Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009595.1 Kokia drynarioides strain JFW-HI SEQ_124311, 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: 164564
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 11 characters in sequence are not A, C, G, or T
Found at i:4693 original size:22 final size:23
Alignment explanation
Indices: 4646--4693 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
4636 TAAAATCAAA
* *
4646 TTTTTAAACAAAAAAATCATTTC
1 TTTTTAAAAAAAAAAATCATTCC
4669 TTTTTAAATAAAAAAAAT-A-TCC
1 TTTTTAAA-AAAAAAAATCATTCC
4691 TTT
1 TTT
4694 CTCTTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTTTAAAAAAAAAAATCATTCC
Found at i:5764 original size:19 final size:17
Alignment explanation
Indices: 5712--5771 Score: 75
Period size: 18 Copynumber: 3.4 Consensus size: 17
5702 GAGGAACAAC
* *
5712 CTCGGGTAGATGAAATGT
1 CTCGGGCAGAGGAAA-GT
5730 CTCGGGCAGAGGAAAGGT
1 CTCGGGCAGAGGAAA-GT
5748 CTCGGGCAGAGGGAAAGT
1 CTCGGGCAGA-GGAAAGT
5766 CTCGGG
1 CTCGGG
5772 AGTAGACGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 33 0.87
19 5 0.13
ACGTcount: A:0.25, C:0.17, G:0.42, T:0.17
Consensus pattern (17 bp):
CTCGGGCAGAGGAAAGT
Found at i:10364 original size:17 final size:17
Alignment explanation
Indices: 10342--10424 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 17
10332 AAATTGATTC
10342 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATTT
*
10359 AAATTTATCTT--A--T
1 AAATTTATTTTAAATTT
**
10372 AAATTTGCTTTAAATTT
1 AAATTTATTTTAAATTT
*
10389 AAATTTA-ATTAGAATTT
1 AAATTTATTTTA-AATTT
** *
10406 AAATGGATTTAAAATTT
1 AAATTTATTTTAAATTT
10423 AA
1 AA
10425 TTAAAAGTTC
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
13 9 0.18
15 2 0.04
16 3 0.06
17 34 0.68
18 2 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:10438 original size:28 final size:27
Alignment explanation
Indices: 10385--10438 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
10375 TTTGCTTTAA
* *
10385 ATTTAAATTTAATTAGAATTTAAATGG
1 ATTTAAATTTAATTAAAAGTTAAATGG
*
10412 ATTTAAAATTTAATTAAAAGTTCAATG
1 ATTT-AAATTTAATTAAAAGTTAAATG
10439 CCCAAAGTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (27 bp):
ATTTAAATTTAATTAAAAGTTAAATGG
Found at i:11154 original size:21 final size:20
Alignment explanation
Indices: 11136--11214 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 20
11126 GCATTGAATG
*
11136 ATTATTTAATAATAATGAAT
1 ATTATTTAATAATAATAAAT
* *
11156 ATAATAATAATAATAATAAAT
1 ATTAT-TTAATAATAATAAAT
*
11177 ATTTTTTTTAATAATAATAAAT
1 A--TTATTTAATAATAATAAAT
11199 AATGT-TTTAATAATAA
1 -AT-TATTTAATAATAA
11215 AAAAGAGAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.08
21 26 0.54
22 15 0.31
23 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTATTTAATAATAATAAAT
Found at i:11191 original size:22 final size:21
Alignment explanation
Indices: 11163--11214 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
11153 AATATAATAA
* *
11163 TAATAATAATAAATATTTTTTT
1 TAATAATAATAAATA-ATGTTT
11185 TAATAATAATAAATAATGTTT
1 TAATAATAATAAATAATGTTT
11206 TAATAATAA
1 TAATAATAA
11215 AAAAGAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAATAATAATAAATAATGTTT
Found at i:11196 original size:3 final size:3
Alignment explanation
Indices: 11142--11174 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
11132 AATGATTATT
11142 TAA TAA TAA TGAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
11175 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12320 original size:59 final size:58
Alignment explanation
Indices: 12221--12392 Score: 211
Period size: 59 Copynumber: 2.9 Consensus size: 58
12211 GGAGGTCCCT
* *
12221 AAACTATCCAAAAATTCCATTTTTACCCCCGAACTCCCAAAAATTATATTTTT-ACCCTCA
1 AAACT-TCCAAAAATTCCATTTTTA-CCCCGAACTTCCAAAAATTACATTTTTGACCC-CA
* ** *
12281 AAACTTCCAAAAATTCCATTTTTACCCTTGAACTTCCAAAAATCCCATTTTTGACTCCA
1 AAACTTCCAAAAATTCCATTTTTACCC-CGAACTTCCAAAAATTACATTTTTGACCCCA
*
12340 AAACTTCCAAAAATCCCATTTTTAACCCCGAAACTTCCAAAAATTACCATTTT
1 AAACTTCCAAAAATTCCATTTTT-ACCCCG-AACTTCCAAAAATTA-CATTTT
12393 ACCCCCGGAT
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
58 3 0.03
59 63 0.65
60 25 0.26
61 6 0.06
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.32
Consensus pattern (58 bp):
AAACTTCCAAAAATTCCATTTTTACCCCGAACTTCCAAAAATTACATTTTTGACCCCA
Found at i:12399 original size:30 final size:30
Alignment explanation
Indices: 12221--12399 Score: 195
Period size: 30 Copynumber: 6.0 Consensus size: 30
12211 GGAGGTCCCT
12221 AAACTATCCAAAAATTCCATTTTTACCCCCG
1 AAACT-TCCAAAAATTCCATTTTTACCCCCG
* ** * *
12252 -AACTCCCAAAAATTATATTTTTACCCTCA
1 AAACTTCCAAAAATTCCATTTTTACCCCCG
**
12281 AAACTTCCAAAAATTCCATTTTTACCCTTG
1 AAACTTCCAAAAATTCCATTTTTACCCCCG
* * *
12311 -AACTTCCAAAAATCCCATTTTTGA-CTCCA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCCG
* *
12340 AAACTTCCAAAAATCCCATTTTTAACCCCG
1 AAACTTCCAAAAATTCCATTTTTACCCCCG
12370 AAACTTCCAAAAATTACCA-TTTTACCCCCG
1 AAACTTCCAAAAATT-CCATTTTTACCCCCG
12400 GATATTCGAA
Statistics
Matches: 124, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
29 43 0.35
30 78 0.63
31 3 0.02
ACGTcount: A:0.36, C:0.31, G:0.03, T:0.31
Consensus pattern (30 bp):
AAACTTCCAAAAATTCCATTTTTACCCCCG
Found at i:16071 original size:15 final size:15
Alignment explanation
Indices: 16051--16087 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
16041 CTTAAGAAAG
16051 TCAAAGCTCTGAGCA
1 TCAAAGCTCTGAGCA
16066 TCAAAGCTCTGAGCA
1 TCAAAGCTCTGAGCA
16081 TCAAAGC
1 TCAAAGC
16088 AAAACCGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (15 bp):
TCAAAGCTCTGAGCA
Found at i:24726 original size:205 final size:205
Alignment explanation
Indices: 24304--24850 Score: 837
Period size: 205 Copynumber: 2.7 Consensus size: 205
24294 TCATCTGCCA
* *
24304 GATGAGATACTGAGAAGAAGACTAAATTAAACCCACGCTCGATGTGAATAAATCTTCGAACCACA
1 GATGAGATACTGAGAAGAAGACTAAATCAAACCCACGCTCGATGTGAACAAATCTTCGAACCACA
*
24369 ACTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATAC
66 GCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAAA-GGTTAGCTTCCTGATGAGATAC
* * *
24434 AGACAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAATGACGCG
130 TGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGACGCG
24499 GTCATCTTCTT
195 GTCATCTTCTT
* *
24510 GATGAGATACTGAGAAGAAGACTAAATCAAATCCATGCTCGATGTGAACAAATCTTCGAACCACA
1 GATGAGATACTGAGAAGAAGACTAAATCAAACCCACGCTCGATGTGAACAAATCTTCGAACCACA
*
24575 GCTTCCTGATGAGACACTGAG-AGACAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATAC
66 GCTTCCTGATGAGACACCGAGAAG-CAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATAC
* * * *
24639 TGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATATAGAGAAGCGGATTGAAACAAACGATGCG
130 TGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGACGCG
*
24704 GTCATCTTTTT
195 GTCATCTTCTT
* * *
24715 GATGTGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTAAACAAATCTTCGAATCC-C
1 GATGAGATACTGAGAAGAAGACTAAATCAAACCCACGCTCGATGTGAACAAATCTTCGAA-CCAC
* * *** * *
24779 AGCCTCCTGATGAGACACCAAGAAGCAGGTCGAAGCAATAAACTATTAGTTTCCTGATGAGGTAC
65 AGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATAC
24844 TGAGAAG
130 TGAGAAG
24851 AAGGCCAAGT
Statistics
Matches: 311, Mismatches: 27, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
205 209 0.67
206 102 0.33
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (205 bp):
GATGAGATACTGAGAAGAAGACTAAATCAAACCCACGCTCGATGTGAACAAATCTTCGAACCACA
GCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATACT
GAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGACGCGG
TCATCTTCTT
Found at i:25196 original size:6 final size:6
Alignment explanation
Indices: 25185--25237 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
25175 TCAAATTTAT
** **
25185 TTTAAA TTTAAA TTTATCT TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
25233 TTTAA
1 TTTAA
25238 TGAGAATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
5 3 0.08
6 30 0.81
7 4 0.11
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:25199 original size:17 final size:17
Alignment explanation
Indices: 25177--25236 Score: 84
Period size: 17 Copynumber: 3.4 Consensus size: 17
25167 AAATTGATTC
25177 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATTT
25194 AAATTTATCTTTTAAATTT
1 AAATTTA--TTTTAAATTT
**
25213 AAATTTGCTTTAAATTT
1 AAATTTATTTTAAATTT
25230 AAATTTA
1 AAATTTA
25237 ATGAGAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 22 0.58
19 16 0.42
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:25208 original size:19 final size:19
Alignment explanation
Indices: 25184--25236 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
25174 TTCAAATTTA
*
25184 TTTTAAATTTAAATTTATC
1 TTTTAAATTTAAATTTAGC
25203 TTTTAAATTTAAATTT-GC
1 TTTTAAATTTAAATTTAGC
25221 -TTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
25237 ATGAGAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.47
18 1 0.03
19 16 0.50
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTAAATTTAAATTTAGC
Found at i:26053 original size:21 final size:22
Alignment explanation
Indices: 26008--26056 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
25998 ATATTAATAA
* *
26008 TAATAATAATAAATATATTTTT
1 TAATAACAATAAATATATGTTT
26030 TAATAACAATAAATA-ATGTTT
1 TAATAACAATAAATATATGTTT
26051 TAATAA
1 TAATAA
26057 TAAAAAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAATAACAATAAATATATGTTT
Found at i:27153 original size:29 final size:29
Alignment explanation
Indices: 27104--27363 Score: 301
Period size: 30 Copynumber: 8.8 Consensus size: 29
27094 GGAGGTCGTT
27104 AAACTGTCCAAAAATTCCATTTTTACCCTC
1 AAACT-TCCAAAAATTCCATTTTTACCCTC
* *
27134 GAACTTCCAAAAA-TCTCATTTTTGACCCTA
1 AAACTTCCAAAAATTC-CATTTTT-ACCCTC
* *
27164 AAACTTCCAAAAATTCCAATTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTTACCCTC
* *
27193 AAACTCCCAAAAATTCTATTTTTACCC-C
1 AAACTTCCAAAAATTCCATTTTTACCCTC
* *
27221 TGAATTTCCAAAAATTCCATTTTTACCCTC
1 -AAACTTCCAAAAATTCCATTTTTACCCTC
* *
27251 GAAACTTCCAAAAATTCCAATTTTACCCAC
1 -AAACTTCCAAAAATTCCATTTTTACCCTC
*
27281 AAAACTTACAAAAATTCCATTTTTACCCTC
1 -AAACTTCCAAAAATTCCATTTTTACCCTC
* *
27311 AAACTTCCAAAAATCCCATTATTGACCC-C
1 AAACTTCCAAAAATTCCATT-TTTACCCTC
27340 AAAACTTCCAAAAATTACCATTTT
1 -AAACTTCCAAAAATT-CCATTTT
27364 ACACCCGAAT
Statistics
Matches: 196, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.02
29 85 0.43
30 101 0.52
31 7 0.04
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.32
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTTACCCTC
Found at i:27365 original size:59 final size:58
Alignment explanation
Indices: 27104--27363 Score: 324
Period size: 59 Copynumber: 4.4 Consensus size: 58
27094 GGAGGTCGTT
* * *
27104 AAACTGTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCTCATTTTTGACCCTA
1 AAACT-TCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCA-TTTTGACCCCA
* * * * * * *
27164 AAACTTCCAAAAATTCCAATTTTACCCCCAAACTCCCAAAAATTCTATTTTTACCCCT
1 AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTGACCCCA
* * *
27222 GAATTTCCAAAAATTCCATTTTTACCCTCGAAACTTCCAAAAATTCCAATTTT-ACCCACA
1 AAACTTCCAAAAATTCCATTTTTACCCTC-AAACTTCCAAAAA-TCCCATTTTGACCC-CA
*
27282 AAACTTACAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTATTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATT-TTGACCCCA
27341 AAACTTCCAAAAATTACCATTTT
1 AAACTTCCAAAAATT-CCATTTT
27364 ACACCCGAAT
Statistics
Matches: 171, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
58 39 0.23
59 82 0.48
60 50 0.29
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.32
Consensus pattern (58 bp):
AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTGACCCCA
Found at i:27450 original size:29 final size:30
Alignment explanation
Indices: 27418--27488 Score: 58
Period size: 30 Copynumber: 2.4 Consensus size: 30
27408 AAAATTACCC
* *
27418 TTTTACCCTCGAATGTT-TAAAAATTCCAT
1 TTTTACCCTCGAATCTTCCAAAAATTCCAT
* *
27447 TTTTAACCCT-GAATTTTCCCAAAATTACCA-
1 TTTT-ACCCTCGAATCTTCCAAAAATT-CCAT
*
27477 TTTCACCCTCGA
1 TTTTACCCTCGA
27489 GAATCCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
29 15 0.44
30 16 0.47
31 3 0.09
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.38
Consensus pattern (30 bp):
TTTTACCCTCGAATCTTCCAAAAATTCCAT
Found at i:30711 original size:11 final size:11
Alignment explanation
Indices: 30689--30722 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
30679 TCAATTTCAA
30689 ATTTTGTATAAT
1 ATTTT-TATAAT
30701 ATTTTTATAAT
1 ATTTTTATAAT
30712 -TTTTTATAAT
1 ATTTTTATAAT
30722 A
1 A
30723 GAGGGTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 6 0.29
12 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
ATTTTTATAAT
Found at i:34301 original size:2 final size:2
Alignment explanation
Indices: 34294--34325 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34284 ATTGCCATGC
34294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34326 GTGTGTGTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34662 original size:24 final size:24
Alignment explanation
Indices: 34612--34663 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
34602 TAACCTTTTA
* *
34612 AAAATTATAAAAATATAAACTATT
1 AAAATGATAAAAATATAAACTAAT
*
34636 AAAATGATAAAATTATACAA-TAAT
1 AAAATGATAAAAATATA-AACTAAT
34660 AAAA
1 AAAA
34664 ATATATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATGATAAAAATATAAACTAAT
Found at i:35301 original size:146 final size:146
Alignment explanation
Indices: 34983--35301 Score: 356
Period size: 149 Copynumber: 2.2 Consensus size: 146
34973 ATTATAGAAG
* * * * * * ***
34983 TTCTTGTACTAATAGTCGAATTATATTTTATTTTTTTTATTTAAAAAATAGGTAAATTTATTTTT
1 TTCTTGTATTAAGAGTCGAATTACATTTTATTTTTTCTACTCAAAAAATAGGTAAATTTATCCAT
*
35048 ATATATTAAGTTAAAGAGAAAATTAGTCATTTTATTAAAAATTTCATTCATTGTTACTGTTAAAA
66 ATATATTAAGTAAAAGAGAAAATTA--CATTTTATTAAAAATTTCATTCATTGTTACTGTTAAAA
*
35113 ATTAGTCTCTATATAAAA
129 ATTAATCTCTATATAAAA
* * * * *
35131 ATCTTTGCATTAAGAGTCAAATTACATTTTATTTTTTCTACTCAAAATATTGGTAAA-TTAGTCC
1 TTC-TTGTATTAAGAGTCGAATTACATTTTATTTTTTCTACTCAAAAAATAGGTAAATTTA-TCC
* * * *
35195 ATATATATT-AGATAAAAGAGAAAATTA-ATTTTTTTTAAAATTTTATTCATTTTTACTGTTAAA
64 ATATATATTAAG-TAAAAGAGAAAATTACATTTTATTAAAAATTTCATTCATTGTTACTGTTAAA
* *
35258 AGTTAATCTTTATATGAAAA
128 AATTAATCTCTATAT-AAAA
*
35278 TTCTTGTATTAAGAGTCGGATTAC
1 TTCTTGTATTAAGAGTCGAATTAC
35302 GAAAATGAAT
Statistics
Matches: 141, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
146 62 0.44
147 6 0.04
148 7 0.05
149 66 0.47
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (146 bp):
TTCTTGTATTAAGAGTCGAATTACATTTTATTTTTTCTACTCAAAAAATAGGTAAATTTATCCAT
ATATATTAAGTAAAAGAGAAAATTACATTTTATTAAAAATTTCATTCATTGTTACTGTTAAAAAT
TAATCTCTATATAAAA
Found at i:36397 original size:22 final size:21
Alignment explanation
Indices: 36370--36444 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 21
36360 ATTATATTGT
36370 TGTTTTGGTGCTTTTTTTTAC
1 TGTTTTGGTGCTTTTTTTTAC
* *
36391 TTTTTTTGTTGCTTTTTTTTTAC
1 -TGTTTTGGTGC-TTTTTTTTAC
*
36414 TGTTTTGGTGTTGTTTTTTTAC
1 TGTTTTGGTGCT-TTTTTTTAC
36436 -GATTTTGGT
1 TG-TTTTGGT
36445 TTTTACTGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.04
22 33 0.73
23 10 0.22
ACGTcount: A:0.05, C:0.07, G:0.19, T:0.69
Consensus pattern (21 bp):
TGTTTTGGTGCTTTTTTTTAC
Found at i:36411 original size:23 final size:24
Alignment explanation
Indices: 36367--36433 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 24
36357 AAAATTATAT
*
36367 TGTTGTTTTGGTGC-TTTTTTTTAC
1 TGTT-TTTTGTTGCTTTTTTTTTAC
36391 T-TTTTTTGTTGCTTTTTTTTTAC
1 TGTTTTTTGTTGCTTTTTTTTTAC
*
36414 TGTTTTGGTGTTG-TTTTTTT
1 TGTTTT-TTGTTGCTTTTTTT
36434 ACGATTTTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.21
23 13 0.34
24 12 0.32
25 5 0.13
ACGTcount: A:0.03, C:0.06, G:0.18, T:0.73
Consensus pattern (24 bp):
TGTTTTTTGTTGCTTTTTTTTTAC
Found at i:36419 original size:12 final size:11
Alignment explanation
Indices: 36381--36419 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
36371 GTTTTGGTGC
36381 TTTTTTTTACT
1 TTTTTTTTACT
*
36392 TTTTTTGTTGCT
1 TTTTTT-TTACT
36404 TTTTTTTTACT
1 TTTTTTTTACT
*
36415 GTTTT
1 TTTTT
36420 GGTGTTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.05, C:0.08, G:0.08, T:0.79
Consensus pattern (11 bp):
TTTTTTTTACT
Found at i:36503 original size:24 final size:25
Alignment explanation
Indices: 36476--36536 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
36466 TTGATGCTTT
* *
36476 TATTTTTGTC-GTTGTTTTTGTTGC
1 TATTTTTGTCTGTTATTATTGTTGC
36500 TATTTTTG-CTGTTATTATTGTTGC
1 TATTTTTGTCTGTTATTATTGTTGC
36524 TATTTTTGT-TGTT
1 TATTTTTGTCTGTT
36537 TTGCTGTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.08, C:0.07, G:0.18, T:0.67
Consensus pattern (25 bp):
TATTTTTGTCTGTTATTATTGTTGC
Found at i:36518 original size:15 final size:15
Alignment explanation
Indices: 36500--36559 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
36490 TTTTTGTTGC
36500 TATTTTTGCTGTTAT
1 TATTTTTGCTGTTAT
* * *
36515 TATTGTTGCTATTTT
1 TATTTTTGCTGTTAT
*
36530 TGTTGTTTTGCTGTTAT
1 T-AT-TTTTGCTGTTAT
36547 T-TTTGTTGCTGTT
1 TATTT-TTGCTGTT
36560 TTGGTCGTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 2 0.06
15 22 0.63
16 1 0.03
17 10 0.29
ACGTcount: A:0.08, C:0.07, G:0.18, T:0.67
Consensus pattern (15 bp):
TATTTTTGCTGTTAT
Found at i:36549 original size:20 final size:20
Alignment explanation
Indices: 36524--36594 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
36514 TTATTGTTGC
*
36524 TATTTTTGTTGTTTTGCTGT
1 TATTTTTGTTGTTTTGATGT
*
36544 TATTTTTGTTGCTGTTTTGGTCGT
1 TATTTTTG-T--TGTTTTGAT-GT
* *
36568 TATTTTGGTTGTTTGGATGT
1 TATTTTTGTTGTTTTGATGT
36588 TATTTTT
1 TATTTTT
36595 ATGTGTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 16 0.38
21 8 0.19
23 9 0.21
24 9 0.21
ACGTcount: A:0.07, C:0.04, G:0.23, T:0.66
Consensus pattern (20 bp):
TATTTTTGTTGTTTTGATGT
Found at i:36550 original size:12 final size:12
Alignment explanation
Indices: 36444--36551 Score: 59
Period size: 12 Copynumber: 9.5 Consensus size: 12
36434 ACGATTTTGG
*
36444 TTTTTACTGTT-
1 TTTTTGCTGTTA
36455 TTTTTGCTGTT-
1 TTTTTGCTGTTA
** *
36466 TTGATGCTTTTA
1 TTTTTGCTGTTA
*
36478 TTTTTG-TCGTTG
1 TTTTTGCT-GTTA
* *
36490 TTTTTGTTGCTA
1 TTTTTGCTGTTA
36502 TTTTTGCTGTTA
1 TTTTTGCTGTTA
* * *
36514 TTATTGTTGCTA
1 TTTTTGCTGTTA
36526 -TTTT--TGTT-
1 TTTTTGCTGTTA
*
36534 GTTTTGCTGTTA
1 TTTTTGCTGTTA
36546 TTTTTG
1 TTTTTG
36552 TTGCTGTTTT
Statistics
Matches: 72, Mismatches: 18, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
9 7 0.10
11 26 0.36
12 38 0.53
13 1 0.01
ACGTcount: A:0.07, C:0.07, G:0.18, T:0.68
Consensus pattern (12 bp):
TTTTTGCTGTTA
Found at i:36559 original size:23 final size:24
Alignment explanation
Indices: 36533--36578 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
36523 CTATTTTTGT
*
36533 TGTTTTGCT-GTTATTTTTGTTGC
1 TGTTTTGCTCGTTATTTTGGTTGC
*
36556 TGTTTTGGTCGTTATTTTGGTTG
1 TGTTTTGCTCGTTATTTTGGTTG
36579 TTTGGATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.04, C:0.07, G:0.26, T:0.63
Consensus pattern (24 bp):
TGTTTTGCTCGTTATTTTGGTTGC
Found at i:36561 original size:12 final size:12
Alignment explanation
Indices: 36476--36534 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 12
36466 TTGATGCTTT
* *
36476 TATTTTTGTCGT
1 TATTTTTGTTGC
*
36488 TGTTTTTGTTGC
1 TATTTTTGTTGC
* *
36500 TATTTTTGCTGT
1 TATTTTTGTTGC
*
36512 TATTATTGTTGC
1 TATTTTTGTTGC
36524 TATTTTTGTTG
1 TATTTTTGTTG
36535 TTTTGCTGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.08, C:0.07, G:0.19, T:0.66
Consensus pattern (12 bp):
TATTTTTGTTGC
Found at i:43324 original size:21 final size:21
Alignment explanation
Indices: 43300--43342 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
43290 AAAAAAATAA
43300 GACTAAGTCCTA-GAGAGATTT
1 GACTAAGTCCTAGGA-AGATTT
*
43321 GACTAAGTCTTAGGAAGATTT
1 GACTAAGTCCTAGGAAGATTT
43342 G
1 G
43343 TTAGCTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (21 bp):
GACTAAGTCCTAGGAAGATTT
Found at i:51607 original size:5 final size:5
Alignment explanation
Indices: 51597--51623 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
51587 TGTTTATCTT
51597 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
51624 AAAAGATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:63014 original size:37 final size:37
Alignment explanation
Indices: 62972--63049 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
62962 AAATACACCA
62972 ACATATCAATCTAAACATCACAACTTTTCTACCATTT
1 ACATATCAATCTAAACATCACAACTTTTCTACCATTT
63009 ACATATCAATCTAAACATCACAACTTTTCTACCATTT
1 ACATATCAATCTAAACATCACAACTTTTCTACCATTT
63046 ACAT
1 ACAT
63050 TCTTTAATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (37 bp):
ACATATCAATCTAAACATCACAACTTTTCTACCATTT
Found at i:63630 original size:18 final size:19
Alignment explanation
Indices: 63598--63636 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
63588 ATATTTTTGT
*
63598 TTTATTTCATCTTTTATTA
1 TTTATTTCATCTTTTAATA
*
63617 TTTATTTTAT-TTTTAATA
1 TTTATTTCATCTTTTAATA
63635 TT
1 TT
63637 GTTATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTCATCTTTTAATA
Found at i:66952 original size:50 final size:50
Alignment explanation
Indices: 66898--67038 Score: 169
Period size: 49 Copynumber: 2.8 Consensus size: 50
66888 GGTTGAAGCT
*
66898 GCAACGGCAAACCCGGTACCTTAGAAGACATGATAGGAAAGATCAAGGCC
1 GCAACGGCAAACCCGGTACCTTAGAAGATATGATAGGAAAGATCAAGGCC
* * * ** *
66948 GCAACGGCAAATCCGGTACCAT-GAAGATATGA-AGGGAAAGGTTGATGCC
1 GCAACGGCAAACCCGGTACCTTAGAAGATATGATA-GGAAAGATCAAGGCC
* * *
66997 GCAACGACAAACCCGGTACCTTAGAAGATGTGATGGGAAAGA
1 GCAACGGCAAACCCGGTACCTTAGAAGATATGATAGGAAAGA
67039 CTGAGGCTGC
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 39 0.52
50 35 0.47
ACGTcount: A:0.37, C:0.21, G:0.28, T:0.14
Consensus pattern (50 bp):
GCAACGGCAAACCCGGTACCTTAGAAGATATGATAGGAAAGATCAAGGCC
Found at i:66998 original size:49 final size:50
Alignment explanation
Indices: 66873--67208 Score: 225
Period size: 50 Copynumber: 6.8 Consensus size: 50
66863 AATACCCTGG
* * * * *
66873 AGATATGGAGAGAAAGGTTGAAGCTGCAACGGCAAACCCGGTACCTTAGA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCATAGA
* * ** *
66923 AGACATGATA-GGAAAGATCAAGGCCGCAACGGCAAATCCGGTACCAT-GA
1 AGATATGA-AGGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCATAGA
* * *
66972 AGATATGAAGGGAAAGGTTGATGCCGCAACGACAAACCCGGTACCTTAGA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCATAGA
* * ** * * * * **
67022 AGATGTGATGGGAAAGACTGAGGCTGCAATGACAAATCTAGTACCAT-GA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCATAGA
* * ** *
67071 AGATATAAAGGGGAAAGGTTGAGGCCGCAACGGCGAACCTTGTACCCTA-A
1 AGATATGAA-GGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCATAGA
* * * * * * * *** *
67121 AAACATGATGGG-AAGGATCGAGGCCGCAACGGTAGATCTAATACCATGGA
1 AGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCAAACCCGGTACCATAGA
* *
67171 A-ATATAAAGGGGAAAGGTTGAGGCCGCAATGGCAAACC
1 AGATATGAA-GGGAAAGGTTGAGGCCGCAACGGCAAACC
67209 TTGTACCCTA
Statistics
Matches: 215, Mismatches: 62, Indels: 18
0.73 0.21 0.06
Matches are distributed among these distances:
48 5 0.02
49 76 0.35
50 129 0.60
51 5 0.02
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (50 bp):
AGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCATAGA
Found at i:67015 original size:99 final size:100
Alignment explanation
Indices: 66835--67272 Score: 413
Period size: 99 Copynumber: 4.4 Consensus size: 100
66825 GGTTTGAAAT
* * * * * * ** * * *
66835 GGAAA-ATTGAGGCCACAACGGCGAATCTAATACCCTGGAGATATGGA-GAGAAAGGTTGAAGCT
1 GGAAAGATCGAGGCCGCAACGGCAAATCTAGTACCATGAAGATATAAAGGGGAAAGGTTGAGGCC
*
66898 GCAACGGCAAACCCGGTACCTTAGAAGACATGATA
66 GCAACGGCAAACCCGGTACCCTAGAAGACATGATA
* ** * *
66933 GGAAAGATCAAGGCCGCAACGGCAAATCCGGTACCATGAAGATATGAA-GGGAAAGGTTGATGCC
1 GGAAAGATCGAGGCCGCAACGGCAAATCTAGTACCATGAAGATATAAAGGGGAAAGGTTGAGGCC
* * ** *
66997 GCAACGACAAACCCGGTACCTTAGAAGATGTGATG
66 GCAACGGCAAACCCGGTACCCTAGAAGACATGATA
* * *
67032 GGAAAGA-CTGAGGCTGCAATGACAAATCTAGTACCATGAAGATATAAAGGGGAAAGGTTGAGGC
1 GGAAAGATC-GAGGCCGCAACGGCAAATCTAGTACCATGAAGATATAAAGGGGAAAGGTTGAGGC
* ** * *
67096 CGCAACGGCGAACCTTGTACCCTA-AAAACATGATG
65 CGCAACGGCAAACCCGGTACCCTAGAAGACATGATA
* * * *
67131 GGAAGGATCGAGGCCGCAACGGTAGATCTAATACCATGGAA-ATATAAAGGGGAAAGGTTGAGGC
1 GGAAAGATCGAGGCCGCAACGGCAAATCTAGTACCAT-GAAGATATAAAGGGGAAAGGTTGAGGC
* **
67195 CGCAATGGCAAACCTTGTACCCTAGAA-ACATGATA
65 CGCAACGGCAAACCCGGTACCCTAGAAGACATGATA
* * * * * **
67230 GGAAGGATTGAGGCTGTAACGGCGAATCTAAAACCATGAAGAT
1 GGAAAGATCGAGGCCGCAACGGCAAATCTAGTACCATGAAGAT
67273 CTGAGGAGAA
Statistics
Matches: 283, Mismatches: 50, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
98 9 0.03
99 235 0.83
100 39 0.14
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (100 bp):
GGAAAGATCGAGGCCGCAACGGCAAATCTAGTACCATGAAGATATAAAGGGGAAAGGTTGAGGCC
GCAACGGCAAACCCGGTACCCTAGAAGACATGATA
Found at i:67197 original size:50 final size:49
Alignment explanation
Indices: 67056--67199 Score: 132
Period size: 49 Copynumber: 2.9 Consensus size: 49
67046 TGCAATGACA
*
67056 AATCTAGTACCATGAAGATATAAAGGGGAAAGGTTGAGGCCGCAACGGCG
1 AATCTAGTACCATGAA-ATATAAAGGGGAAAGGTTGAGGCCGCAACGGAG
* * * * * * * *
67106 AACCTTGTACCCT-AAAAACATGATGGG-AAGGATCGAGGCCGCAACGGTAG
1 AATCTAGTACCATGAAATATA-AAGGGGAAAGG-TTGAGGCCGCAACGG-AG
*
67156 -ATCTAATACCATGGAAATATAAAGGGGAAAGGTTGAGGCCGCAA
1 AATCTAGTACCAT-GAAATATAAAGGGGAAAGGTTGAGGCCGCAA
67200 TGGCAAACCT
Statistics
Matches: 70, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
48 7 0.10
49 28 0.40
50 26 0.37
51 9 0.13
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (49 bp):
AATCTAGTACCATGAAATATAAAGGGGAAAGGTTGAGGCCGCAACGGAG
Found at i:68120 original size:2 final size:2
Alignment explanation
Indices: 68103--68148 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
68093 TATTTTGCTA
* * * *
68103 AT AT AT AG AT AC AT AT AT AT AT GT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68145 AT AT
1 AT AT
68149 TTGTTTTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (2 bp):
AT
Found at i:68173 original size:15 final size:15
Alignment explanation
Indices: 68147--68189 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
68137 ATATATGTAT
* *
68147 ATTTGTTTTTATTTC
1 ATTTATTTTTATTTA
68162 ATTT-TTTATTATTTA
1 ATTTATTT-TTATTTA
68177 ATTTATTTTTATT
1 ATTTATTTTTATT
68190 ATTGTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 3 0.12
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (15 bp):
ATTTATTTTTATTTA
Found at i:73364 original size:31 final size:31
Alignment explanation
Indices: 73329--73389 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
73319 AAAATAAGTT
73329 CAATTACAAATGA-CCCAATT-CTAAATGACCC
1 CAATTACAAAT-ATCCCAATTAC-AAATGACCC
*
73360 CAATTACAGATATCCCAATTACAAATGACC
1 CAATTACAAATATCCCAATTACAAATGACC
73390 TAAGATTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 1 0.04
31 25 0.93
32 1 0.04
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.23
Consensus pattern (31 bp):
CAATTACAAATATCCCAATTACAAATGACCC
Found at i:74244 original size:20 final size:21
Alignment explanation
Indices: 74210--74248 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
74200 AAAATTGAAT
*
74210 AAAACGGTTTTAAAAAAAAGG
1 AAAACGGTTTAAAAAAAAAGG
74231 AAAAC-GTTTAAAAAAAAA
1 AAAACGGTTTAAAAAAAAA
74249 ACGGGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.64, C:0.05, G:0.13, T:0.18
Consensus pattern (21 bp):
AAAACGGTTTAAAAAAAAAGG
Found at i:74304 original size:13 final size:13
Alignment explanation
Indices: 74269--74295 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74259 AACGTTGCTT
74269 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
74282 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
74295 A
1 A
74296 GGAAAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:75117 original size:29 final size:29
Alignment explanation
Indices: 75079--75340 Score: 191
Period size: 29 Copynumber: 8.9 Consensus size: 29
75069 GAGGTCCCGA
*
75079 AACTTCCAAAAATTACCATTTTACCCTCG
1 AACTTTCAAAAATTACCATTTTACCCTCG
* *
75108 AACTTTCAAAAA-TCCCATTTTTGATCC-CG
1 AACTTTCAAAAATTACCA-TTTT-ACCCTCG
* * *
75137 AAATTTCTAAAAATTACCATTTCACCCCCG
1 AACTTTC-AAAAATTACCATTTTACCCTCG
* *
75167 AACTTCCAAAAA-TCCCATTTTTGA-CCTCG
1 AACTTTCAAAAATTACCA-TTTT-ACCCTCG
75196 AAAC-TTCTAAAAATTACCATTTTACCCTCG
1 -AACTTTC-AAAAATTACCATTTTACCCTCG
* *
75226 AAC-TTCTAAAAA-TCCCATTTTTGA-CCTCAA
1 AACTTTC-AAAAATTACCA-TTTT-ACCCTC-G
* *
75256 AACTTCCAAAAATTACCATTTTACCCCCG
1 AACTTTCAAAAATTACCATTTTACCCTCG
* * *
75285 AACTTCCAAAAA-TCCCATTTTTAACCTCG
1 AACTTTCAAAAATTACCA-TTTTACCCTCG
* *
75314 AATTTTCCCAAAATTACCATTTTACCC
1 AACTTT-CAAAAATTACCATTTTACCC
75341 AGTGCATCCG
Statistics
Matches: 185, Mismatches: 28, Indels: 39
0.73 0.11 0.15
Matches are distributed among these distances:
28 16 0.09
29 87 0.47
30 64 0.35
31 18 0.10
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (29 bp):
AACTTTCAAAAATTACCATTTTACCCTCG
Found at i:75169 original size:59 final size:59
Alignment explanation
Indices: 75076--75340 Score: 397
Period size: 59 Copynumber: 4.5 Consensus size: 59
75066 CCGGAGGTCC
* *
75076 CGAAACTTCCAAAAATTACCATTTTACCCTCGAACTTTCAAAAATCCCATTTTTGATCC-
1 CGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGA-CCT
* * *
75135 CGAAATTTCTAAAAATTACCATTTCACCCCCGAACTTCCAAAAATCCCATTTTTGACCT
1 CGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCT
* * *
75194 CGAAACTTCTAAAAATTACCATTTTACCCTCGAACTTCTAAAAATCCCATTTTTGACCT
1 CGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCT
* *
75253 CAAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTAACCT
1 CGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCT
** *
75312 CGAATTTTCCCAAAATTACCATTTTACCC
1 CGAAACTTCCAAAAATTACCATTTTACCC
75341 AGTGCATCCG
Statistics
Matches: 187, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
58 2 0.01
59 185 0.99
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (59 bp):
CGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCT
Found at i:87384 original size:206 final size:206
Alignment explanation
Indices: 87028--87493 Score: 806
Period size: 206 Copynumber: 2.3 Consensus size: 206
87018 CACGATATCC
* *
87028 ACAAACGACGTGATCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
1 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
87093 AGCGAGCAAAATCTCTGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAA
66 AGCGAGCAAAATCTCTGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAA
* *
87158 CGAATAGCTTCCTAATAAGATACTGAGGAGTGAACCAAATTCGTCTTCCTGATGAGATACGGAGA
131 CGAATAGCTTCCTAATAAGATACTGAAGAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGA
*
87223 AGCGGTTTGAA
196 AGCGGATTGAA
*
87234 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATTAAACCCACGCTCAA
1 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
87299 AGCGAGCAAAATCTCTGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAA
66 AGCGAGCAAAATCTCTGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAA
* ** *
87364 TGGTTAGCTTCCTGATAAGATACTGAAGAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGA
131 CGAATAGCTTCCTAATAAGATACTGAAGAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGA
87429 AGCGGATTGAA
196 AGCGGATTGAA
* * * *
87440 ACAAACGACACGGTCATCTTTCTGATGAGATACTGAGGAGAAGACTAAATCAAA
1 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
87494 ACGAATCTTC
Statistics
Matches: 245, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
206 245 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (206 bp):
ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
AGCGAGCAAAATCTCTGAACCCCAGCTTCCTGATGAGACACCGAGAAGCAGGTCGAAGCAATAAA
CGAATAGCTTCCTAATAAGATACTGAAGAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGA
AGCGGATTGAA
Found at i:87854 original size:17 final size:17
Alignment explanation
Indices: 87834--87888 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
87824 GGAAATTGCA
87834 TTTATTTTAAAATTAAG
1 TTTATTTTAAAATTAAG
*
87851 TTTA-TTTAAAATTTAAA
1 TTTATTTTAAAA-TTAAG
* *
87868 TTTATTATAAATTTAAG
1 TTTATTTTAAAATTAAG
87885 TTTA
1 TTTA
87889 AAATGTCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 7 0.22
17 20 0.62
18 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTATTTTAAAATTAAG
Found at i:87950 original size:15 final size:15
Alignment explanation
Indices: 87930--88011 Score: 96
Period size: 15 Copynumber: 5.5 Consensus size: 15
87920 AGATCAAAAC
*
87930 GGCCCAATTACAGAT
1 GGCCCAATTACAAAT
87945 GGCCCAATTA-AAAT
1 GGCCCAATTACAAAT
*
87959 GGCCCAATT-CTAAAC
1 GGCCCAATTAC-AAAT
*
87974 GGCCCCAATTACAGAT
1 GG-CCCAATTACAAAT
*
87990 AGCCCAATTACAAAT
1 GGCCCAATTACAAAT
88005 GGCCCAA
1 GGCCCAA
88012 GATTCCAAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
14 12 0.21
15 33 0.59
16 10 0.18
17 1 0.02
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (15 bp):
GGCCCAATTACAAAT
Found at i:87989 original size:45 final size:45
Alignment explanation
Indices: 87926--88011 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
87916 GTACAGATCA
*
87926 AAACGGCCCAATTACAGATGGCCCAATTA-AAATGGCCCAATTCT
1 AAACGGCCCAATTACAGATAGCCCAATTACAAATGGCCCAATTCT
87970 AAACGGCCCCAATTACAGATAGCCCAATTACAAATGGCCCAA
1 AAACGG-CCCAATTACAGATAGCCCAATTACAAATGGCCCAA
88012 GATTCCAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 6 0.15
45 22 0.56
46 11 0.28
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.17
Consensus pattern (45 bp):
AAACGGCCCAATTACAGATAGCCCAATTACAAATGGCCCAATTCT
Found at i:88533 original size:15 final size:15
Alignment explanation
Indices: 88483--88533 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
88473 TATTTCTTTT
88483 ATTAATAATAATAAC
1 ATTAATAATAATAAC
* * *
88498 TGTTTA-AATAATAAT
1 -ATTAATAATAATAAC
*
88513 AGTAATAATAATAAC
1 ATTAATAATAATAAC
88528 ATTAAT
1 ATTAAT
88534 GACATTAATA
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
14 2 0.08
15 21 0.81
16 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (15 bp):
ATTAATAATAATAAC
Found at i:88846 original size:21 final size:21
Alignment explanation
Indices: 88822--88863 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
88812 AAAATTGAAT
88822 AAAACGGTTTAAAAAAAAAGG
1 AAAACGGTTTAAAAAAAAAGG
* *
88843 AAAACGTTTTTAAAAAAAAGG
1 AAAACGGTTTAAAAAAAAAGG
88864 GGTTTGAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.05, G:0.17, T:0.19
Consensus pattern (21 bp):
AAAACGGTTTAAAAAAAAAGG
Found at i:89801 original size:59 final size:60
Alignment explanation
Indices: 89679--90233 Score: 708
Period size: 59 Copynumber: 9.5 Consensus size: 60
89669 GAATGTCCCG
*
89679 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATC-CTATTTTTGA-CCTCG
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTC-ATTTTTGACCCTCA
* * * * *
89738 AAACTTCTAAAAATTACCA-TTTACCCTCGAACATCAAAAAATCCCATTTTTGACCCTCA
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCTCA
* * *
89797 AAACTACCAAAAA-TACCATTTTACCCCTGAACTTCCAAAAATCTCATTTTT-AACCTCA
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCTCA
** * *
89855 AAACTTTTAAAAATTACCATTTTACCCCTGAACTTCTAAAAATCTCA-TTTTGACCC-CA
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCTCA
* *
89913 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCGTTTTTGA-CCTCG
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCTCA
* * *
89972 AAACTTCTAAAAATTACCA-TTTACCCCCGAACTTCAAAAAATCCCATTTTTGACCCTCA
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCTCA
* * *
90031 AAACTGCCAAAAA-TACCATTTTACCCCCGAACTTCTAAAAAT-TCCATTTTT-AACCTCA
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCT-CATTTTTGACCCTCA
** * * *
90089 AAACTTTTAAAAATTACCATTTTACCCCTGAACTTCTAAAAATCTCA-TTTTGACCC-CG
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCTCA
*
90147 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCC-CA
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCTCA
** * *
90206 AATTTTCCCAAAATTACCATTTTGCCCC
1 AAACTTCCAAAAATTACCATTTTACCCC
90234 GTGCATCCGA
Statistics
Matches: 432, Mismatches: 50, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
58 200 0.46
59 231 0.53
60 1 0.00
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.31
Consensus pattern (60 bp):
AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCTCA
Found at i:89906 original size:117 final size:118
Alignment explanation
Indices: 89679--90233 Score: 781
Period size: 117 Copynumber: 4.7 Consensus size: 118
89669 GAATGTCCCG
* *
89679 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATC-CTATTTTTGACCTCGAAACT
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTC-ATTTTTAACCTCAAAACT
* *
89743 TCTAAAAATTACCA-TTTA-CCCTCGAACATCAAAAAATCCCATTTTTGACCCTCA
65 TTTAAAAATTACCATTTTACCCCT-GAACTTCAAAAAATCCCATTTTTGACCC-CA
* *
89797 AAACTACCAAAAA-TACCATTTTACCCCTGAACTTCCAAAAATCTCATTTTTAACCTCAAAACTT
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCTCAAAACTT
* *
89861 TTAAAAATTACCATTTTACCCCTGAACTTCTAAAAATCTCA-TTTTGACCCCA
66 TTAAAAATTACCATTTTACCCCTGAACTTCAAAAAATCCCATTTTTGACCCCA
* * *
89913 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCGTTTTTGACCTCGAAACTT
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCTCAAAACTT
* *
89978 CTAAAAATTACCA-TTTACCCCCGAACTTCAAAAAATCCCATTTTTGACCCTCA
66 TTAAAAATTACCATTTTACCCCTGAACTTCAAAAAATCCCATTTTTGACCC-CA
* *
90031 AAACTGCCAAAAA-TACCATTTTACCCCCGAACTTCTAAAAAT-TCCATTTTTAACCTCAAAACT
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCT-CATTTTTAACCTCAAAACT
* * *
90094 TTTAAAAATTACCATTTTACCCCTGAACTTCTAAAAATCTCA-TTTTGACCCCG
65 TTTAAAAATTACCATTTTACCCCTGAACTTCAAAAAATCCCATTTTTGACCCCA
*
90147 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACC-CCAAA-TT
1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCTCAAAACTT
* *
90210 TTCCCAAAATTACCATTTTGCCCC
66 TT--AAAAATTACCATTTTACCCC
90234 GTGCATCCGA
Statistics
Matches: 393, Mismatches: 32, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
115 4 0.01
116 56 0.14
117 258 0.66
118 71 0.18
119 4 0.01
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.31
Consensus pattern (118 bp):
AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCTCAAAACTT
TTAAAAATTACCATTTTACCCCTGAACTTCAAAAAATCCCATTTTTGACCCCA
Found at i:90227 original size:234 final size:234
Alignment explanation
Indices: 89675--90198 Score: 953
Period size: 234 Copynumber: 2.2 Consensus size: 234
89665 CCTCGAATGT
89675 CCCGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATC-CTATTTTTGACCTCGA
1 CCCGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTC-ATTTTTGACCTCGA
*
89739 AACTTCTAAAAATTACCATTTACCCTCGAACATCAAAAAATCCCATTTTTGACCCTCAAAACTAC
65 AACTTCTAAAAATTACCATTTACCCCCGAACATCAAAAAATCCCATTTTTGACCCTCAAAACTAC
*
89804 CAAAAATACCATTTTACCCCTGAACTTCCAAAAATCTCATTTTTAACCTCAAAACTTTTAAAAAT
130 CAAAAATACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCTCAAAACTTTTAAAAAT
89869 TACCATTTTACCCCTGAACTTCTAAAAATCTCATTTTGAC
195 TACCATTTTACCCCTGAACTTCTAAAAATCTCATTTTGAC
* *
89909 CCCAAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCGTTTTTGACCTCGAA
1 CCCGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCTCGAA
* *
89974 ACTTCTAAAAATTACCATTTACCCCCGAACTTCAAAAAATCCCATTTTTGACCCTCAAAACTGCC
66 ACTTCTAAAAATTACCATTTACCCCCGAACATCAAAAAATCCCATTTTTGACCCTCAAAACTACC
*
90039 AAAAATACCATTTTACCCCCGAACTTCTAAAAAT-TCCATTTTTAACCTCAAAACTTTTAAAAAT
131 AAAAATACCATTTTACCCCCGAACTTCCAAAAATCT-CATTTTTAACCTCAAAACTTTTAAAAAT
90103 TACCATTTTACCCCTGAACTTCTAAAAATCTCATTTTGAC
195 TACCATTTTACCCCTGAACTTCTAAAAATCTCATTTTGAC
90143 CCCGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTT
1 CCCGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTT
90199 AACCCCAAAT
Statistics
Matches: 279, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
233 1 0.00
234 277 0.99
235 1 0.00
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.31
Consensus pattern (234 bp):
CCCGAAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCTCGAA
ACTTCTAAAAATTACCATTTACCCCCGAACATCAAAAAATCCCATTTTTGACCCTCAAAACTACC
AAAAATACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCTCAAAACTTTTAAAAATT
ACCATTTTACCCCTGAACTTCTAAAAATCTCATTTTGAC
Found at i:94082 original size:10 final size:10
Alignment explanation
Indices: 94054--94083 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
94044 AATCTCTCCA
94054 ATTTTTTTATC
1 ATTTTTTT-TC
94065 ATTTTTTTTC
1 ATTTTTTTTC
94075 ATTTTTTTT
1 ATTTTTTTT
94084 TTTTTTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (10 bp):
ATTTTTTTTC
Found at i:100068 original size:29 final size:29
Alignment explanation
Indices: 100012--100259 Score: 164
Period size: 29 Copynumber: 8.4 Consensus size: 29
100002 TTAAAAATCC
*
100012 CATTTTAACCCCTAAACTTCTCCAAAATTA
1 CATTTTAACCTC-AAACTTCTCCAAAATTA
* *
100042 CATTTTAACCTCGAACTTCTCCAAAATCA
1 CATTTTAACCTCAAACTTCTCCAAAATTA
* * *
100071 CATTTTAACCTTAAAACTTCTCCAAATTTGT
1 CATTTTAACC-TCAAACTTCTCCAAAATT-A
** * *
100102 TTTTTTAACCCCTCAAACTTTTCCAAAATCA
1 CATTTTAA--CCTCAAACTTCTCCAAAATTA
* * * *
100133 AATTTTAACC-CAAAATTTTTCTAAAATTA
1 CATTTTAACCTC-AAACTTCTCCAAAATTA
* * * * *
100162 TATTTTGACCCCCAAACTTC-CTAAAATCA
1 CATTTT-AACCTCAAACTTCTCCAAAATTA
* *
100191 CATTTTGACC-CAAACTTTTCCAAAATTA
1 CATTTTAACCTCAAACTTCTCCAAAATTA
* * *
100219 CATTTTGACCTCAAA-TTCCCCGAAACTT-
1 CATTTTAACCTCAAACTTCTCC-AAAATTA
100247 CATTTTCAACCTC
1 CATTTT-AACCTC
100260 GTTTTTCCTT
Statistics
Matches: 172, Mismatches: 35, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
27 7 0.04
28 30 0.17
29 73 0.42
30 33 0.19
31 13 0.08
32 14 0.08
33 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
CATTTTAACCTCAAACTTCTCCAAAATTA
Found at i:100160 original size:62 final size:60
Alignment explanation
Indices: 100005--100217 Score: 172
Period size: 62 Copynumber: 3.6 Consensus size: 60
99995 ATTTTCTTTA
* * * * * *
100005 AAAATCCCATTTTAACCCCTAAACTTCTCCAAAA-TTACATTTTAA--CCTCGAACTTCTCC
1 AAAATCACATTTTAA-CCCAAAACTT-TTCAAAATTTATATTTTAACCCCTCAAACTTTTCC
* * * * *
100064 AAAATCACATTTTAACCTTAAAACTTCTCCAAATTTGTTTTTTTAACCCCTCAAACTTTTCC
1 AAAATCACATTTTAACC-CAAAACTTTTCAAAATTT-ATATTTTAACCCCTCAAACTTTTCC
* * *
100126 AAAATCAAATTTTAACCCAAAATTTTTCTAAAA-TTATATTTTGACCCC-CAAAC--TTCC
1 AAAATCACATTTTAACCCAAAACTTTTC-AAAATTTATATTTTAACCCCTCAAACTTTTCC
*
100183 TAAAATCACATTTTGACCC-AAACTTTTCCAAAATT
1 -AAAATCACATTTTAACCCAAAACTTTT-CAAAATT
100218 ACATTTTGAC
Statistics
Matches: 123, Mismatches: 22, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
57 15 0.12
58 24 0.20
59 27 0.22
60 16 0.13
61 10 0.08
62 31 0.25
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (60 bp):
AAAATCACATTTTAACCCAAAACTTTTCAAAATTTATATTTTAACCCCTCAAACTTTTCC
Found at i:112175 original size:39 final size:38
Alignment explanation
Indices: 112132--112418 Score: 194
Period size: 39 Copynumber: 7.4 Consensus size: 38
112122 TAGCCGTCCG
*
112132 ATCTCTTACCCTC-AGCCTAGGGCAGATCACCATCAGTCA
1 ATCTCTTACCC-CGAGCCTGGGGCAGATCACCATCA-TCA
*** * *
112171 ATCTCTTACTATGAGCCTGGGGCAGATTGCAGC-T-ATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CACCATCAT-CA
* *
112210 ATCTCTTACCCCGAGCCT-GAGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCA-TCA
* * * * * * * *
112248 ATCTCTTACCTCGAGTCTGGGGTATATTA-TAGCTATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATC-A-TCA
*
112287 ATCTCTTACCCCAAGCCTGGGGCAGATCACCATCAATCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATC-ATCA
* * *
112326 ATCTCTTACCCCAAGTCTAGGGCAGATTACAGCCATC--CA
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCATCA
* * *
112365 ATCTCTTACCCCGAGCTTGGGGCAGGTCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATC-ATCA
112404 ATCTCTTA-CCCGAGC
1 ATCTCTTACCCCGAGC
112419 TAGGCGCAGA
Statistics
Matches: 191, Mismatches: 41, Indels: 33
0.72 0.15 0.12
Matches are distributed among these distances:
36 8 0.04
37 4 0.02
38 35 0.18
39 128 0.67
40 6 0.03
41 5 0.03
42 5 0.03
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (38 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCATCA
Found at i:112369 original size:78 final size:78
Alignment explanation
Indices: 112093--112430 Score: 344
Period size: 78 Copynumber: 4.4 Consensus size: 78
112083 GAAGGTTTCG
* * * * * *
112093 ATCTCTTACCCCGA-TCATGGGGCAAATCATAGCCGTCCGATCTCTTACCCTC-AGCCTAGGGCA
1 ATCTCTTACCCCGAGTC-TAGGGCAGATTACAGCCATCCGATCTCTTACCC-CGAGCCTGGGGCA
**
112156 GATCACCATCAGTCA
64 GATCACCATCAACCA
*** * * * * *
112171 ATCTCTTACTATGAGCCTGGGGCAGATTGCAGCTATCCGATCTCTTACCCCGAGCCT-GAGCAGA
1 ATCTCTTACCCCGAGTCTAGGGCAGATTACAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAGA
*
112235 TCACCATCAGCCA
66 TCACCATCAACCA
* * * * * * * *
112248 ATCTCTTACCTCGAGTCTGGGGTATATTATAGCTATTCGATCTCTTACCCCAAGCCTGGGGCAGA
1 ATCTCTTACCCCGAGTCTAGGGCAGATTACAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAGA
*
112313 TCACCATCAATCA
66 TCACCATCAACCA
* * * *
112326 ATCTCTTACCCCAAGTCTAGGGCAGATTACAGCCATCCAATCTCTTACCCCGAGCTTGGGGCAGG
1 ATCTCTTACCCCGAGTCTAGGGCAGATTACAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAGA
112391 TCACCATCAACCA
66 TCACCATCAACCA
112404 ATCTCTTA-CCCGAG-CTAGGCGCAGATT
1 ATCTCTTACCCCGAGTCTAGG-GCAGATT
112431 GTAACCATCC
Statistics
Matches: 217, Mismatches: 39, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
76 5 0.02
77 78 0.36
78 133 0.61
79 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (78 bp):
ATCTCTTACCCCGAGTCTAGGGCAGATTACAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAGA
TCACCATCAACCA
Found at i:112375 original size:155 final size:155
Alignment explanation
Indices: 112130--112417 Score: 409
Period size: 155 Copynumber: 1.9 Consensus size: 155
112120 CATAGCCGTC
* * ** *
112130 CGATCTCTTACCCTCAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACTATGAGCCTGGGGCA
1 CGATCTCTTACCCTCAGCCTAGGGCAGATCACCATCAATCAATCTCTTACCACAAGCCTAGGGCA
* * * *
112195 GATTGCAGCTATCCGATCTCTTACCCCGAGCCT-GAGCAGATCACCATCAGCCAATCTCTTACCT
66 GATTACAGCCATCCAATCTCTTACCCCGAGCCTGGAGCAGATCACCATCAACCAATCTCTTACC-
112259 CGAGTCTGGGGTATATTATAGCTATT
130 CGAGTCTGGGGTATATTATAGCTATT
* * *
112285 CGATCTCTTACCC-CAAGCCTGGGGCAGATCACCATCAATCAATCTCTTACCCCAAGTCTAGGGC
1 CGATCTCTTACCCTC-AGCCTAGGGCAGATCACCATCAATCAATCTCTTACCACAAGCCTAGGGC
* * *
112349 AGATTACAGCCATCCAATCTCTTACCCCGAGCTTGGGGCAGGTCACCATCAACCAATCTCTTACC
65 AGATTACAGCCATCCAATCTCTTACCCCGAGCCTGGAGCAGATCACCATCAACCAATCTCTTACC
112414 CGAG
130 CGAG
112418 CTAGGCGCAG
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
154 1 0.01
155 88 0.76
156 27 0.23
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (155 bp):
CGATCTCTTACCCTCAGCCTAGGGCAGATCACCATCAATCAATCTCTTACCACAAGCCTAGGGCA
GATTACAGCCATCCAATCTCTTACCCCGAGCCTGGAGCAGATCACCATCAACCAATCTCTTACCC
GAGTCTGGGGTATATTATAGCTATT
Found at i:112443 original size:38 final size:38
Alignment explanation
Indices: 112324--112449 Score: 107
Period size: 39 Copynumber: 3.3 Consensus size: 38
112314 CACCATCAAT
* ** *
112324 CAATCTCTTACCCCAAGTCTAGGGCAGATTACAGCCATC
1 CAATCTCTTACCCCGAG-CTAGGGCAGATTGTAACCATC
* *
112363 CAATCTCTTACCCCGAGCTTGGGGCAG---GTCACCATCAAC
1 CAATCTCTTACCCCGAGC-TAGGGCAGATTGTAACCAT---C
112402 CAATCTCTTA-CCCGAGCTAGGCGCAGATTGTAACCATC
1 CAATCTCTTACCCCGAGCTAGG-GCAGATTGTAACCATC
*
112440 CAATATCTTA
1 CAATCTCTTA
112450 AAAAAAAATC
Statistics
Matches: 70, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
36 4 0.06
37 3 0.04
38 22 0.31
39 34 0.49
41 7 0.10
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.24
Consensus pattern (38 bp):
CAATCTCTTACCCCGAGCTAGGGCAGATTGTAACCATC
Found at i:112449 original size:155 final size:155
Alignment explanation
Indices: 112135--112449 Score: 366
Period size: 155 Copynumber: 2.0 Consensus size: 155
112125 CCGTCCGATC
* * ** * *
112135 TCTTACCCTCAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACTATGAGCCTGGGGCAGATTG
1 TCTTACCCTCAGCCTAGGGCAGATCACCATCAATCAATCTCTTACCACAAGCCTAGGGCAGATTA
* * *
112200 CAGCTATCCGATCTCTTACCCCGAGCCTGAGCAGATCACCATCAGCCAATCTCTTACCTCGAGTC
66 CAGCCATCCAATCTCTTACCCCGAGCCTGAGCAGATCACCATCAACCAATCTCTTACCTCGAGTC
* * * * * * * *
112265 TGGGGTATATTATAGCTATTCGATC
131 TGGCGCAGATTATAACCATCCAATA
* * *
112290 TCTTACCC-CAAGCCTGGGGCAGATCACCATCAATCAATCTCTTACCCCAAGTCTAGGGCAGATT
1 TCTTACCCTC-AGCCTAGGGCAGATCACCATCAATCAATCTCTTACCACAAGCCTAGGGCAGATT
* * *
112354 ACAGCCATCCAATCTCTTACCCCGAGCTTGGGGCAGGTCACCATCAACCAATCTCTTACC-CGAG
65 ACAGCCATCCAATCTCTTACCCCGAGCCT-GAGCAGATCACCATCAACCAATCTCTTACCTCGAG
*
112418 -CTAGGCGCAGATTGTAACCATCCAATA
129 TCT-GGCGCAGATTATAACCATCCAATA
112445 TCTTA
1 TCTTA
112450 AAAAAAAATC
Statistics
Matches: 133, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
154 3 0.02
155 103 0.77
156 27 0.20
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (155 bp):
TCTTACCCTCAGCCTAGGGCAGATCACCATCAATCAATCTCTTACCACAAGCCTAGGGCAGATTA
CAGCCATCCAATCTCTTACCCCGAGCCTGAGCAGATCACCATCAACCAATCTCTTACCTCGAGTC
TGGCGCAGATTATAACCATCCAATA
Found at i:113095 original size:27 final size:27
Alignment explanation
Indices: 113065--113126 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
113055 CCAAACAAAC
113065 CCAATTGCACAAAGTCAAAAACTCTAG
1 CCAATTGCACAAAGTCAAAAACTCTAG
113092 CCAATTGCACAAAGTCAAAAACTCTAG
1 CCAATTGCACAAAGTCAAAAACTCTAG
*
113119 CCACTTGC
1 CCAATTGC
113127 TGCTGCTACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.19
Consensus pattern (27 bp):
CCAATTGCACAAAGTCAAAAACTCTAG
Found at i:113903 original size:12 final size:12
Alignment explanation
Indices: 113874--113903 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
113864 ATAAATGAGG
*
113874 AAATAAATAAAT
1 AAATAGATAAAT
113886 AAATAGATAAAT
1 AAATAGATAAAT
113898 AAATAG
1 AAATAG
113904 TGAATCAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (12 bp):
AAATAGATAAAT
Found at i:114778 original size:29 final size:28
Alignment explanation
Indices: 114727--114904 Score: 110
Period size: 30 Copynumber: 6.1 Consensus size: 28
114717 AACTTCTCTA
* * *
114727 AAATTACATTTTGACCTTGAACTTTTCC
1 AAATCACATTTTAACCTTAAACTTTTCC
* *
114755 AAATCACATTTTAACCTTAAAACTTCTCTA
1 AAATCACATTTTAACCTT-AAACTTTTC-C
**
114785 AAATTGCATTTTTAACTCTTAAAC-TTTCC
1 AAATCACA-TTTTAAC-CTTAAACTTTTCC
* * *
114814 TAAAATCACAGTTTGACCTTAAACATTTCC
1 --AAATCACATTTTAACCTTAAACTTTTCC
* * *
114844 AAATTAAATTTTTGACCCTTAAAC-TTTCC
1 AAATCACA-TTTT-AACCTTAAACTTTTCC
* *
114873 TAAAATCACATTTTGACCCT-AACTTTTCC
1 --AAATCACATTTTAACCTTAAACTTTTCC
114902 AAA
1 AAA
114905 ATTATGTTTT
Statistics
Matches: 115, Mismatches: 23, Indels: 25
0.71 0.14 0.15
Matches are distributed among these distances:
27 3 0.03
28 25 0.22
29 30 0.26
30 31 0.27
31 23 0.20
32 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (28 bp):
AAATCACATTTTAACCTTAAACTTTTCC
Found at i:114799 original size:31 final size:29
Alignment explanation
Indices: 114716--114908 Score: 119
Period size: 28 Copynumber: 6.6 Consensus size: 29
114706 TTTGACCCTC
*
114716 AAACTTCTCTAAAATTACATTTTGACCTT
1 AAACTTCTCTAAAATTACATTTTAACCTT
* * * *
114745 GAACTTTTC-CAAATCACATTTTAACCTT
1 AAACTTCTCTAAAATTACATTTTAACCTT
*
114773 AAAACTTCTCTAAAATTGCATTTTTAACTCTT
1 -AAACTTCTCTAAAATTACA-TTTTAAC-CTT
* * *
114805 AAACTT-TCCTAAAATCACAGTTTGACCTT
1 AAACTTCT-CTAAAATTACATTTTAACCTT
* * *
114834 AAACATT-TC-CAAATTAAATTTTTGACCCTT
1 AAAC-TTCTCTAAAATTACA-TTTT-AACCTT
* * *
114864 AAACTT-TCCTAAAATCACATTTTGACCCT
1 AAACTTCT-CTAAAATTACATTTTAACCTT
* *
114893 -AACTTTTCCAAAATTA
1 AAACTTCTCTAAAATTA
114909 TGTTTTGATC
Statistics
Matches: 125, Mismatches: 28, Indels: 23
0.71 0.16 0.13
Matches are distributed among these distances:
28 34 0.27
29 32 0.26
30 28 0.22
31 28 0.22
32 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (29 bp):
AAACTTCTCTAAAATTACATTTTAACCTT
Found at i:114907 original size:59 final size:60
Alignment explanation
Indices: 114696--114908 Score: 217
Period size: 59 Copynumber: 3.6 Consensus size: 60
114686 ATTTACTTTA
* *
114696 AAAATC-CTATTTTGACCCTCAAACTTCTCTAAAATTACA-TTTTGA-CCTTGAACTTTTCC-
1 AAAATCAC-ATTTTGACCCT-AAACTTCTCCAAAATTACATTTTTGACCCTTAAAC-TTTCCT
* * * * * *
114755 -AAATCACATTTTAACCTTAAAACTTCTCTAAAATTGCATTTTTAACTCTTAAACTTTCCT
1 AAAATCACATTTTGACCCT-AAACTTCTCCAAAATTACATTTTTGACCCTTAAACTTTCCT
* * *
114815 AAAATCACAGTTTGACCTTAAACATT-TCC-AAATTAAATTTTTGACCCTTAAACTTTCCT
1 AAAATCACATTTTGACCCTAAAC-TTCTCCAAAATTACATTTTTGACCCTTAAACTTTCCT
*
114874 AAAATCACATTTTGACCCT-AACTTTTCCAAAATTA
1 AAAATCACATTTTGACCCTAAACTTCTCCAAAATTA
114909 TGTTTTGATC
Statistics
Matches: 130, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
57 2 0.02
58 38 0.29
59 60 0.46
60 12 0.09
61 18 0.14
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (60 bp):
AAAATCACATTTTGACCCTAAACTTCTCCAAAATTACATTTTTGACCCTTAAACTTTCCT
Found at i:116120 original size:19 final size:19
Alignment explanation
Indices: 116074--116123 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
116064 GGTCGTGTGG
* *
116074 CAACCCGTGTGAAATGGTC
1 CAACCCATGTGGAATGGTC
116093 CAACCCATGTGGAATGGTC
1 CAACCCATGTGGAATGGTC
* *
116112 CAGCTCATGTGG
1 CAACCCATGTGG
116124 CTCTTGAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (19 bp):
CAACCCATGTGGAATGGTC
Found at i:117032 original size:23 final size:23
Alignment explanation
Indices: 117006--117051 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
116996 TGACAAGCTT
117006 TCTTTTTAAATAGACATTTGTTG
1 TCTTTTTAAATAGACATTTGTTG
117029 TCTTTTTAAATAGACATTTGTTG
1 TCTTTTTAAATAGACATTTGTTG
117052 GCTTGTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.52
Consensus pattern (23 bp):
TCTTTTTAAATAGACATTTGTTG
Found at i:117197 original size:15 final size:15
Alignment explanation
Indices: 117179--117210 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
117169 AAATAAAATC
117179 TCTTTACTTAAACTT
1 TCTTTACTTAAACTT
117194 TCTTTACTTAAACTT
1 TCTTTACTTAAACTT
117209 TC
1 TC
117211 ATATTAAAGG
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:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (15 bp):
TCTTTACTTAAACTT
Found at i:121715 original size:19 final size:19
Alignment explanation
Indices: 121693--121756 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 19
121683 TTAGATAATA
121693 ATAAAATTATTTTTATTTT
1 ATAAAATTATTTTTATTTT
*
121712 ATAAAATAAATTGTATTATTTT
1 ATAAAAT-TATT-T-TTATTTT
* * *
121734 AAAAATATTATTATTGTTTT
1 ATAAA-ATTATTTTTATTTT
121754 ATA
1 ATA
121757 TAAAAAAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 7 0.20
20 11 0.31
21 1 0.03
22 14 0.40
23 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
ATAAAATTATTTTTATTTT
Found at i:121748 original size:20 final size:22
Alignment explanation
Indices: 121697--121756 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
121687 ATAATAATAA
*
121697 AATTATTTTTATTTTATAAAAT
1 AATTATTATTATTTTATAAAAT
*
121719 AAATT-GTATTATTTTA-AAAAT
1 -AATTATTATTATTTTATAAAAT
*
121740 -ATTATTATTGTTTTATA
1 AATTATTATTATTTTATA
121757 TAAAAAAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 3 0.10
20 9 0.29
21 6 0.19
22 9 0.29
23 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
AATTATTATTATTTTATAAAAT
Found at i:121963 original size:20 final size:20
Alignment explanation
Indices: 121938--121977 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
121928 ATTCGTGAAG
*
121938 TTTAAAAATTCTATTAGTAT
1 TTTAAAAACTCTATTAGTAT
121958 TTTAAAAACTCTATTAGTAT
1 TTTAAAAACTCTATTAGTAT
121978 CCAATATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTAAAAACTCTATTAGTAT
Found at i:124751 original size:9 final size:9
Alignment explanation
Indices: 124715--124944 Score: 80
Period size: 10 Copynumber: 24.7 Consensus size: 9
124705 TATTAAATAT
124715 TAAAAATT-
1 TAAAAATTA
124723 T-AAAATTGA
1 TAAAAATT-A
124732 TAAAAACTTA
1 TAAAAA-TTA
*
124742 TGAAAATTA
1 TAAAAATTA
*
124751 TTAAAAAATAA
1 -T-AAAAATTA
** *
124762 TAAATCTTG
1 TAAAAATTA
*
124771 TAAATATT-
1 TAAAAATTA
*
124779 GAAAAA-TA
1 TAAAAATTA
*
124787 TAAAATTTA
1 TAAAAATTA
124796 T-AAAATTAA
1 TAAAAATT-A
*
124805 TAAAACATGTT
1 TAAAA-AT-TA
124816 TAAAATATT-
1 TAAAA-ATTA
*
124825 TAAAATTTTA
1 TAAAA-ATTA
* *
124835 TATAATTGTA
1 TAAAAAT-TA
*
124845 TAAAAATTCT
1 TAAAAATT-A
*
124855 TAAAAACCTA
1 TAAAAA-TTA
*
124865 TAAAAATCA
1 TAAAAATTA
* *
124874 CAAAAAATA
1 TAAAAATTA
*
124883 TTAAAAATCA
1 -TAAAAATTA
124893 TAAAAA-TA
1 TAAAAATTA
124901 TAAAAATTTA
1 TAAAAA-TTA
*
124911 TTAAAATTA
1 TAAAAATTA
*
124920 AAATAAACTTA
1 TAA-AAA-TTA
124931 T-AAAATTA
1 TAAAAATTA
124939 TAAAAA
1 TAAAAA
124945 AAATCGTAAA
Statistics
Matches: 165, Mismatches: 35, Indels: 43
0.68 0.14 0.18
Matches are distributed among these distances:
7 7 0.04
8 25 0.15
9 55 0.33
10 56 0.34
11 21 0.13
12 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:124799 original size:25 final size:26
Alignment explanation
Indices: 124749--124809 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
124739 TTATGAAAAT
*
124749 TATTAAAAAATAATAAATCTTGTAAA
1 TATTAAAAAATAATAAATCTTATAAA
*
124775 TATTGAAAAAT-ATAAAAT-TTATAAA
1 TATTAAAAAATAAT-AAATCTTATAAA
124800 -ATTAATAAAA
1 TATTAA-AAAA
124810 CATGTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 4 0.13
25 12 0.40
26 14 0.47
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (26 bp):
TATTAAAAAATAATAAATCTTATAAA
Found at i:124878 original size:19 final size:17
Alignment explanation
Indices: 124863--124907 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
124853 CTTAAAAACC
124863 TATAAAAATCACAAAAAA
1 TATAAAAATCAC-AAAAA
*
124881 TATTAAAAATCATAAAAA
1 TA-TAAAAATCACAAAAA
124899 TATAAAAAT
1 TATAAAAAT
124908 TTATTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 9 0.36
19 9 0.36
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (17 bp):
TATAAAAATCACAAAAA
Found at i:124895 original size:28 final size:29
Alignment explanation
Indices: 124846--124916 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
124836 ATAATTGTAT
*
124846 AAAAAT-TCTTAAAAACCTATAAAAATCAC
1 AAAAATATATTAAAAACCTATAAAAAT-AC
* *
124875 AAAAA-ATATTAAAAATC-ATAAAAATAT
1 AAAAATATATTAAAAACCTATAAAAATAC
*
124902 AAAAATTTATTAAAA
1 AAAAATATATTAAAA
124917 TTAAAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 6 0.17
28 16 0.44
29 14 0.39
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAATATATTAAAAACCTATAAAAATAC
Found at i:125185 original size:16 final size:16
Alignment explanation
Indices: 125160--125193 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
125150 GACCCTCTCC
*
125160 TTTTTATTGATAATTT
1 TTTTTATTGAAAATTT
*
125176 TTTTTTTTGAAAATTT
1 TTTTTATTGAAAATTT
125192 TT
1 TT
125194 ATCTCCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTTATTGAAAATTT
Found at i:125805 original size:2 final size:2
Alignment explanation
Indices: 125800--125833 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
125790 AATACGCAAT
*
125800 TA TA TA -A TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125834 GTTAATAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:130285 original size:98 final size:98
Alignment explanation
Indices: 130088--130437 Score: 278
Period size: 98 Copynumber: 3.5 Consensus size: 98
130078 AAACAGATTC
* * * *
130088 CATTGATTCATAAGGGGTGTGATTGGGCCAAAGGTAAGAATGGTACCATTCAGTTCATTGCCAAT
1 CATTGATTCATAAGGGGTGTG-TTGAGCCAAAGGCAAGAATAGTACC--TCAGTTCATTGCAAAT
** *
130153 GTGGACTCCATTATTAATCCACCATTACAAGCATTT
63 GTGGACTCCATTACGAATCCACCATAACAAGCATTT
130189 CATTGATTCATAAAGGGGTGTGTTCGAGCCAAAGGCAAGAATAGTACC-C-GTTCATTG-AATAT
1 CATTGATTCAT-AAGGGGTGTGTT-GAGCCAAAGGCAAGAATAGTACCTCAGTTCATTGCAA-AT
* ** *
130251 GTGGACTCCATTACGAATGCACTGTAACGAGCATTT
63 GTGGACTCCATTACGAATCCACCATAACAAGCATTT
* * * * ** *
130287 CATTGATTCATTAAGGGGTG-GTTGAGCAAAAGGTAATAATATTACCAATTGGTTTCATTATCAA
1 CATTGATTCA-TAAGGGGTGTGTTGAGCCAAAGGCAAGAATAGTACC--TCAG-TTCATT-GCAA
* ** *
130351 ATGGTGGACT-CATTACGAATCCACCATTATGAGCACTT
61 AT-GTGGACTCCATTACGAATCCACCATAACAAGCATTT
* * * * * *
130389 GATTTGATTCACAAAGGAGTGTGTTTGAGCCAAGGGTAAGAACAGTACC
1 CA-TTGATTCA-TAAGGGGTGTG-TTGAGCCAAAGGCAAGAATAGTACC
130438 ATCACATGCA
Statistics
Matches: 202, Mismatches: 32, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
96 19 0.09
97 4 0.02
98 57 0.28
99 2 0.01
100 1 0.00
101 19 0.09
102 55 0.27
103 24 0.12
104 1 0.00
105 20 0.10
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (98 bp):
CATTGATTCATAAGGGGTGTGTTGAGCCAAAGGCAAGAATAGTACCTCAGTTCATTGCAAATGTG
GACTCCATTACGAATCCACCATAACAAGCATTT
Found at i:131519 original size:17 final size:16
Alignment explanation
Indices: 131491--131525 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
131481 TTCAAAATTC
*
131491 TCAAAAAACAAAAGAA
1 TCAAAAAACAAAAAAA
131507 TCAAAAGAACAAAAAAA
1 TCAAAA-AACAAAAAAA
131524 TC
1 TC
131526 CTTTTTACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.71, C:0.14, G:0.06, T:0.09
Consensus pattern (16 bp):
TCAAAAAACAAAAAAA
Found at i:133696 original size:50 final size:50
Alignment explanation
Indices: 133616--133720 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 50
133606 TCATGTGTGC
* *
133616 CACACGGGCGTGTGCTAACCCGTGTATGGCTACTATTTTCTGATTTGAGG
1 CACACGGGCATGTGCTAACCCGTGTATGGCTACTATTTTCTAATTTGAGG
*
133666 CACACGGGCATGTGCTAGA-CCGTGTGTGGCTACTATTTTCTAATTTGAGG
1 CACACGGGCATGTGCTA-ACCCGTGTATGGCTACTATTTTCTAATTTGAGG
133716 CACAC
1 CACAC
133721 TACTGTGTGC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 50 0.98
51 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (50 bp):
CACACGGGCATGTGCTAACCCGTGTATGGCTACTATTTTCTAATTTGAGG
Found at i:133730 original size:50 final size:50
Alignment explanation
Indices: 133616--133744 Score: 163
Period size: 50 Copynumber: 2.6 Consensus size: 50
133606 TCATGTGTGC
* * *
133616 CACACGGGCGTGTGCTA-ACCCGTGTATGGCTACTATTTTCTGATTTGAGG
1 CACACGGACGTGTGCTAGA-CCGTGTGTGGCTACTATTTTCTAATTTGAGG
* *
133666 CACACGGGCATGTGCTAGACCGTGTGTGGCTACTATTTTCTAATTTGAGG
1 CACACGGACGTGTGCTAGACCGTGTGTGGCTACTATTTTCTAATTTGAGG
* *
133716 CACAC-TACTGTGTGCTAGACCTTGTGTGG
1 CACACGGAC-GTGTGCTAGACCGTGTGTGG
133745 AAAAAGTAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 68 0.97
51 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.32
Consensus pattern (50 bp):
CACACGGACGTGTGCTAGACCGTGTGTGGCTACTATTTTCTAATTTGAGG
Found at i:135470 original size:28 final size:26
Alignment explanation
Indices: 135420--135478 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
135410 ATTTTAAAAA
*
135420 TTAAA-AAAAATAAAATAACTAAAATTT
1 TTAAATAAAAATAAAAGAACT-AAA-TT
* *
135447 TTAAATAAAAATAAAGGAATTAAATT
1 TTAAATAAAAATAAAAGAACTAAATT
135473 TTAAAT
1 TTAAAT
135479 TTAAAAGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.29
27 8 0.29
28 12 0.43
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (26 bp):
TTAAATAAAAATAAAAGAACTAAATT
Found at i:136830 original size:22 final size:23
Alignment explanation
Indices: 136785--136830 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
136775 TTTAATTTTT
* * *
136785 TAAAAATTATATTTTTACTATCG
1 TAAAAATTACAATTTAACTATCG
136808 TAAAAATTACAATTTAACT-TCG
1 TAAAAATTACAATTTAACTATCG
136830 T
1 T
136831 CCCCATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.43
Consensus pattern (23 bp):
TAAAAATTACAATTTAACTATCG
Found at i:139904 original size:18 final size:18
Alignment explanation
Indices: 139872--139907 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
139862 ATTTATTTTA
139872 AATATATTTATAATATAT
1 AATATATTTATAATATAT
139890 AATATGATTTA-AATATAT
1 AATAT-ATTTATAATATAT
139908 TTTTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AATATATTTATAATATAT
Found at i:140335 original size:2 final size:2
Alignment explanation
Indices: 140328--140368 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
140318 AAAATTCATT
140328 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
140369 TGCTGATACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:148227 original size:156 final size:154
Alignment explanation
Indices: 148030--148340 Score: 532
Period size: 156 Copynumber: 2.0 Consensus size: 154
148020 TCAAGTTGTG
* *
148030 ATGGACAGATACGATGCCTATCGTTCGCTAAAACGCCACCGACCACCAATATTTTTTCTTGAAAA
1 ATGGACAAATACGATGCCTATCGTTCGCTAAAACGCCACCGACCACCAATAGTTTTTCTTGAAAA
148095 GTGAGTGACTCTTCGTCAACTTCTTAATTTGTTTAAGAGTGTTTCAAAATAATAAATGATTTCAC
66 GTGAGTGACTCTTCGTCAACTTCTTAATTTGTTTAAGA--GTTTCAAAATAATAAATGATTTCAC
*
148160 GAGTCGATTTAGACTCATATTATCTT
129 GAATCGATTTAGACTCATATTATCTT
*
148186 ATGGACAAATACGGTGCCTATCGTTCGCTAAAACGCCACCGACCACCAATAGTTTTTCTTGAAAA
1 ATGGACAAATACGATGCCTATCGTTCGCTAAAACGCCACCGACCACCAATAGTTTTTCTTGAAAA
* * *
148251 GTGGGTGGCTCTTCGTCAACTTCTTAATTTGTTTAAGAGTTTCAAAATAATAAATGATTTTACGA
66 GTGAGTGACTCTTCGTCAACTTCTTAATTTGTTTAAGAGTTTCAAAATAATAAATGATTTCACGA
*
148316 ATCGATTTCGACTCATATTATCTT
131 ATCGATTTAGACTCATATTATCTT
148340 A
1 A
148341 AGTTTTATAT
Statistics
Matches: 147, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
154 49 0.33
156 98 0.67
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (154 bp):
ATGGACAAATACGATGCCTATCGTTCGCTAAAACGCCACCGACCACCAATAGTTTTTCTTGAAAA
GTGAGTGACTCTTCGTCAACTTCTTAATTTGTTTAAGAGTTTCAAAATAATAAATGATTTCACGA
ATCGATTTAGACTCATATTATCTT
Found at i:149027 original size:13 final size:13
Alignment explanation
Indices: 149009--149033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
148999 TCGTTGAAGG
149009 ATAAAAATAAAAT
1 ATAAAAATAAAAT
149022 ATAAAAATAAAA
1 ATAAAAATAAAA
149034 AAGAATTGTT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:153607 original size:32 final size:31
Alignment explanation
Indices: 153567--153637 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 31
153557 TTATTATATC
* *
153567 ATTATATTATATTATCTAAATATTCATGTATT
1 ATTATATTAAATTATCTAAATA-TAATGTATT
* *
153599 ATTATATTAAATTATTTAAATATAATTTATT
1 ATTATATTAAATTATCTAAATATAATGTATT
153630 ATTATATT
1 ATTATATT
153638 TAATATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 15 0.43
32 20 0.57
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (31 bp):
ATTATATTAAATTATCTAAATATAATGTATT
Found at i:155927 original size:29 final size:28
Alignment explanation
Indices: 155901--155955 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
155891 CTTTTTGGAT
*
155901 ACCCA-GGGGGCAAAATGGTAATTTTGG
1 ACCCATGGGGGCAAAATGGGAATTTTGG
**
155928 ACTTATGGGGGCAAAATGGGAATTTTGG
1 ACCCATGGGGGCAAAATGGGAATTTTGG
155956 GAAAGTTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.29, C:0.11, G:0.35, T:0.25
Consensus pattern (28 bp):
ACCCATGGGGGCAAAATGGGAATTTTGG
Found at i:156190 original size:30 final size:29
Alignment explanation
Indices: 156066--156201 Score: 132
Period size: 30 Copynumber: 4.6 Consensus size: 29
156056 GGGTAAAAGG
* *
156066 GTAATTTTTGAAAGTTTTGGGGTTAAAAT
1 GTAATTTTTGGAAGTTTTGGGGTCAAAAT
* *
156095 -TAGGATTTTTGGAAGTTTAGGGAT-AAAAT
1 GTA--ATTTTTGGAAGTTTTGGGGTCAAAAT
*
156124 GTATTTTTTGGAAGTTTTGGGGTCAAAAGT
1 GTAATTTTTGGAAGTTTTGGGGTCAAAA-T
* * *
156154 GGAATTTTGGAGAAGTTTGGGGGTCAAAAT
1 GTAATTTTTG-GAAGTTTTGGGGTCAAAAT
*
156184 ATAATTTTTGGATAGTTT
1 GTAATTTTTGGA-AGTTT
156202 AGGGACCTCC
Statistics
Matches: 87, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
28 19 0.22
29 11 0.13
30 40 0.46
31 17 0.20
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.41
Consensus pattern (29 bp):
GTAATTTTTGGAAGTTTTGGGGTCAAAAT
Found at i:158062 original size:34 final size:34
Alignment explanation
Indices: 157997--158063 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
157987 TTTTAATTTA
*
157997 AAAATAAATTTAAATTTAAAGTAAATCCAAACTC
1 AAAATAAATTTAAATTTAAAATAAATCCAAACTC
* * * *
158031 AAAATGAATTTGAATTTAAAATGAATTCAAACT
1 AAAATAAATTTAAATTTAAAATAAATCCAAACT
158064 TATTTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (34 bp):
AAAATAAATTTAAATTTAAAATAAATCCAAACTC
Found at i:158724 original size:49 final size:49
Alignment explanation
Indices: 158635--158760 Score: 173
Period size: 49 Copynumber: 2.6 Consensus size: 49
158625 GAGTTAGTAT
* * *
158635 ACTTCTCTATATCTCATCAGGAAGATGATCGTCTCACTTATTTCAATTC
1 ACTTCTTTGTATCTCATCAGGAAGATGATCGTCTCACTTATTTCAATCC
** * *
158684 GTTTCTTTGTATCTCATCAGGAAGATGGTCG-CGTCGCTTATTTCAATCC
1 ACTTCTTTGTATCTCATCAGGAAGATGATCGTC-TCACTTATTTCAATCC
158733 ACTTCTTTGTATCTCATCAGGAAGATGA
1 ACTTCTTTGTATCTCATCAGGAAGATGA
158761 ATTTGGTCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
48 1 0.02
49 65 0.98
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (49 bp):
ACTTCTTTGTATCTCATCAGGAAGATGATCGTCTCACTTATTTCAATCC
Found at i:158883 original size:250 final size:249
Alignment explanation
Indices: 158443--158958 Score: 915
Period size: 250 Copynumber: 2.1 Consensus size: 249
158433 CTTCTTCCCA
* *
158443 GTATCTCATCAAGAAGATGGCCGAGTCACTTGTTTCAATCACTTCTTTGTATCTCATCAGGAAGA
1 GTATCTCATCAGGAAGATGGCCGAGTCACTTATTTCAATCACTTCTTTGTATCTCATCAGGAAGA
*
158508 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAACTAACCATTTTATTGCTTTGACCTGGTTC
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAACTAACCATTTTATTGCTTTGACCTGCTTC
158573 TCTGTATCTCATCAGGAAGCTAGGGTTCAGAGATTTGCTCGCATTGAGCCTTGAGTTAGTATACT
131 TCTGTATCTCATCAGGAAGCTAGGGTTCAGAGATTTGCTCGCATTGAGCCTTGAGTTAGTATACT
* * *
158638 TCTCTATATCTCATCAGGAAGATGATCGTCTCACTTATTTCAATTCGTTTCTTT
196 TCTCTATATCTCATCAGGAAGATGATCGCCTCACTTACTTCAATTCGTTTCTCT
* * *
158692 GTATCTCATCAGGAAGATGGTCGCGTCGCTTATTTCAATCCACTTCTTTGTATCTCATCAGGAAG
1 GTATCTCATCAGGAAGATGGCCGAGTCACTTATTTCAAT-CACTTCTTTGTATCTCATCAGGAAG
* *
158757 ATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTTGACCTGCTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAACTAACCATTTTATTGCTTTGACCTGCTT
158822 CTCTGTATCTCATCAGGAAGCTAGGGTTCAGAGATTTGCTCGCATTGAGCCTTGAGTTAGTATAC
130 CTCTGTATCTCATCAGGAAGCTAGGGTTCAGAGATTTGCTCGCATTGAGCCTTGAGTTAGTATAC
*
158887 TTCTCTATATCTCATCAGGAAGATGATCGCCTCACTTGCTTCAATTCGTTTCTCT
195 TTCTCTATATCTCATCAGGAAGATGATCGCCTCACTTACTTCAATTCGTTTCTCT
158942 GTATCTCATCAGGAAGA
1 GTATCTCATCAGGAAGA
158959 CGAATTTGGT
Statistics
Matches: 254, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
249 34 0.13
250 220 0.87
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (249 bp):
GTATCTCATCAGGAAGATGGCCGAGTCACTTATTTCAATCACTTCTTTGTATCTCATCAGGAAGA
CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAACTAACCATTTTATTGCTTTGACCTGCTTC
TCTGTATCTCATCAGGAAGCTAGGGTTCAGAGATTTGCTCGCATTGAGCCTTGAGTTAGTATACT
TCTCTATATCTCATCAGGAAGATGATCGCCTCACTTACTTCAATTCGTTTCTCT
Found at i:158966 original size:201 final size:200
Alignment explanation
Indices: 158693--159686 Score: 1326
Period size: 201 Copynumber: 4.9 Consensus size: 200
158683 CGTTTCTTTG
** * * * * * *
158693 TATCTCATCAGGAAGATGGTCGCGTCGCTTATTTCAATCCACTTCTTTGTATCTCATCAGGAAGA
1 TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGA
* *
158758 TGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTTGACCTGCTTC
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
* * * * *
158823 TCTGTATCTCATCAGGAAGCTAGGGTTCAGAGATTTGCTCGCATTGAGCCTTGAGTTAGTATACT
131 TCAGTATCTCATCAAGAAGCTGGGGTTC-GAGATTTGCTCGCTTTGAGCCTTGAGTTGGTATACT
158888 TCTCTA
195 TCTCTA
* * *
158894 TATCTCATCAGGAAGATGATCGCCTCACTTGCTTCAATTCGTTTCTCTGTATCTCATCAGGAAGA
1 TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGA
*
158959 CGAATTTGGTCGACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
* * *
159024 TCAGTATCTCATCAAGAAGTTGGGGTTCGAAGATTTGCTCGCATTGAGCCTCGAGTTGGTATACT
131 TCAGTATCTCATCAAGAAGCTGGGGTTCG-AGATTTGCTCGCTTTGAGCCTTGAGTTGGTATACT
*
159089 TCTCTG
195 TCTCTA
* * *
159095 TATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCGCTTCTCTGTACCTCATCAGGAAGA
1 TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGA
* * *
159160 CGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTACTTCGACCTGCTTC
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
* * *
159225 TCAGTATCTCATCAAGAAGTTGAGGTTCGGAGATTTGCTCACTTTGAGCCTTGTTTCATTGATTT
131 TCAGTATCTCATCAAGAAGCTGGGGTTC-GAGATTTGCTCGCTTTGAGCCTTG----A--G--TT
*
159290 GGTCTACTTCTC-A
187 GGTATACTTCTCTA
* * *
159303 GTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAA-TCTGGTTCTCTGTATCTCATCAGGAA
1 -TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTC-GCTTCTCTGTATCTCATCAGGAA
* * * * *
159367 GACTAATTTGGTTCACTTCTCAATATCTCATCAAGAAGTTAACCATTTTATTGCTTCGACCTGCT
64 GACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
* **
159432 TCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCTTTGAGCCTCGTTTTGGTATA
129 TCTCAGTATCTCATCAAGAAGCTGGGGTTCG-AGATTTGCTCGCTTTGAGCCTTGAGTTGGTATA
* *
159497 CTTCTTTG
193 CTTCTCTA
* * *
159505 TATCTCATCAGGAAGATGACTGCCTCACTTGTTTCAATTCGCTTCTCTGTACCTCATCAAGAAGA
1 TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGA
* * * *
159570 CGAATTTTGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTACTCCGACCTGCTTC
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
* * * *
159635 TCAATATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTCGCTTTGAGCCTT
131 TCAGTATCTCATCAAGAAGCTGGGGTTC-GAGATTTGCTCGCTTTGAGCCTT
159687 ATTTCATTGA
Statistics
Matches: 701, Mismatches: 76, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
200 1 0.00
201 517 0.74
202 3 0.00
205 1 0.00
207 1 0.00
208 2 0.00
209 176 0.25
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.36
Consensus pattern (200 bp):
TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGA
CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
TCAGTATCTCATCAAGAAGCTGGGGTTCGAGATTTGCTCGCTTTGAGCCTTGAGTTGGTATACTT
CTCTA
Found at i:159452 original size:410 final size:409
Alignment explanation
Indices: 158686--159746 Score: 1570
Period size: 410 Copynumber: 2.6 Consensus size: 409
158676 TTCAATTCGT
** * * * * * *
158686 TTCTTTGTATCTCATCAGGAAGATGGTCGCGTCGCTTATTTCAATCCACTTCTTTGTATCTCATC
1 TTCTTTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATC
* * * *
158751 AGGAAGATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTTGAC
66 AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTACTTCGAC
* *
158816 CTGCTTCTCTGTATCTCATCAGGAAGCT-AGGGTTCAGAGATTTGCTCGCATTGAGCCTTG----
131 CTGCTTCTCAGTATCTCATCAGGAAGCTGA-GGTTCAGAGATTTGCTCGCTTTGAGCCTTGTTTC
* * * * * *
158876 A--G--TTAGTATACTTCTCTATATCTCATCAGGAAGATGATCGCCTCACTTGCTTCAATTCGTT
195 ATTGATTTGGTCTACTTCTC-ATATCTCATCAGGAAGATGATCGCATCGCTTGTTTCAATTCGGT
* *
158937 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCGACTTCTCAGTATCTCATCAGGAAGCTAACCA
259 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCGACTTCTCAATATCTCATCAAGAAGCTAACCA
*
159002 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGTTGGGGTTCGAAGATTTGCTCGCA
324 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCA
159067 TTGAGCCTCGAGTTGGTATAC
389 TTGAGCCTCGAGTTGGTATAC
* *
159088 TTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCGCTTCTCTGTACCTCATC
1 TTCTTTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATC
*
159153 AGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTACTTCGAC
66 AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTACTTCGAC
* * * *
159218 CTGCTTCTCAGTATCTCATCAAGAAGTTGAGGTTCGGAGATTTGCTCACTTTGAGCCTTGTTTCA
131 CTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCAGAGATTTGCTCGCTTTGAGCCTTGTTTCA
*
159283 TTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAA-TCTGGT
196 TTGATTTGGTCTACTTCTCA-TATCTCATCAGGAAGATGATCGCATCGCTTGTTTCAATTC-GGT
* *
159347 TCTCTGTATCTCATCAGGAAGACTAATTTGGTTC-ACTTCTCAATATCTCATCAAGAAGTTAACC
259 TCTCTGTATCTCATCAGGAAGACGAATTTGG-TCGACTTCTCAATATCTCATCAAGAAGCTAACC
159411 ATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGC
323 ATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGC
* **
159476 TTTGAGCCTCGTTTTGGTATAC
388 ATTGAGCCTCGAGTTGGTATAC
* *
159498 TTCTTTGTATCTCATCAGGAAGATGACTGCCTCACTTGTTTCAATTCGCTTCTCTGTACCTCATC
1 TTCTTTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATC
* * *
159563 AAGAAGACGAATTTTGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTACTCCGAC
66 AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTACTTCGAC
* * *
159628 CTGCTTCTCAATATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTCGCTTTGAGCCTTATTTCA
131 CTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCAGAGATTTGCTCGCTTTGAGCCTTGTTTCA
* *
159693 TTGATTTGGTCTATTTCTCAATATCTCATCAAGAAGATGATCGCATCG-TTGTTT
196 TTGATTTGGTCTACTTCTC-ATATCTCATCAGGAAGATGATCGCATCGCTTGTTT
159747 GTGGATAATC
Statistics
Matches: 592, Mismatches: 54, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
402 167 0.28
403 1 0.00
406 1 0.00
408 1 0.00
409 9 0.02
410 410 0.69
411 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (409 bp):
TTCTTTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTACCTCATC
AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTTATTACTTCGAC
CTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCAGAGATTTGCTCGCTTTGAGCCTTGTTTCA
TTGATTTGGTCTACTTCTCATATCTCATCAGGAAGATGATCGCATCGCTTGTTTCAATTCGGTTC
TCTGTATCTCATCAGGAAGACGAATTTGGTCGACTTCTCAATATCTCATCAAGAAGCTAACCATT
TTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCGCATT
GAGCCTCGAGTTGGTATAC
Found at i:160190 original size:50 final size:49
Alignment explanation
Indices: 160133--160286 Score: 123
Period size: 50 Copynumber: 3.1 Consensus size: 49
160123 ATGTTTTTAA
*
160133 GGTACTGGGTTCGCCATTACGACTTAAACCTTTCCCTTTCACATCTTTGT
1 GGTACTGGG-TCGCCATTACGACTTAAACCTTTCCCTTTCATATCTTTGT
* ** * * * * * *
160183 GGTACTGGACTCGCTGTTGCGGCTTAAATCTTTCCC-TTCTTGTCTTCTGA
1 GGTACTGG-GTCGCCATTACGACTTAAACCTTTCCCTTTCATATCTT-TGT
* * **
160233 GGTACAT-GGTCTACCATTACGACTTAAGCCTTTCCCTTTTGTATCTTTGT
1 GGTAC-TGGGTC-GCCATTACGACTTAAACCTTTCCCTTTCATATCTTTGT
160283 GGTA
1 GGTA
160287 TTAGATTCGT
Statistics
Matches: 77, Mismatches: 22, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
49 9 0.12
50 60 0.78
51 8 0.10
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (49 bp):
GGTACTGGGTCGCCATTACGACTTAAACCTTTCCCTTTCATATCTTTGT
Found at i:160337 original size:100 final size:99
Alignment explanation
Indices: 160146--160330 Score: 237
Period size: 100 Copynumber: 1.8 Consensus size: 99
160136 ACTGGGTTCG
* *
160146 CCATTACGACTTAAACCTTTCCCTTTCACATCTTTGTGGTACTGGACTCGCTGTTGCGGCTTAAA
1 CCATTACGACTTAAACCTTTCCCTTTCACATCTTTGTGGTACTAGACTCGCTATTGCGGCTTAAA
*
160211 TCTTTCCCTTCTTGTCTTCTGAGGTACATGGTCTA
66 TCTTTCCCTTCATGTCTTCT-AGGTACATGGTCTA
* *** * * *
160246 CCATTACGACTTAAGCCTTTCCCTTTTGTATCTTTGTGGTATTAGATTCG-TCATTGCGGTTTTA
1 CCATTACGACTTAAACCTTTCCCTTTCACATCTTTGTGGTACTAGACTCGCT-ATTGCGG-CTTA
*
160310 GATCTTTCCCTTCATGTCTTC
64 AATCTTTCCCTTCATGTCTTC
160331 ATGGTACTGG
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
99 1 0.01
100 49 0.68
101 22 0.31
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.42
Consensus pattern (99 bp):
CCATTACGACTTAAACCTTTCCCTTTCACATCTTTGTGGTACTAGACTCGCTATTGCGGCTTAAA
TCTTTCCCTTCATGTCTTCTAGGTACATGGTCTA
Found at i:160344 original size:50 final size:49
Alignment explanation
Indices: 160182--160627 Score: 256
Period size: 49 Copynumber: 9.0 Consensus size: 49
160172 CACATCTTTG
* * *
160182 TGGTACTGGACTCGCTGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTC-
1 TGGTACTGGATTCGCCGTTGCGGCTTAGATCTTTCCCTTCTTGTCTTCA
* * * * * **
160230 TGAGGTACATGG--TCTACCATTACGACTTA-AGCCTTTCCCTT-TTGTATCTTTG
1 T--GGTAC-TGGATTC-GCCGTTGCGGCTTAGA-TCTTTCCCTTCTTG--TCTTCA
* * * * * *
160282 TGGTATTAGATTCGTCATTGCGGTTTTAGATCTTTCCCTTCATGTCTTCA
1 TGGTACTGGATTCGCCGTTGCGG-CTTAGATCTTTCCCTTCTTGTCTTCA
*
160332 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTC-
1 TGGTACTGGATTCGCCGTTGCGGCTTAGATCTTTCCCTTCTTGTCTTCA
* * * **
160380 TGAGGTACACGG-TCCGCCGTTGCGACTTAGA-CTTTTCCCTT-TTGTATCTTTG
1 T--GGTAC-TGGATTCGCCGTTGCGGCTTAGATC-TTTCCCTTCTTG--TCTTCA
* *
160432 TGGTACTGGATTCGCCGTTGTGGTCTTAGATCTTTCCCTTCATGTCTTCA
1 TGGTACTGGATTCGCCGTTGCGG-CTTAGATCTTTCCCTTCTTGTCTTCA
* * *
160482 TGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTC-
1 TGGTACTGGATTCGCCGTTGCGGCTTAGATCTTTCCCTTCTTGTCTTCA
* * * * * * *
160530 TGAGGTACACGG--TCCCCTTTGCGACTTAGACCTTTCCCTTTTTATCTTC-
1 T--GGTAC-TGGATTCGCCGTTGCGGCTTAGATCTTTCCCTTCTTGTCTTCA
* * * *
160579 TGAGGTACACGG--TCCCCGTTGCGACTTAGACCTTTCCCTTCTTGTCTTC
1 T--GGTAC-TGGATTCGCCGTTGCGGCTTAGATCTTTCCCTTCTTGTCTTC
160628 TGAGGTACAC
Statistics
Matches: 317, Mismatches: 54, Indels: 53
0.75 0.13 0.12
Matches are distributed among these distances:
48 3 0.01
49 135 0.43
50 129 0.41
51 42 0.13
52 8 0.03
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.41
Consensus pattern (49 bp):
TGGTACTGGATTCGCCGTTGCGGCTTAGATCTTTCCCTTCTTGTCTTCA
Found at i:160461 original size:150 final size:149
Alignment explanation
Indices: 160182--160586 Score: 607
Period size: 150 Copynumber: 2.7 Consensus size: 149
160172 CACATCTTTG
* * * *
160182 TGGTACTGGACTCGCTGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGAGGTACATGGTCTAC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTC-CC
* * * *
160247 CATTACGACTTA-AGCCTTTCCCTTTTGTATCTTTGTGGTATTAGATTCGTCATTGCGGTTTTAG
65 CATTGCGACTTAGA-CCTTTCCCTTTTGTATCTTTGTGGTACTAGATTCGCCATTGCGGTCTTAG
160311 ATCTTTCCCTTCATGTCTTCA
129 ATCTTTCCCTTCATGTCTTCA
160332 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCGC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCC-C
* * * * *
160397 CGTTGCGACTTAGACTTTTCCCTTTTGTATCTTTGTGGTACTGGATTCGCCGTTGTGGTCTTAGA
65 CATTGCGACTTAGACCTTTCCCTTTTGTATCTTTGTGGTACTAGATTCGCCATTGCGGTCTTAGA
160462 TCTTTCCCTTCATGTCTTCA
130 TCTTTCCCTTCATGTCTTCA
* *
160482 TGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCCC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCCC
* *
160547 TTTGCGACTTAGACCTTTCCCTTTT-TATCTTCTGAGGTAC
66 ATTGCGACTTAGACCTTTCCCTTTTGTATCTT-TGTGGTAC
160587 ACGGTCCCCG
Statistics
Matches: 234, Mismatches: 18, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
148 6 0.03
149 32 0.14
150 195 0.83
151 1 0.00
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (149 bp):
TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCCC
ATTGCGACTTAGACCTTTCCCTTTTGTATCTTTGTGGTACTAGATTCGCCATTGCGGTCTTAGAT
CTTTCCCTTCATGTCTTCA
Found at i:160552 original size:49 final size:49
Alignment explanation
Indices: 160307--160664 Score: 340
Period size: 49 Copynumber: 7.2 Consensus size: 49
160297 CATTGCGGTT
* * * *
160307 TTAGATCTTTCCCTTCATGTCTTC--ATGGTAC-TGGATTCGCCGTTGCGGC
1 TTAGATCTTTCCCTTCTTGTCTTCTGA-GGTACACGG--TCCCCGTTGCGAC
*
160356 TTAAATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCGCCGTTGCGAC
1 TTAGATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCC-CCGTTGCGAC
* * * * *
160406 TTAGA-CTTTTCCCTT-TTGTATCTT-TGTGGTAC-TGGATTCGCCGTTGTGGTC
1 TTAGATC-TTTCCCTTCTTG--TCTTCTGAGGTACACGG--TCCCCGTTG-CGAC
* * * *
160457 TTAGATCTTTCCCTTCATGTCTTC--ATGGTACTA-GATTCACCGTTGCGGC
1 TTAGATCTTTCCCTTCTTGTCTTCTGA-GGTAC-ACG-GTCCCCGTTGCGAC
* *
160506 TTAAATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCCCTTTGCGAC
1 TTAGATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCCCGTTGCGAC
* * *
160555 TTAGACCTTTCCCTTTTTATCTTCTGAGGTACACGGTCCCCGTTGCGAC
1 TTAGATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCCCGTTGCGAC
* *
160604 TTAGACCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCCCGTTGCAAC
1 TTAGATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCCCGTTGCGAC
160653 TTAGATCTTTCC
1 TTAGATCTTTCC
160665 TTTCATGTTT
Statistics
Matches: 257, Mismatches: 32, Indels: 40
0.78 0.10 0.12
Matches are distributed among these distances:
49 166 0.65
50 62 0.24
51 26 0.10
52 3 0.01
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (49 bp):
TTAGATCTTTCCCTTCTTGTCTTCTGAGGTACACGGTCCCCGTTGCGAC
Found at i:162005 original size:12 final size:11
Alignment explanation
Indices: 161982--162044 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 11
161972 CTTTTTTCTA
161982 TTTTTGTTTTTC
1 TTTTT-TTTTTC
161994 TTATTTTTTTTC
1 TT-TTTTTTTTC
162006 TTTTCTTTTTTC
1 TTTT-TTTTTTC
* *
162018 TTTTCTTTTGC
1 TTTTTTTTTTC
* *
162029 TTTCTTTTTCC
1 TTTTTTTTTTC
162040 TTTTT
1 TTTTT
162045 CCTTTTTTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
11 19 0.44
12 21 0.49
13 3 0.07
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:162009 original size:7 final size:7
Alignment explanation
Indices: 161972--162053 Score: 51
Period size: 7 Copynumber: 11.1 Consensus size: 7
161962 CGACCTCTCC
161972 CTTTTTT
1 CTTTTTT
161979 CTATTTTT
1 CT-TTTTT
*
161987 -GTTTTT
1 CTTTTTT
161993 CTTATTTTT
1 C-T-TTTTT
*
162002 TTTCTTTT
1 CTT-TTTT
162010 CTTTTTT
1 CTTTTTT
162017 CTTTTCTT
1 CTTTT-TT
*
162025 -TTGCTTT
1 CTT-TTTT
*
162032 CTTTTTC
1 CTTTTTT
*
162039 CTTTTTC
1 CTTTTTT
162046 CTTTTTT
1 CTTTTTT
162053 C
1 C
162054 CTTTGTTCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
6 5 0.08
7 32 0.54
8 17 0.29
9 5 0.08
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (7 bp):
CTTTTTT
Found at i:162009 original size:17 final size:17
Alignment explanation
Indices: 161989--162053 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 17
161979 CTATTTTTGT
161989 TTTTCTTATTTT-TTTTC
1 TTTTCTT-TTTTCTTTTC
162006 TTTTCTTTTTTCTTTTC
1 TTTTCTTTTTTCTTTTC
* *
162023 TTTTGCTTTCTT-TTTCC
1 TTTT-CTTTTTTCTTTTC
162040 TTTTTCCTTTTTTC
1 -TTTT-CTTTTTTC
162054 CTTTGTTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.10
17 20 0.50
18 16 0.40
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTCTTTTTTCTTTTC
Found at i:162037 original size:22 final size:23
Alignment explanation
Indices: 161988--162043 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
161978 TCTATTTTTG
* *
161988 TTTTTCTTATTTTTTTTCTTTTCT
1 TTTTTCTT-TTCTTTTGCTTTTCT
162012 TTTTTCTTTTCTTTTGC-TTTCT
1 TTTTTCTTTTCTTTTGCTTTTCT
*
162034 TTTTCCTTTT
1 TTTTTCTTTT
162044 TCCTTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 14 0.48
23 7 0.24
24 8 0.28
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTTCTTTTCTTTTGCTTTTCT
Found at i:162892 original size:35 final size:35
Alignment explanation
Indices: 162825--162894 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
162815 AATTTTCAAG
* * *
162825 ATGCCCTTTGCGGGTTTTCATCTTGACTTTTTTTA
1 ATGCCCTTTGCGGATTTTCACCTAGACTTTTTTTA
* *
162860 ATGCCCTTTGCGGATTTTGACCTAGCTCTTTTTTT
1 ATGCCCTTTGCGGATTTTCACCTAG-ACTTTTTTT
162895 TTTGCTAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 21 0.72
36 8 0.28
ACGTcount: A:0.11, C:0.21, G:0.17, T:0.50
Consensus pattern (35 bp):
ATGCCCTTTGCGGATTTTCACCTAGACTTTTTTTA
Done.