 T
9536906 AAATGATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (8 bp):
TGATTAAA
Found at i:9541540 original size:14 final size:14
Alignment explanation
Indices: 9541523--9541551 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9541513 CAGAAAACAG
9541523 AGTTAAGAAAGATT
1 AGTTAAGAAAGATT
9541537 AGTTAAGAAAGATT
1 AGTTAAGAAAGATT
9541551 A
1 A
9541552 TTCTATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.28
Consensus pattern (14 bp):
AGTTAAGAAAGATT
Found at i:9543751 original size:17 final size:17
Alignment explanation
Indices: 9543731--9543779 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
9543721 TAATATAATT
9543731 AAATATTTAAATTTTAA
1 AAATATTTAAATTTTAA
9543748 AAATTATTT-AATTTTAA
1 AAA-TATTTAAATTTTAA
*
9543765 AGAT-TTTAAAATTTT
1 AAATATTT-AAATTTT
9543780 TTATAATTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 3 0.11
16 1 0.04
17 19 0.68
18 5 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
AAATATTTAAATTTTAA
Found at i:9544717 original size:13 final size:14
Alignment explanation
Indices: 9544699--9544727 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9544689 GGATATTCTT
9544699 AAAAATTGAAA-AA
1 AAAAATTGAAAGAA
9544712 AAAAATTGAAAGAA
1 AAAAATTGAAAGAA
9544726 AA
1 AA
9544728 TTGTAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (14 bp):
AAAAATTGAAAGAA
Found at i:9545599 original size:8 final size:8
Alignment explanation
Indices: 9545586--9545614 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9545576 ATTTTGGATT
9545586 GTTTATGG
1 GTTTATGG
9545594 GTTTATGG
1 GTTTATGG
9545602 GTTTATGG
1 GTTTATGG
9545610 GTTTA
1 GTTTA
9545615 AGTGTTGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (8 bp):
GTTTATGG
Found at i:9548155 original size:20 final size:20
Alignment explanation
Indices: 9548130--9548180 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
9548120 GGTTGTTGCA
*
9548130 AATAAAAATATTAATAAAAT
1 AATAAAAATAATAATAAAAT
*
9548150 AATAAAACTAATAATAAAAT
1 AATAAAAATAATAATAAAAT
9548170 ATATAATAAAT
1 A-ATAA-AAAT
9548181 CACATATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 19 0.73
21 4 0.15
22 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAAAATAATAATAAAAT
Found at i:9548162 original size:12 final size:11
Alignment explanation
Indices: 9548134--9548179 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
9548124 GTTGCAAATA
*
9548134 AAAATATTAAT
1 AAAATAATAAT
9548145 AAAATAAT-A-
1 AAAATAATAAT
*
9548154 AAACTAATAAT
1 AAAATAATAAT
9548165 AAAATATATAAT
1 AAAATA-ATAAT
9548177 AAA
1 AAA
9548180 TCACATATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
9 7 0.24
10 2 0.07
11 12 0.41
12 8 0.28
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:9548175 original size:24 final size:25
Alignment explanation
Indices: 9548148--9548201 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
9548138 TATTAATAAA
9548148 ATAATAAA-AC-TAATAATAAAATAT
1 ATAATAAACACAT-ATAATAAAATAT
*
9548172 ATAATAAATCACATATCATAAAATAT
1 ATAATAAA-CACATATAATAAAATAT
9548198 ATAA
1 ATAA
9548202 AGTAATGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 8 0.31
26 17 0.65
27 1 0.04
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAATAAACACATATAATAAAATAT
Found at i:9570893 original size:14 final size:14
Alignment explanation
Indices: 9570876--9570903 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9570866 TTTTAAATGC
9570876 CATATTTAATATAA
1 CATATTTAATATAA
9570890 CATATTTAATATAA
1 CATATTTAATATAA
9570904 TAATTCTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
CATATTTAATATAA
Found at i:9571021 original size:10 final size:10
Alignment explanation
Indices: 9571006--9571040 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
9570996 TTATTTTAAT
9571006 TATTTAATTA
1 TATTTAATTA
9571016 TATTTAATTA
1 TATTTAATTA
*
9571026 TATTTTAATCA
1 TA-TTTAATTA
9571037 TATT
1 TATT
9571041 AAAAATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTTAATTA
Found at i:9571034 original size:21 final size:22
Alignment explanation
Indices: 9571008--9571058 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
9570998 ATTTTAATTA
* *
9571008 TTTAATTATATT-TAATTATAT
1 TTTAATTATATTAAAATGATAT
*
9571029 TTTAATCATATTAAAAATGATAT
1 TTTAATTATATT-AAAATGATAT
9571052 TTTAATT
1 TTTAATT
9571059 TAATCATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 11 0.46
23 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAATTATATTAAAATGATAT
Found at i:9571074 original size:16 final size:15
Alignment explanation
Indices: 9571055--9571101 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 15
9571045 ATGATATTTT
*
9571055 AATTTAATCATATTA
1 AATTTAATAATATTA
9571070 CAATTTAATAATATTA
1 -AATTTAATAATATTA
9571086 AATTATAATAATATTA
1 AATT-TAATAATATTA
9571102 TTATAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 4 0.14
16 25 0.86
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAATAATATTA
Found at i:9571124 original size:13 final size:13
Alignment explanation
Indices: 9571106--9571131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9571096 ATATTATTAT
9571106 AATTATAAAAATA
1 AATTATAAAAATA
9571119 AATTATAAAAATA
1 AATTATAAAAATA
9571132 TTTATAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTATAAAAATA
Found at i:9571259 original size:2 final size:2
Alignment explanation
Indices: 9571240--9571274 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
9571230 TAGTATTAGC
* *
9571240 TA TA TG TA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9571275 GTTAGTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9571326 original size:11 final size:10
Alignment explanation
Indices: 9571311--9571360 Score: 59
Period size: 9 Copynumber: 5.0 Consensus size: 10
9571301 ATAATATTAC
9571311 TATATATTTT
1 TATATATTTT
9571321 TA-ATATTTT
1 TATATATTTT
*
9571330 TAGA-ATTTT
1 TATATATTTT
9571339 TAATATATTTT
1 T-ATATATTTT
9571350 TAGTATATTTT
1 TA-TATATTTT
9571361 ACATTTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
9 15 0.43
10 6 0.17
11 14 0.40
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (10 bp):
TATATATTTT
Found at i:9571425 original size:13 final size:14
Alignment explanation
Indices: 9571393--9571426 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9571383 ATTTTTTATT
9571393 TTTATATAGATATAA
1 TTTA-ATAGATATAA
9571408 TTTAATAGATAT-A
1 TTTAATAGATATAA
9571421 TTTAAT
1 TTTAAT
9571427 TTTAATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 8 0.42
15 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (14 bp):
TTTAATAGATATAA
Found at i:9571429 original size:35 final size:35
Alignment explanation
Indices: 9571390--9571464 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
9571380 ATAATTTTTT
* *
9571390 ATTTTTATATAGAT-ATA-ATTTAATAGATATATTTA
1 ATTTTAATATAGATAATAGATTTAAT--ATAAATTTA
9571425 ATTTTAATATAGATAGATAGATTTAATATAAATTTA
1 ATTTTAATATAGATA-ATAGATTTAATATAAATTTA
9571461 ATTT
1 ATTT
9571465 ATTTATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 13 0.37
36 12 0.34
37 3 0.09
38 7 0.20
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (35 bp):
ATTTTAATATAGATAATAGATTTAATATAAATTTA
Found at i:9574920 original size:161 final size:159
Alignment explanation
Indices: 9574583--9574941 Score: 377
Period size: 161 Copynumber: 2.2 Consensus size: 159
9574573 ATCTAAAAGT
* *
9574583 TTAATTTGTATTTTTACCTTTAA-AAGGCA-AAAATAATCCCAAATAGATGTAAACGAAAACTTT
1 TTAATTTGTATTTTTACCTTTAACAA--CATAAAA-AGTCCCAAATAGACGTAAACGAAAACTTT
* *
9574646 TTCAGACATATCAACCGTAGAAATCAAGTTCAATCATTCGAATAAGTTTAATATCATATATTGAA
63 TTCAGACATATCAACCATAGAAATCAAGTTCAATCATTAGAATAAGTTTAATATCATATATTGAA
* * * * *
9574711 GCTATCCAAATTGTTAAAATAGAACAATAACA
128 ACTATCAAAACTATTAAAACAGAACAATAACA
** *
9574743 ACAATTTTGTATTTTTACCTATTAACAACATAAAAAGTCCTAAATAGACGTAAAC-AATAACTTT
1 TTAA-TTTGTATTTTTACCT-TTAACAACATAAAAAGTCCCAAATAGACGTAAACGAA-AACTTT
* * * * * * *
9574807 TTTATACATATCAACTATGGCAA-CTAAGTTCAATACTTTAG-ATAAGTTTAATATCATGTATTG
63 TTCAGACATATCAACCATAGAAATC-AAGTTCAAT-CATTAGAATAAGTTTAATATCATATATTG
* *
9574870 AAACTATCAAAACTATTAAAACAGAATAATAACTG
126 AAACTATCAAAACTATTAAAACAGAACAATAAC-A
* * *
9574905 TTAATTTGCATTTTTATCTTTTAACAGCATAAAAAGT
1 TTAATTTGTATTTTTA-CCTTTAACAACATAAAAAGT
9574942 TCATTCAATT
Statistics
Matches: 164, Mismatches: 26, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
160 5 0.03
161 141 0.86
162 16 0.10
163 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (159 bp):
TTAATTTGTATTTTTACCTTTAACAACATAAAAAGTCCCAAATAGACGTAAACGAAAACTTTTTC
AGACATATCAACCATAGAAATCAAGTTCAATCATTAGAATAAGTTTAATATCATATATTGAAACT
ATCAAAACTATTAAAACAGAACAATAACA
Found at i:9578383 original size:21 final size:21
Alignment explanation
Indices: 9578328--9578373 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
9578318 GAACATCAAG
*
9578328 ATCACTAACTTGAGTATCGGT
1 ATCACTAACTTGAGTATCAGT
9578349 ATCACTAACTTGAGTATCAGT
1 ATCACTAACTTGAGTATCAGT
9578370 ATCA
1 ATCA
9578374 GTAATATGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (21 bp):
ATCACTAACTTGAGTATCAGT
Found at i:9581484 original size:13 final size:13
Alignment explanation
Indices: 9581468--9581501 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9581458 AATTCACTTT
9581468 AATTTTTTAAAGG
1 AATTTTTTAAAGG
*
9581481 AATTTATTAAAGG
1 AATTTTTTAAAGG
*
9581494 TATTTTTT
1 AATTTTTT
9581502 TGCATAATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (13 bp):
AATTTTTTAAAGG
Found at i:9582089 original size:63 final size:62
Alignment explanation
Indices: 9581921--9582094 Score: 163
Period size: 64 Copynumber: 2.7 Consensus size: 62
9581911 TGTTTGAAGA
* * * *
9581921 AATTTATTGAAGGCATTTTTTTGCATAATACGCCTTCAATAATTTTTCTATTTTTATTAAAGG
1 AATTTATTGAAGGTA-TTTTTTACATAATACGCCTTCAATAATTTTTCAATTTTTATTAAAAG
* * * * * * *
9581984 AATATCATTGAAAGTAATTTTCTAC-TAAAAATGCTTTTAATAATTCATTTCAATTTTT-TTAAA
1 AAT-TTATTGAAGGT-ATTTTTTACAT-AATACGCCTTCAATAATT--TTTCAATTTTTATTAAA
9582047 AG
61 AG
* *
9582049 AATTTAGTGAAGGTATTTTTTACATCATACGCCTTCAATAATTTTT
1 AATTTATTGAAGGTATTTTTTACATAATACGCCTTCAATAATTTTT
9582095 ATGCAGAATT
Statistics
Matches: 85, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
61 3 0.04
63 25 0.29
64 37 0.44
65 10 0.12
66 10 0.12
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (62 bp):
AATTTATTGAAGGTATTTTTTACATAATACGCCTTCAATAATTTTTCAATTTTTATTAAAAG
Found at i:9582701 original size:28 final size:27
Alignment explanation
Indices: 9582634--9582701 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 27
9582624 AAATATTATA
9582634 GTTTGCTGAATGGTATTATATGATATT
1 GTTTGCTGAATGGTATTATATGATATT
* * *
9582661 GTTATACTAAATGGTATTATTTGATATT
1 GTT-TGCTGAATGGTATTATATGATATT
9582689 GGTTTGCTGAATG
1 -GTTTGCTGAATG
9582702 ATTTGCTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 3 0.09
28 28 0.82
29 3 0.09
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.47
Consensus pattern (27 bp):
GTTTGCTGAATGGTATTATATGATATT
Found at i:9582726 original size:12 final size:12
Alignment explanation
Indices: 9582688--9582764 Score: 55
Period size: 12 Copynumber: 6.3 Consensus size: 12
9582678 TATTTGATAT
9582688 TGGTTTGCTGAA
1 TGGTTTGCTGAA
* *
9582700 TGATTTGCTAAA
1 TGGTTTGCTGAA
*
9582712 TGGTTTACTGAA
1 TGGTTTGCTGAA
*
9582724 TGGTGTTTCTGAA
1 TGGT-TTGCTGAA
**** *
9582737 CACATTGCTGAT
1 TGGTTTGCTGAA
*
9582749 TGTTTTGCTGAA
1 TGGTTTGCTGAA
9582761 TGGT
1 TGGT
9582765 GATTTTATAC
Statistics
Matches: 46, Mismatches: 18, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
12 39 0.85
13 7 0.15
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.43
Consensus pattern (12 bp):
TGGTTTGCTGAA
Found at i:9585585 original size:222 final size:223
Alignment explanation
Indices: 9585192--9585639 Score: 686
Period size: 222 Copynumber: 2.0 Consensus size: 223
9585182 ATTAAGTAAC
* * *
9585192 TTTTTTTCTTTTCAATTTAAGGTAATATCTTCATTTGATAAGAAGGCAAAGAAAAAATGGGTGTC
1 TTTTTTTCTTTTCAATTTAAGGTAATATCTGCATTTGATAAGAAGACAAAGAAAAAACGGGTGTC
* **
9585257 ATTGCTGATAAATGTGAAATTTATTCTTTTATGCTGAGTTTGTATAGATAAATATTTTTTAAACC
66 ATTACTGATAAATGTGAAATTTATTCTTTTATGCTGAGTTTGTATAGATAAATATTTCCTAAACC
* * *
9585322 TACTAAATTTAATTTTCAAGTATCTCGTTAGCCCAGATATACTGAATGTGGATATTATGTAC-TT
131 CACTAAATTTAATTTTCAAGTAACTCGTTAGCCCAGATATACTGAATGTGGATATTATAT-CTTT
* *
9585386 CATTTTATGCAGACGATAGTTTTATATAA
195 CATTTTATACAGAAGATAGTTTTATATAA
* *
9585415 TTTTTTTCTTTTCAGTTTAAGGTAATATC-GCATTTGATAAGAAGATAAAGAAAAAACGGGTGTC
1 TTTTTTTCTTTTCAATTTAAGGTAATATCTGCATTTGATAAGAAGACAAAGAAAAAACGGGTGTC
*
9585479 ATTACTGATAAATGTGAAATTTATTCTTTTATGCTGAGTTTGTGTAGATAAATATTTCCTAAACC
66 ATTACTGATAAATGTGAAATTTATTCTTTTATGCTGAGTTTGTATAGATAAATATTTCCTAAACC
* *
9585544 CACTAAATTTAATTTTCAGGTAAGTCGTTAG-CCATGATATACTGAATGTGGATATTATATCTTT
131 CACTAAATTTAATTTTCAAGTAACTCGTTAGCCCA-GATATACTGAATGTGGATATTATATCTTT
** *
9585608 TGTTTTATACAGAAGATAGTTTTATATGA
195 CATTTTATACAGAAGATAGTTTTATATAA
9585637 TTT
1 TTT
9585640 GATGACCACA
Statistics
Matches: 204, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
221 4 0.02
222 172 0.84
223 28 0.14
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (223 bp):
TTTTTTTCTTTTCAATTTAAGGTAATATCTGCATTTGATAAGAAGACAAAGAAAAAACGGGTGTC
ATTACTGATAAATGTGAAATTTATTCTTTTATGCTGAGTTTGTATAGATAAATATTTCCTAAACC
CACTAAATTTAATTTTCAAGTAACTCGTTAGCCCAGATATACTGAATGTGGATATTATATCTTTC
ATTTTATACAGAAGATAGTTTTATATAA
Found at i:9586568 original size:129 final size:129
Alignment explanation
Indices: 9586330--9586568 Score: 302
Period size: 129 Copynumber: 1.9 Consensus size: 129
9586320 AATCGCATTC
* * * *
9586330 AATAATCTCTCATAAAAATTTATTATATGGATTATTAAAGGCGTTTTAGGTAAAAATCGCCTTCA
1 AATAATCCCTCATAAAAATTTATTATATGGAATATTAAAGGCGCTTTAGCTAAAAATCGCCTTCA
* * * * * *
9586395 AGAATCCGTTTTAACTTTTTTGTATGGATTATTGAATGTATTTTTTTAATTCAAAATTGCCTTA
66 AGAATCCATTTCAAATTTTTTCTATGGATTATTGAAGGCATTTTTTTAATTCAAAATTGCCTTA
* * * *
9586459 AATAATCCCTCATAAAAATTTATTA-ATTGGAATATTGAAGGTGCTTTCGACTAAAAAT-GCTTT
1 AATAATCCCTCATAAAAATTTATTATA-TGGAATATTAAAGGCGCTTTAG-CTAAAAATCGCCTT
* *
9586522 CAAGAATCTATTTCAAATTTTTTCTATGGATTATTGAAGGCGTTTTT
64 CAAGAATCCATTTCAAATTTTTTCTATGGATTATTGAAGGCATTTTT
9586569 CTATCGAAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
128 1 0.01
129 84 0.91
130 7 0.08
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.42
Consensus pattern (129 bp):
AATAATCCCTCATAAAAATTTATTATATGGAATATTAAAGGCGCTTTAGCTAAAAATCGCCTTCA
AGAATCCATTTCAAATTTTTTCTATGGATTATTGAAGGCATTTTTTTAATTCAAAATTGCCTTA
Found at i:9586659 original size:64 final size:63
Alignment explanation
Indices: 9586532--9586660 Score: 145
Period size: 64 Copynumber: 2.0 Consensus size: 63
9586522 CAAGAATCTA
** * * * *
9586532 TTTCAAATTTTTTCTATGGATTATTGAAGGCGTTTTTCTATCGAAAATGCCTTCAATATTCTCT
1 TTTCAAATTTTTTAAATGGATTAGTGAAGGCATTTTTCTA-CGAAAACGCCTTCAATAATCTCT
*
9586596 TTTCAAATTTTTTAAATGGATTAGTGAAGGCATTTTTGCCTA-GAAAACG-CTTAGAATAATCTC
1 TTTCAAATTTTTTAAATGGATTAGTGAAGGCATTTTT--CTACGAAAACGCCTT-CAATAATCTC
9586659 T
63 T
9586660 T
1 T
9586661 ATAAATAATC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
63 3 0.05
64 49 0.89
66 3 0.05
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (63 bp):
TTTCAAATTTTTTAAATGGATTAGTGAAGGCATTTTTCTACGAAAACGCCTTCAATAATCTCT
Found at i:9589054 original size:26 final size:26
Alignment explanation
Indices: 9589025--9589096 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
9589015 GTTAAAATTC
* *
9589025 AATTTGTATAA-CAAAAGAAATCTAAT
1 AATTTATATAATC-AAAGAAAACTAAT
*
9589051 AATTTATATAATCAGAGAAAACTAAT
1 AATTTATATAATCAAAGAAAACTAAT
*
9589077 AATTTATATAATCAGAGAAA
1 AATTTATATAATCAAAGAAA
9589097 GCAATGTCAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
26 41 0.98
27 1 0.02
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (26 bp):
AATTTATATAATCAAAGAAAACTAAT
Found at i:9589272 original size:6 final size:6
Alignment explanation
Indices: 9589261--9589286 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9589251 ACTGTAAATT
9589261 TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TT
9589287 TATTATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:9591291 original size:18 final size:17
Alignment explanation
Indices: 9591268--9591301 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9591258 ATTTTAATTT
*
9591268 TATTTTTCAAAGTTTTTG
1 TATTTTT-AAAATTTTTG
9591286 TATTTTTAAAATTTTT
1 TATTTTTAAAATTTTT
9591302 TAATATAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTTAAAATTTTTG
Found at i:9591986 original size:18 final size:18
Alignment explanation
Indices: 9591963--9592007 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
9591953 AAATAAATTT
9591963 AATATTTTAAAAA-ACTAA
1 AATATTTTAAAAATAC-AA
*
9591981 AATATTTATAAAAATGCAA
1 AATATTT-TAAAAATACAA
9592000 AATATTTT
1 AATATTTT
9592008 TTATTTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 15 0.62
20 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATTTTAAAAATACAA
Found at i:9594545 original size:12 final size:12
Alignment explanation
Indices: 9594518--9594553 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
9594508 TTGAACATTA
9594518 TTTATTAATATTT
1 TTTATTAAT-TTT
*
9594531 TTTACTAATTTT
1 TTTATTAATTTT
9594543 TTTATTAATTT
1 TTTATTAATTT
9594554 GAATATCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATTAATTTT
Found at i:9594851 original size:15 final size:15
Alignment explanation
Indices: 9594833--9594864 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9594823 TTTCTCTTTT
*
9594833 CTAAACAATTTTTAA
1 CTAAAAAATTTTTAA
9594848 CTAAAAAATTTTTAA
1 CTAAAAAATTTTTAA
9594863 CT
1 CT
9594865 TTATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (15 bp):
CTAAAAAATTTTTAA
Found at i:9597065 original size:29 final size:27
Alignment explanation
Indices: 9596993--9597066 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
9596983 ATTTCTTAAA
*
9596993 TTTTTATTTTATTTTTCAATTTATTTT
1 TTTTTAGTTTATTTTTCAATTTATTTT
* * *
9597020 TATTTAGGATTTTTTTTTCATTTTATTTT
1 TTTTTA-G-TTTATTTTTCAATTTATTTT
9597049 TGTTTTAGTTATATTTTT
1 T-TTTTAGTT-TATTTTT
9597067 TCTGGTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 5 0.14
28 2 0.05
29 26 0.70
30 4 0.11
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (27 bp):
TTTTTAGTTTATTTTTCAATTTATTTT
Found at i:9597940 original size:14 final size:14
Alignment explanation
Indices: 9597921--9597947 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9597911 AAAGTTTTAG
9597921 AAACTTCATTTAAA
1 AAACTTCATTTAAA
9597935 AAACTTCATTTAA
1 AAACTTCATTTAA
9597948 GTTTTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (14 bp):
AAACTTCATTTAAA
Found at i:9599878 original size:3 final size:3
Alignment explanation
Indices: 9599870--9599917 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
9599860 CTTAAAGTTC
9599870 ATT ATT ATT 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 ATT
9599918 TCATTCATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9603105 original size:41 final size:42
Alignment explanation
Indices: 9603052--9603142 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 42
9603042 CTGTTAATTA
* * *
9603052 TATTCTAGTAATA-TTCTGATAATATTTTAGATTGA-TGATAT
1 TATTTTAGTAATATTTC-AATAATATTCTAGATTGATTGATAT
*
9603093 TATTTTAGTAATATTTCAATAATGTTCTAGATTGATTTGATAT
1 TATTTTAGTAATATTTCAATAATATTCTAGATTGA-TTGATAT
*
9603136 TAATTTA
1 TATTTTA
9603143 AAAAATATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 27 0.64
42 3 0.07
43 12 0.29
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (42 bp):
TATTTTAGTAATATTTCAATAATATTCTAGATTGATTGATAT
Found at i:9607145 original size:11 final size:11
Alignment explanation
Indices: 9607126--9607155 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
9607116 CTTAGGCTAC
9607126 TATTTTTTTCT
1 TATTTTTTTCT
9607137 TGATTTTTTTCT
1 T-ATTTTTTTCT
9607149 TATTTTT
1 TATTTTT
9607156 GACGAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TATTTTTTTCT
Found at i:9613212 original size:19 final size:19
Alignment explanation
Indices: 9613183--9613275 Score: 82
Period size: 19 Copynumber: 4.9 Consensus size: 19
9613173 GGGTTCGGGG
9613183 TTTA-AGTTTAGGGTTTGA
1 TTTAGAGTTTAGGGTTTGA
* * *
9613201 TTTTGGGTTTAGGGTTTGG
1 TTTAGAGTTTAGGGTTTGA
* *
9613220 TTTAGAGTTTAGGTTTTGG
1 TTTAGAGTTTAGGGTTTGA
**
9613239 TTTAGAGTTT-GGGCTAGGA
1 TTTAGAGTTTAGGG-TTTGA
*
9613258 GTTTAGGGTTTAGGGTTT
1 -TTTAGAGTTTAGGGTTT
9613276 AGGGTTTGAC
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
18 5 0.09
19 40 0.69
20 10 0.17
21 3 0.05
ACGTcount: A:0.15, C:0.01, G:0.35, T:0.48
Consensus pattern (19 bp):
TTTAGAGTTTAGGGTTTGA
Found at i:9613216 original size:32 final size:32
Alignment explanation
Indices: 9613156--9613328 Score: 138
Period size: 32 Copynumber: 5.3 Consensus size: 32
9613146 GTTTGCATAA
* ** *
9613156 GTTTTGGGTTTAGG-TTAGGGTTCGGGGTTTAA
1 GTTTAGGGTTTAGGTTTAGGGTTTAGGGTTT-G
* *
9613188 GTTTAGGGTTT-GATTTTGGGTTTAGGGTTTG
1 GTTTAGGGTTTAGGTTTAGGGTTTAGGGTTTG
* * *
9613219 GTTTAGAGTTTAGGTTT-TGGTTTAGAGTTTG
1 GTTTAGGGTTTAGGTTTAGGGTTTAGGGTTTG
**
9613250 GGCTAGGAGTTTAGGGTTTAGGGTTTAGGGTTTG
1 GTTTAGG-GTTTA-GGTTTAGGGTTTAGGGTTTG
** *
9613284 ACTTAAGG-TTATGGTTTAGGGTTTAGGGTTTAGG
1 GTTTAGGGTTTA-GGTTTAGGGTTTAGGGTTT--G
9613318 GTTTAGGGTTT
1 GTTTAGGGTTT
9613329 TGGAGGGTGG
Statistics
Matches: 110, Mismatches: 23, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
31 27 0.25
32 54 0.49
33 6 0.05
34 21 0.19
35 2 0.02
ACGTcount: A:0.14, C:0.02, G:0.38, T:0.46
Consensus pattern (32 bp):
GTTTAGGGTTTAGGTTTAGGGTTTAGGGTTTG
Found at i:9613308 original size:46 final size:45
Alignment explanation
Indices: 9613206--9613328 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 45
9613196 TTTGATTTTG
* * * *
9613206 GGTTTAGGGTTT--GGTTTAGAGTTTAGGTTTTGGTTTAGAGTTT
1 GGTTTAGGGTTTAGGGTTTAGGGTTTAGGGTTTGCTTAAGAGTTT
**
9613249 GGGCTAGGAGTTTAGGGTTTAGGGTTTAGGGTTTGACTTAAG-GTTAT
1 GGTTTAGG-GTTTAGGGTTTAGGGTTTAGGGTTTG-CTTAAGAGTT-T
9613296 GGTTTAGGGTTTAGGGTTTAGGGTTTAGGGTTT
1 GGTTTAGGGTTTAGGGTTTAGGGTTTAGGGTTT
9613329 TGGAGGGTGG
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
43 6 0.09
44 4 0.06
46 46 0.69
47 11 0.16
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.45
Consensus pattern (45 bp):
GGTTTAGGGTTTAGGGTTTAGGGTTTAGGGTTTGCTTAAGAGTTT
Found at i:9613347 original size:7 final size:7
Alignment explanation
Indices: 9613156--9613328 Score: 113
Period size: 7 Copynumber: 26.6 Consensus size: 7
9613146 GTTTGCATAA
*
9613156 GTTTTGG
1 GTTTAGG
9613163 GTTTA-G
1 GTTTAGG
9613169 G-TTAGG
1 GTTTAGG
**
9613175 GTTCGGG
1 GTTTAGG
*
9613182 GTTTA-A
1 GTTTAGG
9613188 GTTTAGG
1 GTTTAGG
9613195 GTTT--G
1 GTTTAGG
* *
9613200 ATTTTGG
1 GTTTAGG
9613207 GTTTAGG
1 GTTTAGG
9613214 GTTT--G
1 GTTTAGG
*
9613219 GTTTAGA
1 GTTTAGG
9613226 GTTTA-G
1 GTTTAGG
*
9613232 GTTT-TG
1 GTTTAGG
*
9613238 GTTTAGA
1 GTTTAGG
9613245 GTTT-GG
1 GTTTAGG
*
9613251 G-CTAGG
1 GTTTAGG
9613257 AGTTTAGG
1 -GTTTAGG
9613265 GTTTAGG
1 GTTTAGG
9613272 GTTTAGG
1 GTTTAGG
9613279 GTTT--G
1 GTTTAGG
** *
9613284 ACTTAAG
1 GTTTAGG
*
9613291 G-TTATG
1 GTTTAGG
9613297 GTTTAGG
1 GTTTAGG
9613304 GTTTAGG
1 GTTTAGG
9613311 GTTTAGG
1 GTTTAGG
9613318 GTTTAGG
1 GTTTAGG
9613325 GTTT
1 GTTT
9613329 TGGAGGGTGG
Statistics
Matches: 129, Mismatches: 22, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
5 16 0.12
6 27 0.21
7 82 0.64
8 4 0.03
ACGTcount: A:0.14, C:0.02, G:0.38, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:9613361 original size:19 final size:19
Alignment explanation
Indices: 9613319--9613366 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
9613309 GGGTTTAGGG
* * *
9613319 TTTAGGGTTTTGGAGGGTGG
1 TTTAGGG-TTCGGAGAGTGA
9613339 TTTAGGGTTCGGAGAGTGA
1 TTTAGGGTTCGGAGAGTGA
*
9613358 TTTACGGTT
1 TTTAGGGTT
9613367 GGGAATTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.15, C:0.04, G:0.42, T:0.40
Consensus pattern (19 bp):
TTTAGGGTTCGGAGAGTGA
Found at i:9618499 original size:16 final size:16
Alignment explanation
Indices: 9618475--9618525 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
9618465 ACTTTATTAT
*
9618475 TCTTGTTTTTTTTTTC
1 TCTTTTTTTTTTTTTC
9618491 TCTTTTTTTTTCTTTT-
1 TCTTTTTTTTT-TTTTC
*
9618507 TCATAATTTTTTTTTTTC
1 TC-T-TTTTTTTTTTTTC
9618525 T
1 T
9618526 TTTAGAAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 12 0.41
17 9 0.31
18 8 0.28
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.80
Consensus pattern (16 bp):
TCTTTTTTTTTTTTTC
Found at i:9632083 original size:22 final size:22
Alignment explanation
Indices: 9632058--9632111 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
9632048 CTTTCAACAA
*
9632058 ATGTACATATAATTATAGTAAC
1 ATGTACATATAATTATAATAAC
* * **
9632080 ATGTACTTATAGTTATAATTTC
1 ATGTACATATAATTATAATAAC
9632102 ATGTACATAT
1 ATGTACATAT
9632112 CATGTACATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (22 bp):
ATGTACATATAATTATAATAAC
Found at i:9632170 original size:16 final size:16
Alignment explanation
Indices: 9632117--9632176 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
9632107 CATATCATGT
* *
9632117 ACATATGATGATAGTA
1 ACATATAATTATAGTA
*
9632133 ACATATAATTACT--TT
1 ACATATAATTA-TAGTA
*
9632148 GCATATAATTATAGTA
1 ACATATAATTATAGTA
*
9632164 ACATATAGTTATA
1 ACATATAATTATA
9632177 TAATTAATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
14 1 0.03
15 11 0.32
16 21 0.62
17 1 0.03
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.38
Consensus pattern (16 bp):
ACATATAATTATAGTA
Found at i:9632248 original size:22 final size:22
Alignment explanation
Indices: 9632220--9632278 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
9632210 GTTTCAACAA
9632220 ATGTACATATAGTTATACTAAC
1 ATGTACATATAGTTATACTAAC
* *
9632242 ATGTACATATAGATATATTAAC
1 ATGTACATATAGTTATACTAAC
*
9632264 ATGTATATATAGTTA
1 ATGTACATATAGTTA
9632279 CAGTTTCATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.39
Consensus pattern (22 bp):
ATGTACATATAGTTATACTAAC
Found at i:9632444 original size:22 final size:23
Alignment explanation
Indices: 9632419--9632471 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
9632409 GTTATAATAA
9632419 CATGTACATATAATGATA-GTTT
1 CATGTACATATAATGATAGGTTT
* *
9632441 CATGTACATATAGTTATAGGTTT
1 CATGTACATATAATGATAGGTTT
9632464 -ATGTACAT
1 CATGTACAT
9632472 GTCTATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (23 bp):
CATGTACATATAATGATAGGTTT
Found at i:9632470 original size:178 final size:176
Alignment explanation
Indices: 9632058--9632492 Score: 463
Period size: 178 Copynumber: 2.4 Consensus size: 176
9632048 CTTTCAACAA
* * * * *
9632058 ATGTACATATA-ATTATAGTAACATGTACTTATAGTTATAATTTCATGTACATATC-ATGTACAT
1 ATGTACATATAGA-TATATTAACATGTACATATAGTTACAGTTTCATGTACATGTCTAT-TA-A-
* * * *
9632121 ATGATGATAGTAACATATAATTAC-TTTGCATATAATTATAGTAACATATAGTTATATAATTAAT
62 A-GAT-ATA-T-ACATAAAATTACAATT--ATAT-GTTATAGTAACATATAGATATATAATTAAT
* * *
9632185 GTACTTATTTTTTAAAATTTTTATAGTTTCAACAAATGTACATATAGTTATACTAAC
120 GTACTTATGTTTTAAAATTTTTATAGTTTCAACAAAAGTACATATAGTTATAATAAC
*
9632242 ATGTACATATAGATATATTAACATGTATATATAGTTACAGTTTCATGTACAATGTACT-TTAAAG
1 ATGTACATATAGATATATTAACATGTACATATAGTTACAGTTTCATGTAC-ATGT-CTATTAAAG
*
9632306 ATATTTACATAAAATTACAATTATATGTTATAGTAACATATAGATATATAATTAATGTACTTATG
64 ATATATACATAAAATTACAATTATATGTTATAGTAACATATAGATATATAATTAATGTACTTATG
* * **
9632371 TTTT-AAATTTTTTTATGCTTTCATCAAAAGTTTATATAGTTATAATAAC
129 TTTTAAAATTTTTATA-G-TTTCAACAAAAGTACATATAGTTATAATAAC
* *
9632420 ATGTACATATA-ATGATAGTT-TCATGTACATATAGTTATAGGTTT-ATGTACATGTCTATTAAA
1 ATGTACATATAGAT-ATA-TTAACATGTACATATAGTTACA-GTTTCATGTACATGTCTATTAAA
*
9632482 GGTATATACAT
63 GATATATACAT
9632493 TGTTATTTGA
Statistics
Matches: 217, Mismatches: 23, Indels: 29
0.81 0.09 0.11
Matches are distributed among these distances:
176 12 0.06
177 61 0.28
178 66 0.30
179 17 0.08
180 3 0.01
181 2 0.01
182 3 0.01
183 1 0.00
184 44 0.20
185 6 0.03
186 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (176 bp):
ATGTACATATAGATATATTAACATGTACATATAGTTACAGTTTCATGTACATGTCTATTAAAGAT
ATATACATAAAATTACAATTATATGTTATAGTAACATATAGATATATAATTAATGTACTTATGTT
TTAAAATTTTTATAGTTTCAACAAAAGTACATATAGTTATAATAAC
Found at i:9634083 original size:37 final size:37
Alignment explanation
Indices: 9634023--9634094 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
9634013 TATAGATTGA
* *
9634023 GTCAATGTAAAATAAAAAGAACACTTGAAAAACTTGG
1 GTCAATGTAAAACAAAAAGAACACTCGAAAAACTTGG
*
9634060 GTCAATGTAAAACAAAATA-AACACTCGAAAGACTT
1 GTCAATGTAAAACAAAA-AGAACACTCGAAAAACTT
9634095 TCCTAACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (37 bp):
GTCAATGTAAAACAAAAAGAACACTCGAAAAACTTGG
Found at i:9635095 original size:26 final size:26
Alignment explanation
Indices: 9635066--9635121 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
9635056 GAAAAATTAA
*
9635066 ATCTTGAGGAATTTTAGAAGTTCTTG
1 ATCTTGAAGAATTTTAGAAGTTCTTG
9635092 ATCTTGAAGAATTTTAGAAGTTCTTG
1 ATCTTGAAGAATTTTAGAAGTTCTTG
9635118 ATCT
1 ATCT
9635122 AATCTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (26 bp):
ATCTTGAAGAATTTTAGAAGTTCTTG
Found at i:9636431 original size:21 final size:20
Alignment explanation
Indices: 9636407--9636477 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
9636397 TTCTTTCAAG
9636407 TTAATTTAAATTTCTGCTAGT
1 TTAATTTAAATTTCT-CTAGT
**
9636428 TTAATTTAGTTTTGCTCTAGT
1 TTAATTTAAATTT-CTCTAGT
* *
9636449 TTGATTTAAAGTTTCTCAAGT
1 TTAATTTAAA-TTTCTCTAGT
*
9636470 TAAATTTA
1 TTAATTTA
9636478 GTTGTATAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 35 0.88
22 5 0.12
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.52
Consensus pattern (20 bp):
TTAATTTAAATTTCTCTAGT
Found at i:9638076 original size:31 final size:31
Alignment explanation
Indices: 9638012--9638075 Score: 121
Period size: 30 Copynumber: 2.1 Consensus size: 31
9638002 AAATTTAAAA
9638012 TTTCACCATTTCCTTACTAATAAATAGTTTT
1 TTTCACCATTTCCTTACTAATAAATAGTTTT
9638043 TTTCA-CATTTCCTTACTAATAAATAGTTTT
1 TTTCACCATTTCCTTACTAATAAATAGTTTT
9638073 TTT
1 TTT
9638076 TAGTATCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 28 0.85
31 5 0.15
ACGTcount: A:0.28, C:0.17, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTCACCATTTCCTTACTAATAAATAGTTTT
Found at i:9638148 original size:63 final size:63
Alignment explanation
Indices: 9638049--9638173 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
9638039 TTTTTTTCAC
9638049 ATTTCCTTACTAATAAATAGTTTTTTTTAGTATCAATTAATAGAAATTTATATTAAAAGGCAT
1 ATTTCCTTACTAATAAATAGTTTTTTTTAGTATCAATTAATAGAAATTTATATTAAAAGGCAT
9638112 ATTTCCTTACTAATAAATAGTTTTTTTTTA-TATCAATTAATAGAAATTTATATTAAAAGGCA
1 ATTTCCTTACTAATAAATAG-TTTTTTTTAGTATCAATTAATAGAAATTTATATTAAAAGGCA
9638174 CCTTTTCCAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 52 0.85
64 9 0.15
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (63 bp):
ATTTCCTTACTAATAAATAGTTTTTTTTAGTATCAATTAATAGAAATTTATATTAAAAGGCAT
Found at i:9638362 original size:10 final size:10
Alignment explanation
Indices: 9638349--9638401 Score: 51
Period size: 9 Copynumber: 5.7 Consensus size: 10
9638339 AAATATCAAA
9638349 TTATATATTT
1 TTATATATTT
*
9638359 TTATTTA-TT
1 TTATATATTT
*
9638368 TTAAATA-TT
1 TTATATATTT
*
9638377 TTAAATATTT
1 TTATATATTT
9638387 TTATA-ATTT
1 TTATATATTT
9638396 TT-TATA
1 TTATATA
9638402 ATTAATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 2 0.05
9 23 0.62
10 12 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTATATATTT
Found at i:9638412 original size:13 final size:11
Alignment explanation
Indices: 9638349--9638413 Score: 54
Period size: 10 Copynumber: 6.4 Consensus size: 11
9638339 AAATATCAAA
9638349 TTAT-ATATTT
1 TTATAATATTT
*
9638359 TTAT-TTA-TT
1 TTATAATATTT
9638368 TTA-AATA-TT
1 TTATAATATTT
9638377 TTA-AATATTT
1 TTATAATATTT
9638387 TTATAAT-TTT
1 TTATAATATTT
9638397 TTATAATTAATTT
1 TTATAA-T-ATTT
9638410 TTAT
1 TTAT
9638414 CTAAAACTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
9 16 0.34
10 20 0.43
11 4 0.09
13 7 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTATAATATTT
Found at i:9642990 original size:22 final size:23
Alignment explanation
Indices: 9642951--9642996 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
9642941 AAAGTACATG
* * *
9642951 ATCCATAAATCAACTTAACCAAA
1 ATCCATAAATAAAATTAAACAAA
9642974 ATCCA-AAATAAAATTAAACAAA
1 ATCCATAAATAAAATTAAACAAA
9642996 A
1 A
9642997 AATAAACCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.61, C:0.20, G:0.00, T:0.20
Consensus pattern (23 bp):
ATCCATAAATAAAATTAAACAAA
Found at i:9646389 original size:18 final size:18
Alignment explanation
Indices: 9646353--9646389 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9646343 AAAGGATATT
* *
9646353 AATTATATTGAGAAGCCA
1 AATTATATTGAAAAACCA
9646371 AATTATATTGAAAAACCA
1 AATTATATTGAAAAACCA
9646389 A
1 A
9646390 GAATTAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTATATTGAAAAACCA
Found at i:9647988 original size:13 final size:14
Alignment explanation
Indices: 9647965--9647993 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9647955 AAAGGAACAA
9647965 AATATATAAACTTC
1 AATATATAAACTTC
9647979 AATA-ATAAACTTC
1 AATATATAAACTTC
9647992 AA
1 AA
9647994 AATCAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
AATATATAAACTTC
Found at i:9649233 original size:9 final size:9
Alignment explanation
Indices: 9649221--9649276 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
9649211 CAAATTTTTT
9649221 AATATAAAA
1 AATATAAAA
9649230 AATA-AAAA
1 AATATAAAA
* * *
9649238 TAGATAATA
1 AATATAAAA
9649247 AATATAAAA
1 AATATAAAA
*
9649256 AATTTAAAAA
1 AATAT-AAAA
9649266 AATGATAAAA
1 AAT-ATAAAA
9649276 A
1 A
9649277 CATAGAAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
8 6 0.17
9 17 0.47
10 12 0.33
11 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (9 bp):
AATATAAAA
Found at i:9649537 original size:7 final size:7
Alignment explanation
Indices: 9649501--9649530 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
9649491 CAAAAGTGTT
9649501 TTATTTA
1 TTATTTA
9649508 TTATTTA
1 TTATTTA
*
9649515 TTATTTG
1 TTATTTA
9649522 TTATTTA
1 TTATTTA
9649529 TT
1 TT
9649531 TATTATTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:9659116 original size:20 final size:20
Alignment explanation
Indices: 9659080--9659118 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9659070 AGAAAGAAAA
*
9659080 ACTAAAAATAACTTTCAAAC
1 ACTAAAAATAACATTCAAAC
9659100 ACTAAAAATAGA-ATTCAAA
1 ACTAAAAATA-ACATTCAAA
9659119 ATAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.59, C:0.15, G:0.03, T:0.23
Consensus pattern (20 bp):
ACTAAAAATAACATTCAAAC
Found at i:9662309 original size:20 final size:20
Alignment explanation
Indices: 9662284--9662323 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9662274 ATATTATTTT
9662284 ATATTAT-TTATAATATTATC
1 ATATTATATTATAA-ATTATC
*
9662304 ATATTATATTTTAAATTATC
1 ATATTATATTATAAATTATC
9662324 CAAAACTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATTATATTATAAATTATC
Found at i:9663511 original size:14 final size:15
Alignment explanation
Indices: 9663487--9663515 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9663477 AAAGATGTAC
9663487 AAACAAAAAATAAAA
1 AAACAAAAAATAAAA
9663502 AAAC-AAAAATAAAA
1 AAACAAAAAATAAAA
9663516 TAAAATAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (15 bp):
AAACAAAAAATAAAA
Found at i:9663529 original size:19 final size:19
Alignment explanation
Indices: 9663493--9663530 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9663483 GTACAAACAA
9663493 AAAATAAAAAAACAAAAAT
1 AAAATAAAAAAACAAAAAT
*
9663512 AAAATAAAATAAGCAAAAA
1 AAAATAAAA-AAACAAAAA
9663531 AAGAACTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.11
Consensus pattern (19 bp):
AAAATAAAAAAACAAAAAT
Found at i:9664969 original size:2 final size:2
Alignment explanation
Indices: 9664962--9665001 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9664952 AACCAGATTG
9664962 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9665002 AGTATATCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9665773 original size:24 final size:22
Alignment explanation
Indices: 9665746--9665794 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 22
9665736 CATAAATTTT
9665746 AAAAAAATAAAACTAAAATAAGAA
1 AAAAAAATAAAACTAAAA-AA-AA
*
9665770 AAAAAACTAAAACTAAAAAAAA
1 AAAAAAATAAAACTAAAAAAAA
9665792 AAA
1 AAA
9665795 TAAAGTGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.21
23 2 0.08
24 17 0.71
ACGTcount: A:0.82, C:0.06, G:0.02, T:0.10
Consensus pattern (22 bp):
AAAAAAATAAAACTAAAAAAAA
Found at i:9665777 original size:18 final size:18
Alignment explanation
Indices: 9665747--9665798 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
9665737 ATAAATTTTA
9665747 AAAAAATAAAACTAAAA-T
1 AAAAAA-AAAACTAAAACT
9665765 AAGAAAAAAAACTAAAACT
1 AA-AAAAAAAACTAAAACT
*
9665784 AAAAAAAAAAATAAA
1 AAAAAAAAAACTAAA
9665799 GTGTCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 24 0.77
19 7 0.23
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.12
Consensus pattern (18 bp):
AAAAAAAAAACTAAAACT
Found at i:9671121 original size:2 final size:2
Alignment explanation
Indices: 9671114--9671142 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9671104 TCTATTAATA
9671114 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9671143 ATGTTCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:9671927 original size:35 final size:36
Alignment explanation
Indices: 9671863--9671932 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 36
9671853 TTTTTTAAAC
*
9671863 AAATTTTATATGTAATATTATCAAATAAATATATTTT
1 AAATTTTATA-GTAATAATATCAAATAAATATATTTT
* *
9671900 AAATTTTATA-TAATAATATTAAGTAAATATATT
1 AAATTTTATAGTAATAATATCAAATAAATATATT
9671933 AGCACTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 20 0.67
37 10 0.33
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (36 bp):
AAATTTTATAGTAATAATATCAAATAAATATATTTT
Found at i:9673536 original size:14 final size:14
Alignment explanation
Indices: 9673519--9673558 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9673509 AGTATATCTC
9673519 TATAAATATAAATA
1 TATAAATATAAATA
*
9673533 TATAAATATATATA
1 TATAAATATAAATA
* *
9673547 TGTATATATAAA
1 TATAAATATAAA
9673559 GAAACATAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
TATAAATATAAATA
Found at i:9679268 original size:17 final size:17
Alignment explanation
Indices: 9679228--9679274 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
9679218 TATAATCACC
*
9679228 AAGGTAATTTTATTAGT
1 AAGGTGATTTTATTAGT
* *
9679245 GATGTGATTTTATTAGT
1 AAGGTGATTTTATTAGT
*
9679262 AAGGTGATCTTAT
1 AAGGTGATTTTAT
9679275 CCCTTTTAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (17 bp):
AAGGTGATTTTATTAGT
Found at i:9679771 original size:119 final size:119
Alignment explanation
Indices: 9679616--9679983 Score: 587
Period size: 119 Copynumber: 3.0 Consensus size: 119
9679606 CAGAATTTTT
* *
9679616 AAAACATTTTTACTGATGAATCACCGATAGATTTTATTGACGGAATAAAATCCATAAGTAATCCA
1 AAAACATTTTTACCGATGAATCACCGATAGATTTTATTGACGGAATAAAATCCATAGGTAATCCA
9679681 TCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAAACGGATTTATCGACA
66 TCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAAACGGATTTATCGACA
9679735 AAAACATTTTTACCGATGAATCACCGATAGATTTTATTGACGGAATAAAATCCATAGGTAATCCA
1 AAAACATTTTTACCGATGAATCACCGATAGATTTTATTGACGGAATAAAATCCATAGGTAATCCA
* * *
9679800 TCGCTAAAAGTTAGATGCAAATTGCCTTCAATTTTACAAAC-TAATTACCTACAGA-A
66 TCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAAACGGATTTA--T-C-GACA
*
9679856 TTTTTAAAACATTTTTACCGATGAATCACCGATAGATTTTATTGACGGAATAAAATTCATAGGTA
1 -----AAAACATTTTTACCGATGAATCACCGATAGATTTTATTGACGGAATAAAATCCATAGGTA
9679921 ATCCATCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAAACGGATTTATCGACA
61 ATCCATCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAAACGGATTTATCGACA
9679980 AAAA
1 AAAA
9679984 AATCCGTTGC
Statistics
Matches: 229, Mismatches: 9, Indels: 22
0.88 0.03 0.08
Matches are distributed among these distances:
118 4 0.02
119 107 0.47
120 1 0.00
121 2 0.01
122 2 0.01
123 2 0.01
124 2 0.01
125 1 0.00
126 104 0.45
127 4 0.02
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (119 bp):
AAAACATTTTTACCGATGAATCACCGATAGATTTTATTGACGGAATAAAATCCATAGGTAATCCA
TCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAAACGGATTTATCGACA
Found at i:9679909 original size:126 final size:126
Alignment explanation
Indices: 9679594--9679966 Score: 611
Period size: 126 Copynumber: 3.0 Consensus size: 126
9679584 TTTTTTCGTC
*
9679594 ACTAATTACCTACAGAATTTTTAAAACATTTTTACTGATGAATCACCGATAGATTTTATTGACGG
1 ACTAATTACCTACAGAATTTTTAAAACATTTTTACCGATGAATCACCGATAGATTTTATTGACGG
*
9679659 AATAAAATCCATAAGTAATCCATCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAA
66 AATAAAATCCATAGGTAATCCATCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAA
**
9679720 ACGGATT---TATC-GACA-----AAAACATTTTTACCGATGAATCACCGATAGATTTTATTGAC
1 ACTAATTACCTA-CAGA-ATTTTTAAAACATTTTTACCGATGAATCACCGATAGATTTTATTGAC
*
9679776 GGAATAAAATCCATAGGTAATCCATCGCTAAAAGTTAGATGCAAATTGCCTTCAATTTTACAA
64 GGAATAAAATCCATAGGTAATCCATCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAA
9679839 ACTAATTACCTACAGAATTTTTAAAACATTTTTACCGATGAATCACCGATAGATTTTATTGACGG
1 ACTAATTACCTACAGAATTTTTAAAACATTTTTACCGATGAATCACCGATAGATTTTATTGACGG
*
9679904 AATAAAATTCATAGGTAATCCATCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAA
66 AATAAAATCCATAGGTAATCCATCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAA
9679965 AC
1 AC
9679967 GGATTTATCG
Statistics
Matches: 227, Mismatches: 9, Indels: 22
0.88 0.03 0.09
Matches are distributed among these distances:
119 106 0.47
121 2 0.01
122 4 0.02
123 4 0.02
124 2 0.01
126 109 0.48
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (126 bp):
ACTAATTACCTACAGAATTTTTAAAACATTTTTACCGATGAATCACCGATAGATTTTATTGACGG
AATAAAATCCATAGGTAATCCATCGCTAAAAGTTAGATGCGAATTGCCTTCAATTTTACAA
Found at i:9680138 original size:18 final size:18
Alignment explanation
Indices: 9680098--9680131 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9680088 GATAAAAGTC
9680098 AAAAAAAATTTATTGTCA
1 AAAAAAAATTTATTGTCA
9680116 AAAAAAAATTT-TTGTC
1 AAAAAAAATTTATTGTC
9680132 GATAAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
AAAAAAAATTTATTGTCA
Found at i:9680551 original size:60 final size:59
Alignment explanation
Indices: 9680484--9680606 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 59
9680474 ATGTGTTGAG
* *
9680484 TTTTTGTTAGTTAATTAT-TTGA-TGAAATTTATTTGGGTTTTGGCTT-TATATTTATTGAAA
1 TTTTTGTTAGTT--TTATCTT-ATTGAAATTTATTTAGGTTTTGG-TTATATATTTATTAAAA
* *
9680544 TTTTTGTTGGTTTTATGCTTATTGAAATTTATTTAGGTTTTGGTTATATATTTGTTAAAA
1 TTTTTGTTAGTTTTAT-CTTATTGAAATTTATTTAGGTTTTGGTTATATATTTATTAAAA
9680604 TTT
1 TTT
9680607 GTTAGTGATA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
58 4 0.07
59 3 0.05
60 48 0.87
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.59
Consensus pattern (59 bp):
TTTTTGTTAGTTTTATCTTATTGAAATTTATTTAGGTTTTGGTTATATATTTATTAAAA
Found at i:9680587 original size:33 final size:32
Alignment explanation
Indices: 9680506--9680593 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 32
9680496 AATTATTTGA
* *
9680506 TGAAATTTATTTGGGTTTTGGCTTTATATTTAT
1 TGAAATTTATTT-GGTTTTGGTTTTATACTTAT
*
9680539 TGAAA-TT-TTT-G--TTGGTTTTATGCTTAT
1 TGAAATTTATTTGGTTTTGGTTTTATACTTAT
*
9680566 TGAAATTTATTTAGGTTTTGGTTATATA
1 TGAAATTTATTT-GGTTTTGGTTTTATA
9680594 TTTGTTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
27 18 0.41
28 2 0.05
29 4 0.09
31 4 0.09
32 2 0.05
33 14 0.32
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.57
Consensus pattern (32 bp):
TGAAATTTATTTGGTTTTGGTTTTATACTTAT
Found at i:9688158 original size:19 final size:20
Alignment explanation
Indices: 9688134--9688171 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
9688124 AGGGTTTGAA
9688134 AATAATTATAAAT-TTTTTG
1 AATAATTATAAATCTTTTTG
9688153 AATAATTATAAATCTTTTT
1 AATAATTATAAATCTTTTT
9688172 ATTTAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
AATAATTATAAATCTTTTTG
Found at i:9688884 original size:15 final size:16
Alignment explanation
Indices: 9688864--9688897 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9688854 TTAATTTGAA
*
9688864 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
9688879 AATATAAAATAATTAT
1 AATATAAAATAATTAT
9688895 AAT
1 AAT
9688898 TTTAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:9690142 original size:2 final size:2
Alignment explanation
Indices: 9690135--9690159 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9690125 GCCATTTTAA
9690135 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9690160 ATAGATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9691874 original size:16 final size:16
Alignment explanation
Indices: 9691853--9691900 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
9691843 ACCCCTACAA
9691853 AATTACATATTAAATT
1 AATTACATATTAAATT
9691869 AATTACATA--AAACTT
1 AATTACATATTAAA-TT
**
9691884 AACAACATATTAAATT
1 AATTACATATTAAATT
9691900 A
1 A
9691901 CTATAATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 3 0.11
15 9 0.33
16 12 0.44
17 3 0.11
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTACATATTAAATT
Found at i:9700553 original size:365 final size:365
Alignment explanation
Indices: 9699883--9700619 Score: 1422
Period size: 365 Copynumber: 2.0 Consensus size: 365
9699873 TTGAAGGCAG
9699883 AAGATTTTAATTAACCTAGAGATTTTTTTTACCACTTGACTATTTGTAACATAATAGCAATAACT
1 AAGATTTTAATTAACCTAGAGATTTTTTTTACCACTTGACTATTTGTAACATAATAGCAATAACT
*
9699948 TGTACATTGTGGTTGAGGTTAGAGTTAGTTGGTTGAATGGATTCTTTCAATTTTTCTCATGATGT
66 TGTACAATGTGGTTGAGGTTAGAGTTAGTTGGTTGAATGGATTCTTTCAATTTTTCTCATGATGT
*
9700013 TTAGATATGCTGCTAATGACATTGGTTGATGAAAGTAGGAAAAGTCCATCAAATAGTTATAGAAG
131 TTAGATATGCTGCTAATGACATTGGTTGATGAAAGTAGGAAAAGTCCATCAAATAGTTATAAAAG
9700078 TTATATCTAATGTAGCTTAAGTAGGATTTTGCATGAGAAATAATAATTGTATTACATAAAGACTA
196 TTATATCTAATGTAGCTTAAGTAGGATTTTGCATGAGAAATAATAATTGTATTACATAAAGACTA
9700143 ACCCTTTTGAACACTTTTACTTTATACTCCTAGGTTCAATCTCTGGATTTTGTAAAAATTACCTT
261 ACCCTTTTGAACACTTTTACTTTATACTCCTAGGTTCAATCTCTGGATTTTGTAAAAATTACCTT
9700208 TATTTGATATTTGTGTCTTTTTTAAGTATTTAGAGTTGTC
326 TATTTGATATTTGTGTCTTTTTTAAGTATTTAGAGTTGTC
9700248 AAGATTTTAATTAACCTAGAGATTTTTTTTACCACTTGACTATTTGTAACATAATAGCAATAACT
1 AAGATTTTAATTAACCTAGAGATTTTTTTTACCACTTGACTATTTGTAACATAATAGCAATAACT
9700313 TGTACAATGTGGTTGAGGTTAGAGTTAGTTGGTTGAATGGATTCTTTCAATTTTTCTCATGATGT
66 TGTACAATGTGGTTGAGGTTAGAGTTAGTTGGTTGAATGGATTCTTTCAATTTTTCTCATGATGT
*
9700378 TTAGATATGCTGCTAATGGCATTGGTTGATGGAAA-TAGGAAAAGTCCATCAAATAGTTATAAAA
131 TTAGATATGCTGCTAATGACATTGGTTGAT-GAAAGTAGGAAAAGTCCATCAAATAGTTATAAAA
9700442 GTTATATCTAATGTAGCTTAAGTAGGATTTTGCATGAGAAATAATAATTGTATTACATAAAGACT
195 GTTATATCTAATGTAGCTTAAGTAGGATTTTGCATGAGAAATAATAATTGTATTACATAAAGACT
*
9700507 AACCCTTTTGAACACTTTTACTTTATACTCCTAGGTTCAATCTCTGGATTTTGTAAAAATTGCCT
260 AACCCTTTTGAACACTTTTACTTTATACTCCTAGGTTCAATCTCTGGATTTTGTAAAAATTACCT
9700572 TTATTTGATATTTGTGTCTTTTTTAAGTATTTAGAGTTGTC
325 TTATTTGATATTTGTGTCTTTTTTAAGTATTTAGAGTTGTC
9700613 AAGATTT
1 AAGATTT
9700620 GAACCCTGAT
Statistics
Matches: 367, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
365 363 0.99
366 4 0.01
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (365 bp):
AAGATTTTAATTAACCTAGAGATTTTTTTTACCACTTGACTATTTGTAACATAATAGCAATAACT
TGTACAATGTGGTTGAGGTTAGAGTTAGTTGGTTGAATGGATTCTTTCAATTTTTCTCATGATGT
TTAGATATGCTGCTAATGACATTGGTTGATGAAAGTAGGAAAAGTCCATCAAATAGTTATAAAAG
TTATATCTAATGTAGCTTAAGTAGGATTTTGCATGAGAAATAATAATTGTATTACATAAAGACTA
ACCCTTTTGAACACTTTTACTTTATACTCCTAGGTTCAATCTCTGGATTTTGTAAAAATTACCTT
TATTTGATATTTGTGTCTTTTTTAAGTATTTAGAGTTGTC
Found at i:9705563 original size:15 final size:15
Alignment explanation
Indices: 9705528--9705566 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
9705518 GCATGACCGT
*
9705528 GTAAAATAAAAAATTA
1 GTAAAA-AAAAAATGA
*
9705544 GTAAAAAAAGAATGA
1 GTAAAAAAAAAATGA
9705559 GTAAAAAA
1 GTAAAAAA
9705567 GGTTAGAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (15 bp):
GTAAAAAAAAAATGA
Found at i:9717456 original size:35 final size:35
Alignment explanation
Indices: 9717396--9717534 Score: 106
Period size: 35 Copynumber: 4.0 Consensus size: 35
9717386 TTAATCCTAT
*
9717396 TCATTTTTA-TTTCTGACTCACGGTTTAATCGCGA
1 TCATTTTTATTTTTTGACTCACGGTTTAATCGCGA
** * ** *
9717430 TCATTTTTATTTTTTGACTCGTGGTTTATTTTCTA
1 TCATTTTTATTTTTTGACTCACGGTTTAATCGCGA
* * *
9717465 TCATCTTTATTTTTTTGACTCACAGTTCAATC-CTGA
1 TCATTTTTA-TTTTTTGACTCACGGTTTAATCGC-GA
* * * *
9717501 TC-TCTTTA-TTTTTAACTCACGGTTCAATCTCGA
1 TCATTTTTATTTTTTGACTCACGGTTTAATCGCGA
9717534 T
1 T
9717535 TTGTTATTTT
Statistics
Matches: 84, Mismatches: 17, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
33 22 0.26
34 10 0.12
35 33 0.39
36 19 0.23
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.50
Consensus pattern (35 bp):
TCATTTTTATTTTTTGACTCACGGTTTAATCGCGA
Found at i:9717595 original size:35 final size:35
Alignment explanation
Indices: 9717538--9717629 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 35
9717528 TCTCGATTTG
* * *
9717538 TTATTTTCTAACTTGT-AGTTTAATCTC-GATTGTCA
1 TTATTATCTAACTCGTGA-TTTAATCTCAG-TCGTCA
*
9717573 TTATTATCTGACTCGTGATTTAATCTCAGTCGTCA
1 TTATTATCTAACTCGTGATTTAATCTCAGTCGTCA
* *
9717608 TTATTCTCTAACTCGTGGTTTA
1 TTATTATCTAACTCGTGATTTA
9717630 GTTCTGGTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
35 46 0.96
36 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (35 bp):
TTATTATCTAACTCGTGATTTAATCTCAGTCGTCA
Found at i:9717647 original size:35 final size:35
Alignment explanation
Indices: 9717573--9717795 Score: 116
Period size: 35 Copynumber: 6.4 Consensus size: 35
9717563 TCGATTGTCA
* * * **
9717573 TTATTATCTGACTCGTGATTTAAT-CTCAGTCGTCA
1 TTATTTTCTAACTCGTGATTTAATCCT-AGTCATTT
* * * * *
9717608 TTATTCTCTAACTCGTGGTTTAGTTCTGGTCATTT
1 TTATTTTCTAACTCGTGATTTAATCCTAGTCATTT
* *
9717643 TTATTTTTTAACTCGTGATTTAATCCTAGTTATTT
1 TTATTTTCTAACTCGTGATTTAATCCTAGTCATTT
* * * * * *
9717678 TTATTTTCTAACT-TTCAATTTAATCTTGGTCGTCT
1 TTATTTTCTAACTCGT-GATTTAATCCTAGTCATTT
* * *
9717713 TTATTTTCTGACTTACG-G-TTCAATCCTAGTC-TCT
1 TTATTTTCTAAC-T-CGTGATTTAATCCTAGTCATTT
* * * * * **
9717747 TTATTTTCTAACTTGTAATTCAATCCCAATC-TCA
1 TTATTTTCTAACTCGTGATTTAATCCTAGTCATTT
9717781 TTATTTTCTAACTCG
1 TTATTTTCTAACTCG
9717796 CAATTCAATC
Statistics
Matches: 145, Mismatches: 36, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
32 1 0.01
33 1 0.01
34 42 0.29
35 98 0.68
36 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (35 bp):
TTATTTTCTAACTCGTGATTTAATCCTAGTCATTT
Found at i:9717769 original size:34 final size:34
Alignment explanation
Indices: 9717642--9717806 Score: 125
Period size: 34 Copynumber: 4.8 Consensus size: 34
9717632 TCTGGTCATT
* * * * * *
9717642 TTTATTTTTTAACTCGTGATTTAATCCTAGTTATT
1 TTTATTTTCTAACTTGTAATTCAATCCTAG-TCTC
* * *
9717677 TTTATTTTCTAACTT-TCAATTTAATCTTGGTCGTC
1 TTTATTTTCTAACTTGT-AATTCAATCCTAGTC-TC
* ****
9717712 TTTATTTTCTGACTTACGGTTCAATCCTAGTCTC
1 TTTATTTTCTAACTTGTAATTCAATCCTAGTCTC
* *
9717746 TTTATTTTCTAACTTGTAATTCAATCCCAATCTC
1 TTTATTTTCTAACTTGTAATTCAATCCTAGTCTC
* * *
9717780 ATTATTTTCTAACTCGCAATTCAATCC
1 TTTATTTTCTAACTTGTAATTCAATCC
9717807 CGATTGTTAT
Statistics
Matches: 103, Mismatches: 24, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
34 55 0.53
35 48 0.47
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (34 bp):
TTTATTTTCTAACTTGTAATTCAATCCTAGTCTC
Found at i:9718035 original size:35 final size:35
Alignment explanation
Indices: 9717991--9718112 Score: 136
Period size: 35 Copynumber: 3.5 Consensus size: 35
9717981 TTAATTCTGG
* * *
9717991 TCATATTTATTTTTTAACTTGAGGTTCAATTTCGA
1 TCATTTTTATTTTTTGACTTGTGGTTCAATTTCGA
* * * *
9718026 TCATTTTTATTTTTTGACTTGTGGTTTAGTCTCAA
1 TCATTTTTATTTTTTGACTTGTGGTTCAATTTCGA
* * * *
9718061 TCATCTTTGTTTTTTGACTTGTGATTCAATTTCGG
1 TCATTTTTATTTTTTGACTTGTGGTTCAATTTCGA
*
9718096 TCATTTTCATTTTTTGA
1 TCATTTTTATTTTTTGA
9718113 TTTGCGGCTT
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 69 1.00
ACGTcount: A:0.19, C:0.12, G:0.13, T:0.56
Consensus pattern (35 bp):
TCATTTTTATTTTTTGACTTGTGGTTCAATTTCGA
Found at i:9718052 original size:70 final size:70
Alignment explanation
Indices: 9717955--9718126 Score: 168
Period size: 70 Copynumber: 2.5 Consensus size: 70
9717945 GTCAGTCCCA
* * ** *
9717955 ATCATTTTTGCTTTTTT-ACTTACGGTTTAAT-TCTGGTCATATTTATTTTTTAACTTGAGGTTC
1 ATCATTTTT-ATTTTTTGACTTACGGTTTAGTCTC-AATCATATTTATTTTTTAACTTGAGATTC
9718018 AATTTCG
64 AATTTCG
** * * * *
9718025 ATCATTTTTATTTTTTGACTTGTGGTTTAGTCTCAATCATCTTTGTTTTTTGACTTGTGATTCAA
1 ATCATTTTTATTTTTTGACTTACGGTTTAGTCTCAATCATATTTATTTTTTAACTTGAGATTCAA
9718090 TTTCG
66 TTTCG
* * * * *
9718095 GTCATTTTCATTTTTTGATTTGCGGCTTAGTC
1 ATCATTTTTATTTTTTGACTTACGGTTTAGTC
9718127 CTAGCCATCT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
69 6 0.07
70 76 0.90
71 2 0.02
ACGTcount: A:0.17, C:0.13, G:0.15, T:0.55
Consensus pattern (70 bp):
ATCATTTTTATTTTTTGACTTACGGTTTAGTCTCAATCATATTTATTTTTTAACTTGAGATTCAA
TTTCG
Found at i:9718136 original size:70 final size:70
Alignment explanation
Indices: 9718000--9718149 Score: 185
Period size: 70 Copynumber: 2.1 Consensus size: 70
9717990 GTCATATTTA
* * * * *
9718000 TTTTTTAACTTGAGGTTCAATTTCGATCATTTTTATTTTTTGACTTGTGGTTTAGTCTCAATCAT
1 TTTTTTAACTTGAGATTCAATTTCGATCATTTTCATTTTTTGACTTGCGGCTTAGTCTCAACCAT
9718065 CTTTG
66 CTTTG
* * * * *
9718070 TTTTTTGACTTGTGATTCAATTTCGGTCATTTTCATTTTTTGATTTGCGGCTTAGTC-CTAGCCA
1 TTTTTTAACTTGAGATTCAATTTCGATCATTTTCATTTTTTGACTTGCGGCTTAGTCTC-AACCA
9718134 TCTTTG
65 TCTTTG
*
9718140 TTTTTCAACT
1 TTTTTTAACT
9718150 CGCGGTTCAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
69 1 0.01
70 66 0.99
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (70 bp):
TTTTTTAACTTGAGATTCAATTTCGATCATTTTCATTTTTTGACTTGCGGCTTAGTCTCAACCAT
CTTTG
Found at i:9718394 original size:7 final size:7
Alignment explanation
Indices: 9718382--9718413 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
9718372 CAAAATAATA
9718382 AAAAAAC
1 AAAAAAC
9718389 AAAAAAC
1 AAAAAAC
9718396 -AAAAAC
1 AAAAAAC
9718402 AAAAAA-
1 AAAAAAC
9718408 AAAAAA
1 AAAAAA
9718414 TAATAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:9718413 original size:13 final size:13
Alignment explanation
Indices: 9718381--9718413 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
9718371 TCAAAATAAT
9718381 AAAAAAACAAAAA
1 AAAAAAACAAAAA
*
9718394 ACAAAAACAAAAA
1 AAAAAAACAAAAA
9718407 AAAAAAA
1 AAAAAAA
9718414 TAATAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAA
Found at i:9718670 original size:13 final size:13
Alignment explanation
Indices: 9718652--9718676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9718642 TATGGACTAA
9718652 GACCATTTAAGAG
1 GACCATTTAAGAG
9718665 GACCATTTAAGA
1 GACCATTTAAGA
9718677 CTTATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (13 bp):
GACCATTTAAGAG
Found at i:9719065 original size:145 final size:144
Alignment explanation
Indices: 9718888--9719283 Score: 464
Period size: 144 Copynumber: 2.7 Consensus size: 144
9718878 CCCAAGAAGG
* * * *
9718888 TAAAATTATC-AAGTACCCTTAT-AGAGGTATTTTTCTAATTTGATATTCTTAAGCTTGAATTTT
1 TAAAATTATCAAAATACCCTTATAAG-GGTATTTTTCTAATTTGAT-TTCCTGAGCTCGAATTTT
** * * * *
9718951 TGTGAAAATTTTCAAATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTTAAATCACAGC
64 CATGAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATCTGAAATCACAGC
9719016 AATACCC-C-AAAAAGTA
129 AAT-CCCTCGAAAAA-TA
* * * *
9719032 TAAAATTA-CAAAAATACCCTTATAAGGGTATTTTCCTAATTTAGCTTTCCTGAGCTCGAAATTC
1 TAAAATTATC-AAAATACCCTTATAAGGGTATTTTTCTAATTT-GATTTCCTGAGCTCGAATTTT
** *
9719096 CACAAAAATTTTCAGATCTT-ATTTCATAATATTTCATGATTTTTGGTGTATCTGAAATCACAGC
64 CATGAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATCTGAAATCACAGC
9719160 AATCCCTCGAAAAATA
129 AATCCCTCGAAAAATA
* * ** *
9719176 TAAAATTATCGAAATACCCTTATAAGGGTA-TATTCATAATTTGGCCTTCCTGAGCTCGGATTTT
1 TAAAATTATCAAAATACCCTTATAAGGGTATTTTTC-TAATTT-GATTTCCTGAGCTCGAATTTT
*
9719240 CATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTT
64 CATGAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTT
9719284 AATATTTTAA
Statistics
Matches: 215, Mismatches: 28, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
143 7 0.03
144 121 0.56
145 83 0.39
146 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (144 bp):
TAAAATTATCAAAATACCCTTATAAGGGTATTTTTCTAATTTGATTTCCTGAGCTCGAATTTTCA
TGAAAATTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATCTGAAATCACAGCAA
TCCCTCGAAAAATA
Found at i:9721920 original size:32 final size:32
Alignment explanation
Indices: 9721884--9721964 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 32
9721874 AGGATAACTC
* *
9721884 CACAAGTCAGAAAAGAATGACCAAAACAACAT
1 CACAAGTCAAAAAAAAATGACCAAAACAACAT
**
9721916 CACAAGTCAAAAATAAAAAATGACCAGGACAACAT
1 CACAAGTC--AAA-AAAAAATGACCAAAACAACAT
9721951 CACAAGTCAAAAAA
1 CACAAGTCAAAAAA
9721965 TAAAGATGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
32 11 0.26
33 3 0.07
34 2 0.05
35 26 0.62
ACGTcount: A:0.58, C:0.21, G:0.11, T:0.10
Consensus pattern (32 bp):
CACAAGTCAAAAAAAAATGACCAAAACAACAT
Found at i:9722034 original size:137 final size:138
Alignment explanation
Indices: 9721883--9722281 Score: 320
Period size: 137 Copynumber: 2.9 Consensus size: 138
9721873 CAGGATAACT
* * *
9721883 CCACAAGTCAGAAAAGAATGACCAAAACAACATCACAAGTCAAAAATAAAAAATGACCAGGACAA
1 CCACAAGTAAGAAAAGAACGACCAAAACAACACCACAAGTCAAAAATAAAAAATGACCAGGACAA
* **
9721948 CATCACAAGTCAAAAAATAAAG-ATGA-CTGGGACAACACCACAAGTTGAAAAATAAAAATGATT
66 CATCACAAGTCAAAAAATAAAGAACGATC-GGGACAACACCACAAGTCAAAAAATAAAAATGATT
9722011 AGGACAATA
130 AGGACAATA
* *** * * ** * * *
9722020 CCACAAGTAAGAAAAGAACGATCGGGATAGCACCACAAGTTGAAAATAAAGAATGATCGGGACAA
1 CCACAAGTAAGAAAAGAACGACCAAAACAACACCACAAGTCAAAAATAAAAAATGACCAGGACAA
* * * *
9722085 CATCACAAGTTAGAAAATAGAGAACGATCGGGACAATACCACAAGTCAAAAAATAAAAAAATGAT
66 CATCACAAGTCAAAAAATAAAGAACGATCGGGACAACACCACAAGTCAAAAAAT--AAAAATGAT
* * *
9722150 T-GAAATAACA
129 TAG-GACAATA
* * * * * ** * * *
9722160 CCACAAGTCAAAAAATAAATAATGACTAAGATGACACCACAAGTCAAAAAATAGAAAACGACCGG
1 CCACAAGT---AAGA-AAAGAACGACCAAAACAACACCACAAGTC-AAAAATAAAAAATGACCAG
* * * * * * *
9722225 GACAACACCACAAGT-TAGAAATAAAAAATGATCAGGATAACACCACAAGTCAAAAAA
61 GACAACATCACAAGTCAAAAAATAAAGAACGATCGGGACAACACCACAAGTCAAAAAA
9722282 AAATATAAAA
Statistics
Matches: 203, Mismatches: 49, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
137 70 0.34
138 25 0.12
139 2 0.01
140 22 0.11
143 3 0.01
144 53 0.26
145 28 0.14
ACGTcount: A:0.54, C:0.18, G:0.15, T:0.13
Consensus pattern (138 bp):
CCACAAGTAAGAAAAGAACGACCAAAACAACACCACAAGTCAAAAATAAAAAATGACCAGGACAA
CATCACAAGTCAAAAAATAAAGAACGATCGGGACAACACCACAAGTCAAAAAATAAAAATGATTA
GGACAATA
Found at i:9722211 original size:109 final size:106
Alignment explanation
Indices: 9721909--9722286 Score: 275
Period size: 102 Copynumber: 3.6 Consensus size: 106
9721899 AATGACCAAA
* * * * * * *
9721909 ACAACATCACAAGTCAAAAATAAAAAATGACCAGGACAACATCACAAGTCAAAAAATAAA-GATG
1 ACAACACCACAAGTAAAAAATAAAAAATGATCAGAATAACACCACAAGTCAAAAAA-AAATAATG
** ** ** * ***
9721973 ACTGGGACAACACCACAAGTTGAAAAATA-AAAATGATTAGG
65 ACTAAGATGACACCACAAGTCAAAAAATAGAAAACGACCGGG
* * * * * * * ** * *
9722014 ACAATACCACAAGT--AAGA-AAAGAACGATCGGGATAGCACCACAAGTTGAAAATAAAGAATGA
1 ACAACACCACAAGTAAAAAATAAAAAATGATCAGAATAACACCACAAGTCAAAAAAAAATAATGA
** ** * * * * *
9722076 -TCGGGACAACATCACAAGTTAGAAAATAGAGAACGATCGGG
66 CT-AAGATGACACCACAAGTCAAAAAATAGAAAACGACCGGG
* *
9722117 ACAATACCACAAGTCAAAAAATAAAAAAATGAT-TGAAATAACACCACAAGTCAAAAAATAAATA
1 ACAACACCACAAGT-AAAAAAT-AAAAAATGATCAG-AATAACACCACAAGTCAAAAAA-AAATA
9722181 ATGACTAAGATGACACCACAAGTCAAAAAATAGAAAACGACCGGG
62 ATGACTAAGATGACACCACAAGTCAAAAAATAGAAAACGACCGGG
* * *
9722226 ACAACACCACAAGTTAGAAATAAAAAATGATCAGGATAACACCACAAGTCAAAAAAAAATA
1 ACAACACCACAAGTAAAAAATAAAAAATGATCAGAATAACACCACAAGTCAAAAAAAAATA
9722287 TAAAACAACT
Statistics
Matches: 216, Mismatches: 45, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
101 4 0.02
102 52 0.24
103 25 0.12
105 12 0.06
106 8 0.04
107 32 0.15
108 31 0.14
109 51 0.24
110 1 0.00
ACGTcount: A:0.54, C:0.17, G:0.15, T:0.14
Consensus pattern (106 bp):
ACAACACCACAAGTAAAAAATAAAAAATGATCAGAATAACACCACAAGTCAAAAAAAAATAATGA
CTAAGATGACACCACAAGTCAAAAAATAGAAAACGACCGGG
Found at i:9722269 original size:71 final size:68
Alignment explanation
Indices: 9721911--9722322 Score: 260
Period size: 71 Copynumber: 5.8 Consensus size: 68
9721901 TGACCAAAAC
* * *
9721911 AACATCACAAGTC-AAAAATAAAAAATGACCAGGACAACATCACAAGTCAAAAAATAAAGATGA-
1 AACACCACAAGTCAAAAAAT-AAAAATGACCAGGACAACACCACAAGTTAAAAAA-AAA-ATGAT
*
9721974 CTGGGAC
63 C-GGGAT
** ** * * * *
9721981 AACACCACAAGTTGAAAAATAAAAATGATTAGGACAATACCACAAG-TAAGAAAAGAACGATCGG
1 AACACCACAAGTCAAAAAATAAAAATGACCAGGACAACACCACAAGTTAAAAAAAAAATGATCGG
9722045 GAT
66 GAT
* ** * * * * *
9722048 AGCACCACAAGT-TGAAAATAAAGAATGATCGGGACAACATCACAAGTTAGAAAATAGAGAACGA
1 AACACCACAAGTCAAAAAATAAA-AATGACCAGGACAACACCACAAGTTA-AAAA-A-AAAATGA
*
9722112 TCGGGAC
62 TCGGGAT
* ** * * *
9722119 AATACCACAAGTCAAAAAATAAAAAAATGA-TTGAAATAACACCACAAGTCAAAAAATAAATAAT
1 AACACCACAAGTCAAAAAAT--AAAAATGACCAG-GACAACACCACAAGT-TAAAAA-AAA-AAT
**
9722183 GA-CTAAGAT
60 GATC-GGGAT
* * *
9722192 GACACCACAAGTCAAAAAATAGAAAACGACCGGGACAACACCACAAGTTAGAAATAAAAAATGAT
1 AACACCACAAGTCAAAAAATA-AAAATGACCAGGACAACACCACAAGTTA-AAA-AAAAAATGAT
*
9722257 CAGGAT
63 CGGGAT
** *
9722263 AACACCACAAGTCAAAAAAAAATATAAAACAACTAGGACAACACCACAAGTTAAAAAAAA
1 AACACCACAAGTC---AAAAAATA-AAAATGACCAGGACAACACCACAAGTTAAAAAAAA
9722323 TAGAAAACGA
Statistics
Matches: 271, Mismatches: 49, Indels: 42
0.75 0.14 0.12
Matches are distributed among these distances:
66 8 0.03
67 37 0.14
68 5 0.02
69 8 0.03
70 34 0.13
71 52 0.19
72 38 0.14
73 52 0.19
74 37 0.14
ACGTcount: A:0.55, C:0.17, G:0.15, T:0.14
Consensus pattern (68 bp):
AACACCACAAGTCAAAAAATAAAAATGACCAGGACAACACCACAAGTTAAAAAAAAAATGATCGG
GAT
Found at i:9722306 original size:39 final size:39
Alignment explanation
Indices: 9722193--9722353 Score: 113
Period size: 38 Copynumber: 4.3 Consensus size: 39
9722183 GACTAAGATG
* **
9722193 ACACCACAAGTC---AAAAAATAGAAAACGACCGGGACA
1 ACACCACAAGTCAAAAAAAAATAGAAAACAACTAGGACA
* * * ** * *
9722229 ACACCACAAGT-TAGAAATAA-A-AAATGATC-AGGATA
1 ACACCACAAGTCAAAAAAAAATAGAAAACAACTAGGACA
*
9722264 ACACCACAAGTCAAAAAAAAATATAAAACAACTAGGACA
1 ACACCACAAGTCAAAAAAAAATAGAAAACAACTAGGACA
* * **
9722303 ACACCACAAGT-TAAAAAAAATAGAAAACGACTAAAACA
1 ACACCACAAGTCAAAAAAAAATAGAAAACAACTAGGACA
* *
9722341 ATACTACAAGTCA
1 ACACCACAAGTCA
9722354 GATAAAGAAT
Statistics
Matches: 95, Mismatches: 22, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
35 15 0.16
36 21 0.22
37 2 0.02
38 41 0.43
39 16 0.17
ACGTcount: A:0.57, C:0.20, G:0.11, T:0.12
Consensus pattern (39 bp):
ACACCACAAGTCAAAAAAAAATAGAAAACAACTAGGACA
Found at i:9722314 original size:74 final size:70
Alignment explanation
Indices: 9722156--9722322 Score: 185
Period size: 74 Copynumber: 2.3 Consensus size: 70
9722146 TGATTGAAAT
* * * *
9722156 AACACCACAAGTCAAAAAATAAATAATGACTAAGATGACACCACAAGTCAAAAAATAGAAAACGA
1 AACACCACAAGT--TAAAATAAAAAATGACTAAGATAACACCACAAGTCAAAAAATAGAAAACAA
*
9722221 CCGGGAC
64 CCAGGAC
* *
9722228 AACACCACAAGTTAGAAATAAAAAATGA-TCAGGATAACACCACAAGTCAAAAAAAAATATAAAA
1 AACACCACAAGTTA-AAATAAAAAATGACT-AAGATAACACCACAAGTC---AAAAAATAGAAAA
*
9722292 CAACTAGGAC
61 CAACCAGGAC
9722302 AACACCACAAGTTAAAA-AAAA
1 AACACCACAAGTTAAAATAAAA
9722323 TAGAAAACGA
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
70 2 0.02
71 28 0.34
72 16 0.20
73 3 0.04
74 33 0.40
ACGTcount: A:0.57, C:0.19, G:0.11, T:0.12
Consensus pattern (70 bp):
AACACCACAAGTTAAAATAAAAAATGACTAAGATAACACCACAAGTCAAAAAATAGAAAACAACC
AGGAC
Found at i:9722319 original size:109 final size:108
Alignment explanation
Indices: 9722079--9722333 Score: 273
Period size: 109 Copynumber: 2.3 Consensus size: 108
9722069 AGAATGATCG
* * * *
9722079 GGACAACATCACAAGTTAGAAAATAGAGAACGATCGGGACAATACCACAAGTCAAAAAATAAAAA
1 GGACAACACCACAAGTTA-AAAATAGAAAACGACCGGGACAACACCACAAGTCAAAAAATAAAAA
* * **
9722144 AATGATTGAAATAACACCACAAGTCAAAAAATAAATAATGACTA
65 AATGATAGAAATAACACCACAAGTCAAAAAAAAAATAACAACTA
* ** * * *
9722188 AGATGACACCACAAGTCAAAAAATAGAAAACGACCGGGACAACACCACAAGT-TAGAAAT-AAAA
1 GGACAACACCACAAGT-TAAAAATAGAAAACGACCGGGACAACACCACAAGTCAAAAAATAAAAA
*
9722251 AATGATCAG-GATAACACCACAAGTCAAAAAAAAATATAAAACAACTA
65 AATGAT-AGAAATAACACCACAAGTCAAAAAAAAA-AT--AACAACTA
9722298 GGACAACACCACAAGTTAAAAAAAATAGAAAACGAC
1 GGACAACACCACAAGTT---AAAAATAGAAAACGAC
9722334 TAAAACAATA
Statistics
Matches: 119, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
107 33 0.28
108 8 0.07
109 42 0.35
110 20 0.17
112 16 0.13
ACGTcount: A:0.56, C:0.18, G:0.13, T:0.13
Consensus pattern (108 bp):
GGACAACACCACAAGTTAAAAATAGAAAACGACCGGGACAACACCACAAGTCAAAAAATAAAAAA
ATGATAGAAATAACACCACAAGTCAAAAAAAAAATAACAACTA
Found at i:9722392 original size:110 final size:109
Alignment explanation
Indices: 9722154--9722384 Score: 245
Period size: 110 Copynumber: 2.1 Consensus size: 109
9722144 AATGATTGAA
* ** * ** *
9722154 ATAACACCACAAGTCAAAAAATAA-AT--AATGACTAAGATGACACCACAAGTCAAAAAATAGAA
1 ATAACACCACAAGTCAAAAAAAAATATAAAACAACTAGGACAACACCACAAGTAAAAAAATAGAA
*** * * *
9722216 AACGACCGGGACAACACCACAAGTTAGAAATAAAAAATGATCAGG
66 AACGACCAAAACAACACCACAAGTCAG-AATAAAAAATGACCAAG
9722261 ATAACACCACAAGTCAAAAAAAAATATAAAACAACTAGGACAACACCACAAGTTAAAAAAAATAG
1 ATAACACCACAAGTCAAAAAAAAATATAAAACAACTAGGACAACACCACAAG-T-AAAAAAATAG
* * * *
9722326 AAAACGACTAAAACAATACTACAAGTCAG-ATAAAGAATGACCAAG
64 AAAACGACCAAAACAACACCACAAGTCAGAATAAAAAATGACCAAG
*
9722371 ATAATACCACAAGT
1 ATAACACCACAAGT
9722385 TAGAAAAATA
Statistics
Matches: 101, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
107 23 0.23
108 2 0.02
110 44 0.44
111 1 0.01
112 31 0.31
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.13
Consensus pattern (109 bp):
ATAACACCACAAGTCAAAAAAAAATATAAAACAACTAGGACAACACCACAAGTAAAAAAATAGAA
AACGACCAAAACAACACCACAAGTCAGAATAAAAAATGACCAAG
Found at i:9722403 original size:37 final size:36
Alignment explanation
Indices: 9721894--9722475 Score: 267
Period size: 35 Copynumber: 16.2 Consensus size: 36
9721884 CACAAGTCAG
* * *
9721894 AAAAGAATGACCAAAACAACATCACAAG-TCAAAAAT
1 AAAA-AATGACCAAGACAACACCACAAGTTAAAAAAT
* * *
9721930 AAAAAATGACCAGGACAACATCACAAGTCAAAAAAT
1 AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
* *** *
9721966 -AAAGATGACTGGGACAACACCACAAGTTGAAAAAT
1 AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
** * * *
9722001 -AAAAATGATTAGGACAATACCACAAG-T--AAGA-
1 AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
* * * ** * * *
9722032 AAAGAACGATCGGGATAGCACCACAAGTT-GAAAAT
1 AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
* * ** * *
9722067 AAAGAATGATCGGGACAACATCACAAGTTAGAAAAT
1 AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
* * * * ** * *
9722103 AGAGAACGATCGGGACAATACCACAAGTCAAAAAAT
1 AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
** * *
9722139 AAAAAAATGATTGAA-ATAACACCACAAGTCAAAAAAT
1 -AAAAAATGA-CCAAGACAACACCACAAGTTAAAAAAT
* * ** *
9722176 AAATAATGACTAAGATGACACCACAAGTCAAAAAAT
1 AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
* * ** *
9722212 AGAAAACGACCGGGACAACACCACAAGTT-AGAAAT
1 AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
* * * *
9722247 AAAAAATGATCAGGATAACACCACAAGTCAAAAAAAAAT
1 AAAAAATGACCAAGACAACACCACAAGT---TAAAAAAT
* ** * *
9722286 ATAAAACAACTAGGACAACACCACAAGTTAAAAAAAAT
1 AAAAAATGACCAAGACAACACCACAAGTT--AAAAAAT
* * * * * * * *
9722324 AGAAAACGACTAAAACAATACTACAAG-T--CAGAT
1 AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
* * *
9722357 AAAGAATGACCAAGATAATACCACAAGTTAGAAAAAT
1 AAAAAATGACCAAGACAACACCACAAGTTA-AAAAAT
9722394 AAAAAATGACC-AGAACAACATCC-CAAGTTAAAAAAAT
1 AAAAAATGACCAAG-ACAACA-CCACAAGTT-AAAAAAT
* * *
9722431 AAAGAATGACTAAGACAACATCACAAGTTAAAAAAT
1 AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
*
9722467 AAAGAATGA
1 AAAAAATGA
9722476 ATTCATGAAC
Statistics
Matches: 430, Mismatches: 92, Indels: 48
0.75 0.16 0.08
Matches are distributed among these distances:
32 22 0.05
33 24 0.06
34 5 0.01
35 127 0.30
36 114 0.27
37 77 0.18
38 34 0.08
39 27 0.06
ACGTcount: A:0.56, C:0.17, G:0.14, T:0.14
Consensus pattern (36 bp):
AAAAAATGACCAAGACAACACCACAAGTTAAAAAAT
Found at i:9722829 original size:21 final size:21
Alignment explanation
Indices: 9722805--9722897 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
9722795 TGTATCAGAT
9722805 AGGATGCATGTATTATCTATG
1 AGGATGCATGTATTATCTATG
* ***
9722826 AGGATGCATGGGATGGGCTAT-
1 AGGATGCAT-GTATTATCTATG
* *
9722847 A-TATTCATGTATTATCTATG
1 AGGATGCATGTATTATCTATG
9722867 AGGATGCATGTATTATCTATG
1 AGGATGCATGTATTATCTATG
9722888 AGGATGCATG
1 AGGATGCATG
9722898 GGATGGGCTA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
19 7 0.12
20 6 0.11
21 37 0.65
22 7 0.12
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (21 bp):
AGGATGCATGTATTATCTATG
Found at i:9723747 original size:41 final size:37
Alignment explanation
Indices: 9723639--9723753 Score: 140
Period size: 37 Copynumber: 3.0 Consensus size: 37
9723629 AGCATAAAAC
* * *
9723639 CAAAATAAAATAATAACTAACATGCAATTTATTTTAA
1 CAAAATAAAGTACTAACTAACATGCAATTTATTTTAT
* *
9723676 CAAAATAAAGTACCAACTAGCATGCAATTTATTTTAT
1 CAAAATAAAGTACTAACTAACATGCAATTTATTTTAT
*
9723713 CAAAATAAAGTATTAACTAACTAACATACAATTTATTTTAT
1 CAAAATAAAG---T-ACTAACTAACATGCAATTTATTTTAT
9723754 TTATAAACTT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
37 42 0.64
40 1 0.02
41 23 0.35
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (37 bp):
CAAAATAAAGTACTAACTAACATGCAATTTATTTTAT
Found at i:9725425 original size:16 final size:16
Alignment explanation
Indices: 9725404--9725434 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9725394 CAAATATACA
9725404 TGAAAATAAACTTTAT
1 TGAAAATAAACTTTAT
*
9725420 TGAAAATAGACTTTA
1 TGAAAATAAACTTTA
9725435 AGTTTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (16 bp):
TGAAAATAAACTTTAT
Found at i:9728551 original size:18 final size:18
Alignment explanation
Indices: 9728517--9728568 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 18
9728507 ATGTTTATCA
* * *
9728517 TATTTCATTTTTTTTTTT
1 TATTTTATTTATTTTGTT
9728535 TATTATTTATTTATTTTGTT
1 TA-T-TTTATTTATTTTGTT
9728555 TATTTTATTTATTT
1 TATTTTATTTATTT
9728569 CAAAAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 13 0.45
19 2 0.07
20 14 0.48
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (18 bp):
TATTTTATTTATTTTGTT
Found at i:9728558 original size:9 final size:9
Alignment explanation
Indices: 9728517--9728568 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
9728507 ATGTTTATCA
9728517 TATTTCATTT
1 TATTT-ATTT
*
9728527 T-TTTTTTT
1 TATTTATTT
9728535 TA-TTA-TT
1 TATTTATTT
9728542 TATTTATTT
1 TATTTATTT
*
9728551 TGTTTATTT
1 TATTTATTT
9728560 TATTTATTT
1 TATTTATTT
9728569 CAAAAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
7 4 0.11
8 9 0.26
9 21 0.60
10 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (9 bp):
TATTTATTT
Found at i:9729923 original size:73 final size:75
Alignment explanation
Indices: 9729831--9729970 Score: 250
Period size: 73 Copynumber: 1.9 Consensus size: 75
9729821 TTATTGTGAG
9729831 GGAAATTTGATATTTTAACTTTTTCATTAA-TTTATTTTGTTAA-TTTA-TTCACTTTTATTTTC
1 GGAAATTTGATATTTTAACTTTTTCATTAATTTTATTTTGTTAATTTTATTTCACTTTTATTTTC
9729893 AAAGAATTTA
66 AAAGAATTTA
9729903 GGAAATTTTGATATTTTAACTTTTTCATTAATTTTATTTTGTTAATTTTATTTCACTTTTATTTT
1 GGAAA-TTTGATATTTTAACTTTTTCATTAATTTTATTTTGTTAATTTTATTTCACTTTTATTTT
9729968 CAA
65 CAA
9729971 CTTTTTTGTT
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
72 5 0.08
73 25 0.39
74 13 0.20
75 4 0.06
76 17 0.27
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.58
Consensus pattern (75 bp):
GGAAATTTGATATTTTAACTTTTTCATTAATTTTATTTTGTTAATTTTATTTCACTTTTATTTTC
AAAGAATTTA
Found at i:9731023 original size:17 final size:17
Alignment explanation
Indices: 9730997--9731033 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9730987 CTCATTTCTC
*
9730997 TTTTTGTTTGTTATTTT
1 TTTTTATTTGTTATTTT
*
9731014 TTTTTATTTGTTGTTTT
1 TTTTTATTTGTTATTTT
9731031 TTT
1 TTT
9731034 ATGCTGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.05, C:0.00, G:0.11, T:0.84
Consensus pattern (17 bp):
TTTTTATTTGTTATTTT
Found at i:9731030 original size:15 final size:16
Alignment explanation
Indices: 9731012--9731046 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
9731002 GTTTGTTATT
*
9731012 TTTTTTTAT-TTGTTG
1 TTTTTTTATGCTGTTG
9731027 TTTTTTTATGCTGTTG
1 TTTTTTTATGCTGTTG
9731043 TTTT
1 TTTT
9731047 AGCATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.06, C:0.03, G:0.14, T:0.77
Consensus pattern (16 bp):
TTTTTTTATGCTGTTG
Found at i:9731606 original size:8 final size:8
Alignment explanation
Indices: 9731593--9731623 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
9731583 TGAGTTGAAG
9731593 TAATTTTT
1 TAATTTTT
9731601 TAA-TTTT
1 TAATTTTT
9731608 TAATTTTT
1 TAATTTTT
9731616 TAATTTTT
1 TAATTTTT
9731624 ATTAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TAATTTTT
Found at i:9731613 original size:15 final size:15
Alignment explanation
Indices: 9731593--9731624 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9731583 TGAGTTGAAG
9731593 TAATTTTTTAATTTT
1 TAATTTTTTAATTTT
9731608 TAATTTTTTAATTTT
1 TAATTTTTTAATTTT
9731623 TA
1 TA
9731625 TTAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TAATTTTTTAATTTT
Done.