Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009108.1 Hibiscus syriacus cultivar Beakdansim tig00112578_pilon, 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: 85035
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:4232 original size:17 final size:17
Alignment explanation
Indices: 4206--4264 Score: 95
Period size: 17 Copynumber: 3.5 Consensus size: 17
4196 AACGGTCAAC
4206 GGTC-GGTCAACGGTCG
1 GGTCGGGTCAACGGTCG
4222 GGTCGGGTCAACGGTC-
1 GGTCGGGTCAACGGTCG
4238 GGTCGGGTCGAACGGTCG
1 GGTCGGGTC-AACGGTCG
4256 GGTCGGGTC
1 GGTCGGGTC
4265 GGTCGGTCGG
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.32
17 18 0.45
18 9 0.22
ACGTcount: A:0.10, C:0.24, G:0.47, T:0.19
Consensus pattern (17 bp):
GGTCGGGTCAACGGTCG
Found at i:4241 original size:11 final size:11
Alignment explanation
Indices: 4198--4222 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4188 AGAAAGTCAA
4198 CGGTCAACGGT
1 CGGTCAACGGT
4209 CGGTCAACGGT
1 CGGTCAACGGT
4220 CGG
1 CGG
4223 GTCGGGTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (11 bp):
CGGTCAACGGT
Found at i:4277 original size:13 final size:13
Alignment explanation
Indices: 4233--4274 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
4223 GTCGGGTCAA
4233 CGGTCGGTCGGGT
1 CGGTCGGTCGGGT
**
4246 CGAACGGTCGGGT
1 CGGTCGGTCGGGT
4259 CGGGTCGGTC-GGT
1 C-GGTCGGTCGGGT
4272 CGG
1 CGG
4275 GTCAGACCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 2 0.08
13 16 0.67
14 6 0.25
ACGTcount: A:0.05, C:0.24, G:0.52, T:0.19
Consensus pattern (13 bp):
CGGTCGGTCGGGT
Found at i:4295 original size:18 final size:18
Alignment explanation
Indices: 4274--4312 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4264 CGGTCGGTCG
*
4274 GGTCAGACCGATCGAACC
1 GGTCAGAACGATCGAACC
* *
4292 GGTCAGAACGGTTGAACC
1 GGTCAGAACGATCGAACC
4310 GGT
1 GGT
4313 TTCCAGCAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15
Consensus pattern (18 bp):
GGTCAGAACGATCGAACC
Found at i:6741 original size:59 final size:59
Alignment explanation
Indices: 6646--6810 Score: 149
Period size: 59 Copynumber: 2.8 Consensus size: 59
6636 GGAATGTTCA
** * * * * *
6646 AAAAGTTTGGGGACTAATTTAGAATGAATGTTATAGTTT-AGGAATGAAACT-AATATGTT
1 AAAAGTTTAAGGACTAATTTAAAATGAATATCATAGTTTAAGG-ATAAAACTGAA-ATATT
6705 CAAAAG-TTAAGGACTAATTTAAAATG-ATAATCATAGTTTAAGGATAAAACTGAAATATT
1 -AAAAGTTTAAGGACTAATTTAAAATGAAT-ATCATAGTTTAAGGATAAAACTGAAATATT
* * * * *
6764 AAAAGTTTAAAGATTAATTTAAAATGAAGATTATAGCTTTAGGGATA
1 AAAAGTTTAAGGACTAATTTAAAATGAATATCATAG-TTTAAGGATA
6811 TATGATGCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
58 7 0.08
59 60 0.69
60 20 0.23
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (59 bp):
AAAAGTTTAAGGACTAATTTAAAATGAATATCATAGTTTAAGGATAAAACTGAAATATT
Found at i:7367 original size:22 final size:22
Alignment explanation
Indices: 7337--7384 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
7327 TAATCACTGT
* *
7337 ATAACTTTTTACTAACATTA-TA
1 ATAAATTTTAACTAA-ATTATTA
*
7359 ATAAATTTTAACTTAATTATTA
1 ATAAATTTTAACTAAATTATTA
7381 ATAA
1 ATAA
7385 TAATTCGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAATTTTAACTAAATTATTA
Found at i:13032 original size:24 final size:24
Alignment explanation
Indices: 13009--13111 Score: 122
Period size: 24 Copynumber: 4.3 Consensus size: 24
12999 TTTATCTGAT
* *
13009 TTTC-GATTTGAAATCTGTTATGA
1 TTTCTGATCTGAATTCTGTTATGA
13032 TTTCTGATCTGAATTCTGTTATGA
1 TTTCTGATCTGAATTCTGTTATGA
*
13056 TTTCTGATCTGGATTCTGTTATGA
1 TTTCTGATCTGAATTCTGTTATGA
* *
13080 TATCTGTGAT-T-AATTCTGTTTTGA
1 T-T-TCTGATCTGAATTCTGTTATGA
13104 TTTCTGAT
1 TTTCTGAT
13112 ATCTCTGTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.07
23 5 0.07
24 53 0.76
25 2 0.03
26 5 0.07
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.51
Consensus pattern (24 bp):
TTTCTGATCTGAATTCTGTTATGA
Found at i:13108 original size:12 final size:12
Alignment explanation
Indices: 13022--13109 Score: 70
Period size: 12 Copynumber: 7.3 Consensus size: 12
13012 CGATTTGAAA
13022 TCTGTTATGATT
1 TCTGTTATGATT
* * *
13034 TCTGATCTGAAT
1 TCTGTTATGATT
13046 TCTGTTATGATT
1 TCTGTTATGATT
* *
13058 TCTGATCTGGA-T
1 TCTGTTAT-GATT
*
13070 TCTGTTATGATA
1 TCTGTTATGATT
* * *
13082 TCTGTGATTAAT
1 TCTGTTATGATT
*
13094 TCTGTTTTGATT
1 TCTGTTATGATT
13106 TCTG
1 TCTG
13110 ATATCTCTGT
Statistics
Matches: 55, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
11 2 0.04
12 51 0.93
13 2 0.04
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (12 bp):
TCTGTTATGATT
Found at i:13961 original size:24 final size:24
Alignment explanation
Indices: 13933--13984 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
13923 ATGTTTTATT
*
13933 TGATTTCCGATTTGAATTATGTTC
1 TGATTTCCGATCTGAATTATGTTC
* * *
13957 TGATTTCTGATCTGGATTCTGTTC
1 TGATTTCCGATCTGAATTATGTTC
13981 TGAT
1 TGAT
13985 ATATGTGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.50
Consensus pattern (24 bp):
TGATTTCCGATCTGAATTATGTTC
Found at i:13999 original size:24 final size:24
Alignment explanation
Indices: 13945--14015 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
13935 ATTTCCGATT
* *
13945 TGAATTATGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATTTATGATC
* *
13969 TGGATTCTGTTCTGATATATG-TGC
1 TGAATTCTGTTCTGATTTATGAT-C
*
13993 TGAATTCTGTTTTGATTTATGAT
1 TGAATTCTGTTCTGATTTATGAT
14016 ATATATGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.03
24 36 0.95
25 1 0.03
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTATGATC
Found at i:18585 original size:24 final size:25
Alignment explanation
Indices: 18558--18616 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
18548 AATTATGTTC
*
18558 TGATTTCTGAT-CTGGATTCTATTA
1 TGATTTCTGATGCTGAATTCTATTA
* * * *
18582 TGATGTCTG-TGTTGAATTCTGTTT
1 TGATTTCTGATGCTGAATTCTATTA
18606 TGATTTCTGAT
1 TGATTTCTGAT
18617 ATCTCCGTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
23 1 0.04
24 25 0.93
25 1 0.04
ACGTcount: A:0.17, C:0.10, G:0.20, T:0.53
Consensus pattern (25 bp):
TGATTTCTGATGCTGAATTCTATTA
Found at i:20381 original size:27 final size:27
Alignment explanation
Indices: 20346--20400 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
20336 ATTTCAAAAT
20346 TATAATTATGAAA-AAAATATTAATTTA
1 TATAATTAT-AAATAAAATATTAATTTA
* *
20373 TATATTTATAAATAAAATATTTATTTA
1 TATAATTATAAATAAAATATTAATTTA
20400 T
1 T
20401 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TATAATTATAAATAAAATATTAATTTA
Found at i:20709 original size:16 final size:15
Alignment explanation
Indices: 20681--20718 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
20671 TATATATATA
*
20681 AATAATAAGAATAAT
1 AATAAAAAGAATAAT
20696 AATAAAAAGTAATAAT
1 AATAAAAAG-AATAAT
20712 AATAAAA
1 AATAAAA
20719 TAATATTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (15 bp):
AATAAAAAGAATAAT
Found at i:20737 original size:3 final size:3
Alignment explanation
Indices: 20681--20723 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
20671 TATATATATA
* *
20681 AAT AAT AAG AAT AAT AAT AAA AAGT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A
20724 TTGCAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:21969 original size:3 final size:3
Alignment explanation
Indices: 21961--22028 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
21951 GGCTTGTAAT
* * *
21961 TAA TAA TAAA TAA TAA TAT TAT TAA TAA TAA TAA AAA TAAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* *
22008 AAA TAA TAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
22029 ATATAAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:22003 original size:28 final size:28
Alignment explanation
Indices: 21961--22037 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
21951 GGCTTGTAAT
** *
21961 TAATAATAAAT-AATAATATTATTAATAA
1 TAATAA-AAATAAATAATAAAAATAATAA
21989 TAATAAAAATAAATAATAAAAATAATAA
1 TAATAAAAATAAATAATAAAAATAATAA
* *
22017 AAATAATAATAAAT-ATAAAAA
1 TAATAAAAATAAATAATAAAAA
22038 ATCAAATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 11 0.26
28 32 0.74
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (28 bp):
TAATAAAAATAAATAATAAAAATAATAA
Found at i:22481 original size:113 final size:112
Alignment explanation
Indices: 22298--23048 Score: 1238
Period size: 113 Copynumber: 6.7 Consensus size: 112
22288 AGAATCATGC
*
22298 AAAAGATTGAACAAGTTTTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
22363 TATGAACTCTCTCTGGAAAAT-TTGATCCATCGAGTGATGAATTCGAGCA
65 TATGAACTCAC-CTGG-TAATGCTGATCCATCGAATGATGAATTCAAGCG
*
22412 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
22477 ATGAACTTGC-CCTGGCAATGCT-ATCCATCGAATGATAAATTCAAGCG
66 ATGAAC-T-CACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
22524 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
22589 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTC-ACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
*
22637 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
22702 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTC-ACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
22750 AAAAGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGACTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
22815 ATGAACTCGATCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTC-ACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
22863 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
22928 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTC-ACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
22976 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
23041 ATGAACTC
66 ATGAACTC
23049 TTCCAGAAAT
Statistics
Matches: 604, Mismatches: 27, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
110 1 0.00
111 1 0.00
112 104 0.17
113 490 0.81
114 7 0.01
115 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (112 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
Found at i:23505 original size:22 final size:22
Alignment explanation
Indices: 23480--23534 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
23470 GATAAAGTTT
*
23480 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
23502 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
23524 TCATCTTTGAA
1 TCATCTTTGAA
23535 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:25106 original size:77 final size:76
Alignment explanation
Indices: 24998--25259 Score: 204
Period size: 77 Copynumber: 3.4 Consensus size: 76
24988 TGATTATGAT
*
24998 TGAAATGGGTTTTCAGCATA-CCCCAACATTTGCTTCTTATTGATATGAGCGTTCAAAATGCCCC
1 TGAAATGGGCTTTC-G-ATATCCCCAACATTTGCTTCTTATTGATATGAGCGTTCAAAATGCCCC
25062 ACATGGATCTGTC
64 ACATGGATCTGTC
* ** * *** *
25075 TGAAATGGGCTTTCGATATGCCCCATCATTTG---C-TA---ATACAAACGTTCAAAATATATCA
1 TGAAATGGGCTTTCGATAT-CCCCAACATTTGCTTCTTATTGATATGAGCGTTCAAAAT-GCCCC
* *
25133 ATATTCCTGATTCTGAT-
64 ACA-T--GGA-TCTG-TC
* * *
25150 TGAAA-GGGTTTTCAGCATA-CCCCAACATTTGCTTCTTGTTGATATGAGCCTTCAAAATGCCCC
1 TGAAATGGGCTTTC-G-ATATCCCCAACATTTGCTTCTTATTGATATGAGCGTTCAAAATGCCCC
25213 ACATGGATCTGTC
64 ACATGGATCTGTC
*
25226 TGAAATGGGCTTTCGATATACCCCATCATTTGCT
1 TGAAATGGGCTTTCGATAT-CCCCAACATTTGCT
25260 AATACAAACG
Statistics
Matches: 138, Mismatches: 26, Indels: 42
0.67 0.13 0.20
Matches are distributed among these distances:
70 14 0.10
71 3 0.02
72 1 0.01
73 2 0.01
74 21 0.15
75 17 0.12
76 15 0.11
77 47 0.34
78 1 0.01
79 1 0.01
80 3 0.02
81 13 0.09
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (76 bp):
TGAAATGGGCTTTCGATATCCCCAACATTTGCTTCTTATTGATATGAGCGTTCAAAATGCCCCAC
ATGGATCTGTC
Found at i:25212 original size:151 final size:152
Alignment explanation
Indices: 24978--25325 Score: 626
Period size: 151 Copynumber: 2.3 Consensus size: 152
24968 TCAAAACGCG
* *
24978 TCAATATTCCTGATTATGATTGAAATGGGTTTTCAGCATACCCCAACATTTGCTTCTTATTGATA
1 TCAATATTCCTGATTCTGATTGAAAGGGGTTTTCAGCATACCCCAACATTTGCTTCTTATTGATA
* *
25043 TGAGCGTTCAAAATGCCCCACATGGATCTGTCTGAAATGGGCTTTCGATATGCCCCATCATTTGC
66 TGAGCCTTCAAAATGCCCCACATGGATCTGTCTGAAATGGGCTTTCGATATACCCCATCATTTGC
25108 TAATACAAACGTTCAAAATATA
131 TAATACAAACGTTCAAAATATA
*
25130 TCAATATTCCTGATTCTGATTGAAA-GGGTTTTCAGCATACCCCAACATTTGCTTCTTGTTGATA
1 TCAATATTCCTGATTCTGATTGAAAGGGGTTTTCAGCATACCCCAACATTTGCTTCTTATTGATA
25194 TGAGCCTTCAAAATGCCCCACATGGATCTGTCTGAAATGGGCTTTCGATATACCCCATCATTTGC
66 TGAGCCTTCAAAATGCCCCACATGGATCTGTCTGAAATGGGCTTTCGATATACCCCATCATTTGC
25259 TAATACAAACGTTCAAAATATA
131 TAATACAAACGTTCAAAATATA
* *
25281 TCAATATTCCTGATTCTGATTGAAAGGGGCTTTCAGCATGCCCCA
1 TCAATATTCCTGATTCTGATTGAAAGGGGTTTTCAGCATACCCCA
25326 TATGGATCTT
Statistics
Matches: 189, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
151 148 0.78
152 41 0.22
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (152 bp):
TCAATATTCCTGATTCTGATTGAAAGGGGTTTTCAGCATACCCCAACATTTGCTTCTTATTGATA
TGAGCCTTCAAAATGCCCCACATGGATCTGTCTGAAATGGGCTTTCGATATACCCCATCATTTGC
TAATACAAACGTTCAAAATATA
Found at i:25326 original size:75 final size:75
Alignment explanation
Indices: 25075--25314 Score: 190
Period size: 77 Copynumber: 3.2 Consensus size: 75
25065 TGGATCTGTC
* *
25075 TGAAATGGGCTTTCGATATGCCCCATCATTTGCTAATACAAACGTTCAAAATATATCAATATTCC
1 TGAAATGGGCTTTCGACATACCCCATCATTTGCTAATACAAACGTTCAAAATATATCAATATTCC
25140 TGATTCTGAT
66 TGATTCTGAT
* * * ** * * ***
25150 TGAAA-GGGTTTTC-AGCATACCCCAACATTTGCTTCTTGTTGATATGAGCCTTCAAAAT-GCCC
1 TGAAATGGGCTTTCGA-CATACCCCATCATTTG---C----TAATACAAACGTTCAAAATATATC
* * *
25212 CACA-T--GGA-TCTG-T
58 AATATTCCTGATTCTGAT
*
25225 CTGAAATGGGCTTTCGATATACCCCATCATTTGCTAATACAAACGTTCAAAATATATCAATATTC
1 -TGAAATGGGCTTTCGACATACCCCATCATTTGCTAATACAAACGTTCAAAATATATCAATATTC
25290 CTGATTCTGAT
65 CTGATTCTGAT
*
25301 TGAAAGGGGCTTTC
1 TGAAATGGGCTTTC
25315 AGCATGCCCC
Statistics
Matches: 118, Mismatches: 30, Indels: 34
0.65 0.16 0.19
Matches are distributed among these distances:
70 14 0.12
71 3 0.03
72 1 0.01
73 1 0.01
74 23 0.19
75 23 0.19
76 10 0.08
77 24 0.20
78 1 0.01
79 1 0.01
80 3 0.03
81 14 0.12
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (75 bp):
TGAAATGGGCTTTCGACATACCCCATCATTTGCTAATACAAACGTTCAAAATATATCAATATTCC
TGATTCTGAT
Found at i:26449 original size:114 final size:114
Alignment explanation
Indices: 26249--26588 Score: 572
Period size: 114 Copynumber: 3.0 Consensus size: 114
26239 GATCATGCAG
* * *
26249 TTCATCTTTCAATTCCAATGATTGGTTTTGGGGTTCTTACCAAACCAGATCAGATAACTTAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
26314 ACACTTCCAGAAGATGTTATTGGGTCTTCTTATTTCTACTATGAGAAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGAAAA
* *
26363 TTCATCTTTTAAATCCAATGATTAGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
26428 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGAAAA
* *
26477 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCATATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * *
26542 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTACGAGAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGAA
26589 CATGGCACTT
Statistics
Matches: 211, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 211 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGAAAA
Found at i:28867 original size:12 final size:11
Alignment explanation
Indices: 28850--28899 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
28840 TGATTCAATT
28850 TTTTTTCTTTTC
1 TTTTTT-TTTTC
28862 TTTTTTTTTTCC
1 TTTTTTTTTT-C
* *
28874 TTTTTGTTTTG
1 TTTTTTTTTTC
28885 TTTTTTTTCTTC
1 TTTTTTTT-TTC
28897 TTT
1 TTT
28900 CTTTGCTGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 11 0.34
12 21 0.66
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:29244 original size:90 final size:90
Alignment explanation
Indices: 29099--29283 Score: 361
Period size: 90 Copynumber: 2.1 Consensus size: 90
29089 TTCTTGTGAG
29099 CCAATATCCTTTACCTTGTCCCCCAATGTAGAGGGTGATCCTTAGTTAAGGTTGAATTAGAAGAA
1 CCAATATCCTTTACCTTGTCCCCCAATGTAGAGGGTGATCCTTAGTTAAGGTTGAATTAGAAGAA
29164 AAATTATTCTTGATTACCTTGTCCC
66 AAATTATTCTTGATTACCTTGTCCC
*
29189 CCAATATCCTTTACCTTGTCCCCCAATGTAGAGGGTGATCCTTGGTTAAGGTTGAATTAGAAGAA
1 CCAATATCCTTTACCTTGTCCCCCAATGTAGAGGGTGATCCTTAGTTAAGGTTGAATTAGAAGAA
29254 AAATTATTCTTGATTACCTTGTCCC
66 AAATTATTCTTGATTACCTTGTCCC
29279 CCAAT
1 CCAAT
29284 GTAGAGGGTG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 94 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (90 bp):
CCAATATCCTTTACCTTGTCCCCCAATGTAGAGGGTGATCCTTAGTTAAGGTTGAATTAGAAGAA
AAATTATTCTTGATTACCTTGTCCC
Found at i:29308 original size:68 final size:68
Alignment explanation
Indices: 29199--29351 Score: 297
Period size: 68 Copynumber: 2.2 Consensus size: 68
29189 CCAATATCCT
29199 TTACCTTGTCCCCCAATGTAGAGGGTGATCCTTGGTTAAGGTTGAATTAGAAGAAAAATTATTCT
1 TTACCTTGTCCCCCAATGTAGAGGGTGATCCTTGGTTAAGGTTGAATTAGAAGAAAAATTATTCT
29264 TGA
66 TGA
29267 TTACCTTGTCCCCCAATGTAGAGGGTGATCCTTGGTTAAGGTTGAATTAGAAGAAAAATTATTCT
1 TTACCTTGTCCCCCAATGTAGAGGGTGATCCTTGGTTAAGGTTGAATTAGAAGAAAAATTATTCT
29332 TGA
66 TGA
*
29335 TTACCTTATCCCCCAAT
1 TTACCTTGTCCCCCAAT
29352 ATCCTTTACC
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 84 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (68 bp):
TTACCTTGTCCCCCAATGTAGAGGGTGATCCTTGGTTAAGGTTGAATTAGAAGAAAAATTATTCT
TGA
Found at i:31566 original size:12 final size:12
Alignment explanation
Indices: 31551--31602 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 12
31541 GTAAAAATGA
31551 AAATGTAAATAC
1 AAATGTAAATAC
31563 AAATGTAAAAAATATGC
1 AAATGT---AAATA--C
*
31580 AAATGTAAATGC
1 AAATGTAAATAC
31592 AAATGTAAATA
1 AAATGTAAATA
31603 TGTGAATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
12 17 0.52
14 4 0.12
15 5 0.15
17 7 0.21
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.25
Consensus pattern (12 bp):
AAATGTAAATAC
Found at i:31588 original size:29 final size:28
Alignment explanation
Indices: 31543--31600 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
31533 GTAATTATGT
31543 AAAAATGAAAATGTAAATACAAATGTAA
1 AAAAATGAAAATGTAAATACAAATGTAA
* *
31571 AAAATATGCAAATGTAAATGCAAATGTAA
1 AAAA-ATGAAAATGTAAATACAAATGTAA
31600 A
1 A
31601 TATGTGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.22
Consensus pattern (28 bp):
AAAAATGAAAATGTAAATACAAATGTAA
Found at i:31675 original size:20 final size:20
Alignment explanation
Indices: 31620--31707 Score: 52
Period size: 20 Copynumber: 4.2 Consensus size: 20
31610 GTAACAATAA
* * *
31620 AAATGCAAATTGTATAGTAC
1 AAATGCAAAATGAAAAGTAC
* *
31640 AAAAGCAAATAT-AAAAGTAT
1 AAATGCAAA-ATGAAAAGTAC
* *
31660 AAATGCAAAATGAAAAATGC
1 AAATGCAAAATGAAAAGTAC
* *
31680 AAGGATGCAAAATGCAAATGTAA
1 AA--ATGCAAAATG-AAAAGTAC
31703 AAATG
1 AAATG
31708 TAAATGTAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 9
0.69 0.18 0.12
Matches are distributed among these distances:
19 2 0.04
20 28 0.56
21 4 0.08
22 10 0.20
23 6 0.12
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (20 bp):
AAATGCAAAATGAAAAGTAC
Found at i:31712 original size:14 final size:14
Alignment explanation
Indices: 31660--31717 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
31650 ATAAAAGTAT
31660 AAATGCAAAATG-AA
1 AAATGC-AAATGTAA
*
31674 AAATGCAAGGATG-CA
1 AAATGCAA--ATGTAA
31689 AAATGCAAATGTAA
1 AAATGCAAATGTAA
*
31703 AAATGTAAATGTAA
1 AAATGCAAATGTAA
31717 A
1 A
31718 TTATTTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
13 5 0.13
14 21 0.55
15 12 0.32
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.19
Consensus pattern (14 bp):
AAATGCAAATGTAA
Found at i:33322 original size:28 final size:27
Alignment explanation
Indices: 33271--33324 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
33261 AATAAAATGA
* *
33271 AATAATATATATAAATACTATGAAAAT
1 AATAATATATATAAAAAATATGAAAAT
*
33298 AATAAGTATATATAAAAAATTTGAAAA
1 AATAA-TATATATAAAAAATATGAAAA
33325 GAAAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (27 bp):
AATAATATATATAAAAAATATGAAAAT
Found at i:34154 original size:15 final size:15
Alignment explanation
Indices: 34147--34179 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
34137 TAATAATTAG
34147 AATAATAATAAAAGT
1 AATAATAATAAAAGT
34162 AATAATAATAAAA-T
1 AATAATAATAAAAGT
34176 AATA
1 AATA
34180 TTGCAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATAATAATAAAAGT
Found at i:35446 original size:3 final size:3
Alignment explanation
Indices: 35421--35488 Score: 91
Period size: 3 Copynumber: 22.0 Consensus size: 3
35411 GGCTTGTAAT
* *
35421 TAA TAA TAGA TAA GAA TAT TAA TAA TAA TAA TAA TAA TAAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
*
35468 TAA TAA TAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
35489 ATATAAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 51 0.89
4 6 0.11
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:35476 original size:25 final size:25
Alignment explanation
Indices: 35421--35485 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
35411 GGCTTGTAAT
* *
35421 TAATAATAGATAA-GAATATTAATAA
1 TAATAATA-ATAATAAATAATAATAA
35446 TAATAATAATAATAAATAATAATAA
1 TAATAATAATAATAAATAATAATAA
*
35471 TAATAAAAATAATAA
1 TAATAATAATAATAA
35486 TAAATATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 4 0.11
25 32 0.89
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (25 bp):
TAATAATAATAATAAATAATAATAA
Found at i:35489 original size:28 final size:28
Alignment explanation
Indices: 35422--35491 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
35412 GCTTGTAATT
* * *
35422 AATAATAGAT-AAGAATATTAATAATAAT
1 AATAATA-ATAAATAATAATAATAATAAA
35450 AATAATAATAAATAATAATAATAATAAA
1 AATAATAATAAATAATAATAATAATAAA
35478 AATAATAATAAATA
1 AATAATAATAAATA
35492 TAAAAAATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (28 bp):
AATAATAATAAATAATAATAATAATAAA
Found at i:35499 original size:9 final size:10
Alignment explanation
Indices: 35441--35499 Score: 54
Period size: 9 Copynumber: 6.3 Consensus size: 10
35431 TAAGAATATT
*
35441 AATAAT-AAT
1 AATAATAAAA
*
35450 AATAATAATA
1 AATAATAAAA
*
35460 AATAAT-AAT
1 AATAATAAAA
35469 AATAAT-AAA
1 AATAATAAAA
*
35478 AATAATAATA
1 AATAATAAAA
35488 AAT-ATAAAA
1 AATAATAAAA
35497 AAT
1 AAT
35500 CAAATGTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 29 0.71
10 12 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAATAAAA
Found at i:35555 original size:23 final size:23
Alignment explanation
Indices: 35525--35568 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
35515 AGTGTCTTCA
35525 ATCAGTACGCCTTTCCGGTTTCT
1 ATCAGTACGCCTTTCCGGTTTCT
*
35548 ATCAGTACGCCTTTCCTGTTT
1 ATCAGTACGCCTTTCCGGTTT
35569 TTGTGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.30, G:0.16, T:0.41
Consensus pattern (23 bp):
ATCAGTACGCCTTTCCGGTTTCT
Found at i:40399 original size:10 final size:10
Alignment explanation
Indices: 40379--40439 Score: 52
Period size: 11 Copynumber: 5.9 Consensus size: 10
40369 TATTTCCCTT
*
40379 TTTTATCTTA
1 TTTTATTTTA
*
40389 TTTTGTTTTA
1 TTTTATTTTA
*
40399 TCTTTATTTTC
1 T-TTTATTTTA
*
40410 TCATT-TTTTA
1 T-TTTATTTTA
40420 TTTTATTTTA
1 TTTTATTTTA
40430 TTTTTATTTT
1 -TTTTATTTT
40440 CTCTTTTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
9 2 0.05
10 19 0.46
11 20 0.49
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:40422 original size:31 final size:29
Alignment explanation
Indices: 40386--40467 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 29
40376 CTTTTTTATC
40386 TTATTTTGTTTTATCTTTATTTTCTCATTTT-
1 TTATTTT-TTTTAT-TTTATTTTCTC-TTTTA
40417 TTATTTTATTTTATTTTTATTTTCTCTTTTA
1 TTATTTT-TTTTA-TTTTATTTTCTCTTTTA
*
40448 ATATTTTTTTATATTTTATT
1 TTATTTTTTT-TATTTTATT
40468 ATCTTTATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
30 14 0.30
31 31 0.67
32 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (29 bp):
TTATTTTTTTTATTTTATTTTCTCTTTTA
Found at i:40425 original size:5 final size:5
Alignment explanation
Indices: 40379--40439 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
40369 TATTTCCCTT
* * * *
40379 TTTTA TCTTA TTTTG TTTTA TCTTTA TTTTC TCATT- TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA T-TTTA TTTTA TTTTA TTTTA
40430 TTTTTA TTTT
1 -TTTTA TTTT
40440 CTCTTTTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
4 2 0.04
5 31 0.69
6 12 0.27
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:43513 original size:21 final size:21
Alignment explanation
Indices: 43487--43537 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
43477 CCTAGGATAA
*
43487 ACCCATTTTTCCCAAAAGCCT
1 ACCCATTTATCCCAAAAGCCT
43508 ACCCATTTATCCCAAAAGCCT
1 ACCCATTTATCCCAAAAGCCT
43529 ACCCATTTA
1 ACCCATTTA
43538 CATATCCACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.37, G:0.04, T:0.27
Consensus pattern (21 bp):
ACCCATTTATCCCAAAAGCCT
Found at i:44752 original size:85 final size:86
Alignment explanation
Indices: 44653--44859 Score: 299
Period size: 86 Copynumber: 2.4 Consensus size: 86
44643 AAGAACATCT
* *
44653 CACATGACTTTCCCGTGAAAGGGAGTCATCCAAAGATAATCTCACCT-GTTTAGACCCACGAAGG
1 CACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATAATCTCACCTGGTTCAGACCCACGAAGG
*
44717 GGAACCACCTGAAGAATATAC
66 GGAACCACCTAAAGAATATAC
* * * **
44738 CACATGACTTTCCCGTGAAGGGGTGTCATCCAAAGATCATCTCACCTGGTTCATACCTGCGAAGG
1 CACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATAATCTCACCTGGTTCAGACCCACGAAGG
44803 GGAACCACCTAAAGAATATAC
66 GGAACCACCTAAAGAATATAC
* * * *
44824 CACTTGGCTTTCCTGTGAAGGGGAGTCATCTAAAGA
1 CACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGA
44860 ATTATGACCG
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
85 44 0.41
86 64 0.59
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (86 bp):
CACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATAATCTCACCTGGTTCAGACCCACGAAGG
GGAACCACCTAAAGAATATAC
Found at i:44857 original size:42 final size:42
Alignment explanation
Indices: 44728--44861 Score: 112
Period size: 42 Copynumber: 3.1 Consensus size: 42
44718 GAACCACCTG
* * * *
44728 AAGAATATACCACATGACTTTCCCGTGAAGGGGTGTCATCCA
1 AAGAATATACCACATGGCTTTCCTGTGAAGGGGAGTCATCTA
* * ** *
44770 AAG-ATCAT-CTCACCTGG-TTCATACCTGCGAAGGGGAACCACCTA
1 AAGAAT-ATAC-CACATGGCTT--T-CCTGTGAAGGGGAGTCATCTA
*
44814 AAGAATATACCACTTGGCTTTCCTGTGAAGGGGAGTCATCTA
1 AAGAATATACCACATGGCTTTCCTGTGAAGGGGAGTCATCTA
44856 AAGAAT
1 AAGAAT
44862 TATGACCGGC
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
41 5 0.07
42 33 0.47
43 2 0.03
44 25 0.36
45 5 0.07
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (42 bp):
AAGAATATACCACATGGCTTTCCTGTGAAGGGGAGTCATCTA
Found at i:45298 original size:200 final size:199
Alignment explanation
Indices: 44917--45497 Score: 736
Period size: 200 Copynumber: 2.9 Consensus size: 199
44907 GGAACCGTTC
* * *
44917 ACAACATAGCTCAAGGTGAGAATGGTTATATGTCAAAAAAAACTTTCAAGTTCGATTCCATTCAG
1 ACAACATAGCTCAAGGCGAGAAGGGTTATCTGTC-AAAAAAACTTTCAAGTTCGATTCCATTCAG
* * *
44982 CTCGAAGGCATATCAACCGCATGGTAGCAACGAGGAACTATTTTTCGGTTAAAGTTTAAA-TCGA
65 CTCG-AGACATATCAACCGCATGGTAGCAACGAGGAACTACTTTTCGGTTGAAGTTTAAACT-GA
45046 GGTCTTTAAGTCAAGAAGAATG-CCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCAG
128 GGTCTTTAAGTCAAGAAGAA-GACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCAG
*
45110 CCGAATTT
192 CCAAATTT
* * *
45118 ACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAACTTTCGAGTTCGATTCCATTCAGC
1 ACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAAAAAAACTTTCAAGTTCGATTCCATTCAGC
*
45183 TCGATGACATATCAACCGCATGGTAGCAACGATGAACTACTTTTCGGTTGAAGTTTAAACTGAGG
66 TCGA-GACATATCAACCGCATGGTAGCAACGAGGAACTACTTTTCGGTTGAAGTTTAAACTGAGG
*
45248 TCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGTGATTTAGCAACAAGGAACTATCTCCCAGCCA
130 TCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCAGCCA
45313 AATTT
195 AATTT
* * *** * *
45318 ACAATATAGCTCAAGGCGAGATGACCTATCTGTCAATAAAAACCTTCAAGTTCGATTTCATTCAG
1 ACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAA-AAAAACTTTCAAGTTCGATTCCATTCAG
* * ** * * * * * *
45383 ATCGAGAGCATGTCAACCATATGGTAGCATCAAGGAACTACTTTCCGGCTGAATTTTCAAACCGA
65 CTCGAGA-CATATCAACCGCATGGTAGCAACGAGGAACTACTTTTCGGTTGAAGTTT-AAACTGA
* * * * * * *
45448 GGTATTTAA-ACTAAGAAGAAGATCAAGGTTGACTACGATTTGGCAACAAG
128 GGTCTTTAAGTC-AAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAG
45498 AAGCCACCTT
Statistics
Matches: 332, Mismatches: 41, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
199 2 0.01
200 184 0.55
201 100 0.30
202 46 0.14
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (199 bp):
ACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAAAAAAACTTTCAAGTTCGATTCCATTCAGC
TCGAGACATATCAACCGCATGGTAGCAACGAGGAACTACTTTTCGGTTGAAGTTTAAACTGAGGT
CTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGATTTAGCAACAAGGAACTATCTCCCAGCCAA
ATTT
Found at i:46464 original size:13 final size:13
Alignment explanation
Indices: 46446--46502 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
46436 CTTTATCTCA
46446 ATTTCTTTATATT
1 ATTTCTTTATATT
46459 ATTTCTTTAATAATT
1 ATTTCTTT-AT-ATT
46474 ATTT-TTTAT-TT
1 ATTTCTTTATATT
* *
46485 AATTCTTATATTTT
1 ATTTCTT-TATATT
46499 ATTT
1 ATTT
46503 AAAAAATAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 5 0.14
12 2 0.05
13 13 0.35
14 10 0.27
15 7 0.19
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTCTTTATATT
Found at i:46485 original size:18 final size:18
Alignment explanation
Indices: 46464--46504 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
46454 ATATTATTTC
*
46464 TTTAATAATTATTTTTTA
1 TTTAATAATTATATTTTA
**
46482 TTTAATTCTTATATTTTA
1 TTTAATAATTATATTTTA
46500 TTTAA
1 TTTAA
46505 AAAATAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAATAATTATATTTTA
Found at i:46590 original size:16 final size:16
Alignment explanation
Indices: 46572--46601 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46562 TATTTCTCTT
46572 TTTTATC-TTATTTTG
1 TTTTATCTTTATTTTG
46587 TTTTATCTTTATTTT
1 TTTTATCTTTATTTT
46602 CTCACTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTATCTTTATTTTG
Found at i:46644 original size:29 final size:31
Alignment explanation
Indices: 46581--46642 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 31
46571 TTTTTATCTT
*
46581 ATTTTGTTTTATCTTTATTTTCTCACTTTTTTTA
1 ATTTTGTTTTATTTTTATTTTCT-AC--TTTTTA
46615 ATTTTGTTTTATTTTTATTTTCT-CTTTT
1 ATTTTGTTTTATTTTTATTTTCTACTTTT
46643 AACATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 4 0.15
32 1 0.04
34 22 0.81
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (31 bp):
ATTTTGTTTTATTTTTATTTTCTACTTTTTA
Found at i:48403 original size:16 final size:17
Alignment explanation
Indices: 48378--48411 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
48368 TCAGTATTTA
*
48378 TAAAATTAAATATTATT
1 TAAAATTAAATATGATT
48395 TAAAA-TAAATATGATT
1 TAAAATTAAATATGATT
48411 T
1 T
48412 TGATTATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TAAAATTAAATATGATT
Found at i:48586 original size:37 final size:37
Alignment explanation
Indices: 48545--48620 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
48535 GCAGCCATGT
48545 CTCTCCACCTTTCCTGCTGGCTGCAGCACTCAATCTG
1 CTCTCCACCTTTCCTGCTGGCTGCAGCACTCAATCTG
48582 CTCTCCACCTTTCCTGCTGGCTGCAGCACTCAATCTG
1 CTCTCCACCTTTCCTGCTGGCTGCAGCACTCAATCTG
48619 CT
1 CT
48621 GGCTACTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.13, C:0.41, G:0.16, T:0.30
Consensus pattern (37 bp):
CTCTCCACCTTTCCTGCTGGCTGCAGCACTCAATCTG
Found at i:48619 original size:21 final size:21
Alignment explanation
Indices: 48558--48624 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
48548 TCCACCTTTC
48558 CTGCTGGCTGCAGCACTCAAT
1 CTGCTGGCTGCAGCACTCAAT
**
48579 CTGCT--CT-C--CAC-CTTT
1 CTGCTGGCTGCAGCACTCAAT
48594 CCTGCTGGCTGCAGCACTCAAT
1 -CTGCTGGCTGCAGCACTCAAT
48616 CTGCTGGCT
1 CTGCTGGCT
48625 ACTATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
15 2 0.06
16 8 0.23
18 3 0.09
19 3 0.09
21 17 0.49
22 2 0.06
ACGTcount: A:0.13, C:0.37, G:0.21, T:0.28
Consensus pattern (21 bp):
CTGCTGGCTGCAGCACTCAAT
Found at i:49828 original size:20 final size:21
Alignment explanation
Indices: 49805--49850 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
49795 TTTTATTGAA
49805 TTTTATT-CACTTTTAATTT-T
1 TTTTATTACA-TTTTAATTTAT
*
49825 TTTTATTACATTTTTATTTAT
1 TTTTATTACATTTTAATTTAT
49846 TTTTA
1 TTTTA
49851 AAAAGAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTACATTTTAATTTAT
Found at i:49848 original size:21 final size:20
Alignment explanation
Indices: 49788--49850 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
49778 TTAGCTTTAC
* *
49788 ATTCTATTTTTATTGAATTTT
1 ATTC-ATTTTTATTTATTTTT
*
49809 ATTCACTTTTAATTT-TTTTT
1 ATTCA-TTTTTATTTATTTTT
49829 ATTACATTTTTATTTATTTTT
1 ATT-CATTTTTATTTATTTTT
49850 A
1 A
49851 AAAAGAGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTCATTTTTATTTATTTTT
Found at i:50977 original size:20 final size:20
Alignment explanation
Indices: 50952--51044 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
50942 TTTTCCCAAT
50952 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
50972 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
50992 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
51013 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
51034 TCGCAATGCGA
1 TCGCAATGCGA
51045 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:50994 original size:41 final size:41
Alignment explanation
Indices: 50949--51044 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
50939 CGATTTTCCC
50949 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
50990 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
51031 AAATCGCAATGCGA
1 AATTCGCAATGCGA
51045 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:50998 original size:21 final size:20
Alignment explanation
Indices: 50952--51044 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
50942 TTTTCCCAAT
*
50952 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
50972 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
50992 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
51013 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
51034 TCGCAATGCGA
1 TCGCAATGCGA
51045 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:51058 original size:20 final size:20
Alignment explanation
Indices: 51033--51127 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
51023 AATTGGGAAA
51033 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * **
51053 ATCGCAATGCGATAATAAAAA
1 ATCGCAATGCGATACT-GACT
* * *
51074 ATCGCAACGAGATACTTACT
1 ATCGCAATGCGATACTGACT
* **
51094 TTCGCAACACGATACTGACT
1 ATCGCAATGCGATACTGACT
*
51114 TTCGCAATGCGATA
1 ATCGCAATGCGATA
51128 ATACATAATC
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:51107 original size:41 final size:41
Alignment explanation
Indices: 51030--51107 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
51020 GCGAATTGGG
* * **
51030 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
51071 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
51108 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:52978 original size:18 final size:18
Alignment explanation
Indices: 52957--53001 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
52947 TCCACTTCGG
*
52957 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
52975 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
52993 GAGCCATCA
1 GAGCCATCA
53002 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:53528 original size:19 final size:20
Alignment explanation
Indices: 53474--53540 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
53464 TAGTTTACTT
* *
53474 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
53494 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
53514 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
53533 TCGCAACG
1 TCGCAACG
53541 ACAAAAGCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:53551 original size:14 final size:14
Alignment explanation
Indices: 53529--53618 Score: 81
Period size: 14 Copynumber: 5.9 Consensus size: 14
53519 ATGCGAAATG
53529 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
53543 AAAAGCGCAACGCGAA
1 AAAATCGCAA--CGAC
53559 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
53575 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
53591 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
53607 AAAATCGCAACG
1 AAAATCGCAACG
53619 CGAAACACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
14 29 0.47
16 16 0.26
18 17 0.27
ACGTcount: A:0.48, C:0.26, G:0.19, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:53571 original size:32 final size:32
Alignment explanation
Indices: 53513--53623 Score: 195
Period size: 32 Copynumber: 3.4 Consensus size: 32
53503 GGAAATGGCT
*
53513 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
*
53546 AGCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
53578 ATCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
53610 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
53624 CACAAATCGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 61 0.81
33 14 0.19
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:53652 original size:19 final size:19
Alignment explanation
Indices: 53630--53737 Score: 117
Period size: 19 Copynumber: 5.6 Consensus size: 19
53620 GAAACACAAA
*
53630 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
53649 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* ***
53668 TCGCATTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATT
**
53687 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
53707 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
53727 TCGTGTTGCGA
1 TCGCGTTGCGA
53738 AAGTAAACTA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
19 47 0.62
20 29 0.38
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:53735 original size:39 final size:38
Alignment explanation
Indices: 53630--53737 Score: 126
Period size: 39 Copynumber: 2.8 Consensus size: 38
53620 GAAACACAAA
**
53630 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCGTTGCGATAGTCATT
***
53668 TCGCATTGCGATAGCCATTTCCGCGTTGCGATAGTCATT
1 TCGCATTGCGATTTTCATTT-CGCGTTGCGATAGTCATT
* * *
53707 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCATTGCGATTTTCA-TTTCGCGTTGCGA
53738 AAGTAAACTA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
38 17 0.30
39 37 0.65
40 3 0.05
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (38 bp):
TCGCATTGCGATTTTCATTTCGCGTTGCGATAGTCATT
Found at i:55602 original size:14 final size:14
Alignment explanation
Indices: 55583--55618 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
55573 ATTGTTTAAT
55583 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
55597 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
55611 TGATTTGT
1 TGATTTGT
55619 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:55744 original size:14 final size:14
Alignment explanation
Indices: 55725--55810 Score: 82
Period size: 14 Copynumber: 5.5 Consensus size: 14
55715 CGAAATGGCT
55725 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
*
55739 ATCGCAATGCGAAATGAA
1 ATCGCAA--CGAGA--AA
55757 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
55776 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
55790 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
55804 ATCGCAA
1 ATCGCAA
55811 TGCGATTTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 14
0.80 0.03 0.18
Matches are distributed among these distances:
14 32 0.51
15 1 0.02
16 4 0.06
17 2 0.03
18 13 0.21
19 9 0.14
20 1 0.02
21 1 0.02
ACGTcount: A:0.48, C:0.20, G:0.21, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:55782 original size:51 final size:47
Alignment explanation
Indices: 55706--55815 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 47
55696 AAAACTGACT
* ***
55706 ATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAA--CGAAA--AA
*
55757 ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAACGAAAAA
55804 ATCGCAATGCGA
1 ATCGCAATGCGA
55816 TTTTCATTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 14 0.26
49 4 0.07
51 36 0.67
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.13
Consensus pattern (47 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAACGAAAAA
Found at i:55789 original size:19 final size:19
Alignment explanation
Indices: 55735--55782 Score: 89
Period size: 18 Copynumber: 2.6 Consensus size: 19
55725 ATCGCAACGA
55735 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
55754 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
55772 GAAAATCGCAA
1 GAAAATCGCAA
55783 CGAGAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:56408 original size:18 final size:18
Alignment explanation
Indices: 56385--56434 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
56375 CGCAACGAGA
56385 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
56403 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
56421 AAATCGCAATGCGA
1 AAATCGCAATGCGA
56435 TAACCATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (18 bp):
AAATCGCAATGCGAAATG
Found at i:56701 original size:14 final size:14
Alignment explanation
Indices: 56682--56718 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
56672 CATCAATTAA
56682 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
56696 ACAAATCACCTTTT
1 ACAAATCAACTTTT
56710 ACAAATCAA
1 ACAAATCAA
56719 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:58142 original size:21 final size:21
Alignment explanation
Indices: 58076--58142 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
58066 GTGAATCGGG
*
58076 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
58096 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
58118 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
58139 CTCT
1 CTCT
58143 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:58161 original size:42 final size:41
Alignment explanation
Indices: 58076--58198 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
58066 GTGAATCGGG
* * * * *
58076 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
58118 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
58160 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
58199 CGAGTCGAGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:60314 original size:19 final size:19
Alignment explanation
Indices: 60197--60381 Score: 174
Period size: 19 Copynumber: 10.1 Consensus size: 19
60187 TCTTTTGGTT
*
60197 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
60216 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
60236 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
60254 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
60270 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
60288 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
60303 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
60323 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
60342 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
60361 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
60380 GA
1 GA
60382 TTTTGGTTTC
Statistics
Matches: 138, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 62 0.45
20 45 0.33
21 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:60335 original size:39 final size:38
Alignment explanation
Indices: 60197--60381 Score: 174
Period size: 33 Copynumber: 5.1 Consensus size: 38
60187 TCTTTTGGTT
* *
60197 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** *
60236 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** * *
60270 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
60303 GAAATGAAAATCGCAACCGCGAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
*
60342 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
60380 GA
1 GA
60382 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
33 42 0.33
34 16 0.13
35 2 0.02
38 24 0.19
39 28 0.22
40 14 0.11
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:60410 original size:19 final size:19
Alignment explanation
Indices: 60377--60421 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
60367 AAAATCGCAA
*
60377 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
60396 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
60415 TGCGATT
1 TGCGATT
60422 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:61059 original size:20 final size:20
Alignment explanation
Indices: 60974--61067 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
60964 CGCTAAGTAA
*
60974 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
60994 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
61014 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
61035 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
61055 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
61068 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:61086 original size:41 final size:41
Alignment explanation
Indices: 61056--61151 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
61046 ATAGTCAGTA
* * *
61056 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
61097 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
61138 TCGCATTGCGAATT
1 TCGCATTGCGAATT
61152 GGTAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:61100 original size:20 final size:20
Alignment explanation
Indices: 61056--61148 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
61046 ATAGTCAGTA
* **
61056 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
61077 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
61097 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
61118 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
61138 TCGCATTGCGA
1 TCGCATTGCGA
61149 ATTGGTAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:63244 original size:15 final size:17
Alignment explanation
Indices: 63224--63257 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
63214 AAATAATAGG
63224 AAAAAAG-GTTAAA-AT
1 AAAAAAGAGTTAAATAT
63239 AAAAAAGAGTTAAATAT
1 AAAAAAGAGTTAAATAT
63256 AA
1 AA
63258 CAACATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 6 0.35
17 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAAAAGAGTTAAATAT
Found at i:64490 original size:14 final size:14
Alignment explanation
Indices: 64465--64516 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 14
64455 TCGAACCTGA
64465 AAATAGAATAAAAAT
1 AAATA-AATAAAAAT
64480 AAATAAATAAAAAT
1 AAATAAATAAAAAT
*
64494 AAACAAATAATAAAAT
1 AAATAAAT-A-AAAAT
64510 AAATAAA
1 AAATAAA
64517 GAAATAAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 16 0.48
15 6 0.18
16 11 0.33
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:64513 original size:20 final size:19
Alignment explanation
Indices: 64464--64528 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 19
64454 TTCGAACCTG
64464 AAAATAGAAT-AAAAATAAAT
1 AAAATA-AATAAAAAAT-AAT
*
64484 AAATAAAAATAAACAAATAAT
1 AAA-ATAAATAAA-AAATAAT
64505 AAAATAAATAAAGAAATAAGT
1 AAAATAAATAAA-AAATAA-T
64526 AAA
1 AAA
64529 CTGTAAATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 20 0.53
21 14 0.37
22 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAATAAATAAAAAATAAT
Found at i:64587 original size:35 final size:35
Alignment explanation
Indices: 64541--64636 Score: 156
Period size: 35 Copynumber: 2.7 Consensus size: 35
64531 GTAAATCATT
64541 TTTTAAAACTATATATTATATATATTTCAAAAACG
1 TTTTAAAACTATATATTATATATATTTCAAAAACG
*
64576 TTTTAAAACTATATATTATATATATTTCAAAAATG
1 TTTTAAAACTATATATTATATATATTTCAAAAACG
* *
64611 TTTCCAAAATTATATATTATATATAT
1 TTT-TAAAACTATATATTATATATAT
64637 ATATATTGAA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 37 0.65
36 20 0.35
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (35 bp):
TTTTAAAACTATATATTATATATATTTCAAAAACG
Found at i:64649 original size:41 final size:41
Alignment explanation
Indices: 64585--64683 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 41
64575 GTTTTAAAAC
*** *
64585 TATATAT-TATATATAT-TTCAAAAATGTTTCCAAAATTATA
1 TATATATATATATATATATTCAAAAAAAATT-CAAAACTATA
*
64625 TAT-TATATATATATATATTGAAAAAAAATTCAAAACTATA
1 TATATATATATATATATATTCAAAAAAAATTCAAAACTATA
64665 TATATATATATATATATAT
1 TATATATATATATATATAT
64684 ATATATATTC
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.06
40 24 0.47
41 24 0.47
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (41 bp):
TATATATATATATATATATTCAAAAAAAATTCAAAACTATA
Found at i:64666 original size:2 final size:2
Alignment explanation
Indices: 64661--64691 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
64651 AATTCAAAAC
64661 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64692 TCAAAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66633 original size:25 final size:25
Alignment explanation
Indices: 66599--66683 Score: 152
Period size: 25 Copynumber: 3.4 Consensus size: 25
66589 AAAAGAATTA
*
66599 ATAGCTCTTTAATGCTTTCAGAGTT
1 ATAGCTCTTTAATGCTTTCATAGTT
66624 ATAGCTCTTTAATGCTTTCATAGTT
1 ATAGCTCTTTAATGCTTTCATAGTT
*
66649 ATAGTTCTTTAATGCTTTCATAGTT
1 ATAGCTCTTTAATGCTTTCATAGTT
66674 ATAGCTCTTT
1 ATAGCTCTTT
66684 GACAAATATC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (25 bp):
ATAGCTCTTTAATGCTTTCATAGTT
Found at i:75028 original size:7 final size:7
Alignment explanation
Indices: 75016--75060 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
75006 CCTGAAAAGT
75016 AAAATAA
1 AAAATAA
75023 AAAATAA
1 AAAATAA
75030 AAAAT--
1 AAAATAA
75035 AAAATAA
1 AAAATAA
75042 ACAAATAA
1 A-AAATAA
75050 AAAATAA
1 AAAATAA
75057 AAAA
1 AAAA
75061 GAAATAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.14
7 23 0.66
8 7 0.20
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:75030 original size:12 final size:12
Alignment explanation
Indices: 75010--75051 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
75000 TTCGAACCTG
75010 AAAAGTAAAATAA-
1 AAAA-TAAAA-AAT
75023 AAAATAAAAAAT
1 AAAATAAAAAAT
75035 AAAATAAACAAAT
1 AAAATAAA-AAAT
75048 AAAA
1 AAAA
75052 AATAAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.07
12 13 0.48
13 12 0.44
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:75047 original size:20 final size:19
Alignment explanation
Indices: 75010--75067 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
75000 TTCGAACCTG
*
75010 AAAAGTAAAATAAAAAATA
1 AAAAATAAAATAAAAAATA
75029 AAAAATAAAATAAACAAATA
1 AAAAATAAAATAAA-AAATA
*
75049 AAAAATAAAA-AAGAAATA
1 AAAAATAAAATAAAAAATA
75067 A
1 A
75068 GTAAACTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 6 0.17
19 15 0.42
20 15 0.42
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.14
Consensus pattern (19 bp):
AAAAATAAAATAAAAAATA
Found at i:75166 original size:50 final size:49
Alignment explanation
Indices: 75094--75200 Score: 169
Period size: 50 Copynumber: 2.2 Consensus size: 49
75084 TTTTAAAAAC
* *
75094 TATATATTATATATATTTAAAAAATGTTTCCAAAATTATACATTATATA
1 TATATATTATATATATTCAAAAAATGTTTCCAAAACTATACATTATATA
* *
75143 TATATATATATATATATTCAAAAAATGTTTTCAAAACTATATATTATATA
1 TATATAT-TATATATATTCAAAAAATGTTTCCAAAACTATACATTATATA
75193 TATATATT
1 TATATATT
75201 CGAAAATGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
49 8 0.15
50 45 0.85
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.46
Consensus pattern (49 bp):
TATATATTATATATATTCAAAAAATGTTTCCAAAACTATACATTATATA
Found at i:75246 original size:39 final size:39
Alignment explanation
Indices: 75139--75246 Score: 171
Period size: 39 Copynumber: 2.7 Consensus size: 39
75129 TTATACATTA
75139 TATATATATATATATATATATTCAAAAAATGTTTTCAAAAC
1 TATATAT-TATATATATATATTC-AAAAATGTTTTCAAAAC
*
75180 TATATATTATATATATATATTCGAAAATGTTTTCAAAAC
1 TATATATTATATATATATATTCAAAAATGTTTTCAAAAC
* *
75219 TATTTATTATATATATATTTTCAAAAAT
1 TATATATTATATATATATATTCAAAAAT
75247 TATATATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 41 0.65
40 15 0.24
41 7 0.11
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (39 bp):
TATATATTATATATATATATTCAAAAATGTTTTCAAAAC
Found at i:75265 original size:26 final size:26
Alignment explanation
Indices: 75206--75270 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
75196 ATATTCGAAA
75206 ATGTTTTCAAAACTATTTATTATATAT
1 ATGTTTTCAAAAC-ATTTATTATATAT
*
75233 ATATTTTCAAAA-A-TTATATATTATAT
1 ATGTTTTCAAAACATTTAT-TA-TATAT
75259 ATGTTTTCAAAA
1 ATGTTTTCAAAA
75271 TGTTTTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 4 0.12
25 3 0.09
26 16 0.47
27 11 0.32
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (26 bp):
ATGTTTTCAAAACATTTATTATATAT
Found at i:78188 original size:41 final size:41
Alignment explanation
Indices: 78143--78220 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
78133 ATTCGCGTTG
78143 CATTTCGCGTTGCGATAGTCGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCGAAAATCGCGTTGCGATTTTC
*
78184 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTCGAAAATCGCGTTGCGAT
78221 AGTTGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTCGAAAATCGCGTTGCGATTTTC
Found at i:78215 original size:62 final size:62
Alignment explanation
Indices: 78147--78282 Score: 254
Period size: 62 Copynumber: 2.2 Consensus size: 62
78137 GCGTTGCATT
*
78147 TCGCGTTGCGATAGTCGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTCGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAA
*
78209 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTCGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAA
78271 TCGCGTTGCGAT
1 TCGCGTTGCGAT
78283 TTTCCATTTC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (62 bp):
TCGCGTTGCGATAGTCGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAA
Found at i:78254 original size:41 final size:41
Alignment explanation
Indices: 78209--78337 Score: 249
Period size: 41 Copynumber: 3.1 Consensus size: 41
78199 TAGTTGAAAA
*
78209 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
78250 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
78291 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
78332 TCGCGT
1 TCGCGT
78338 GATTTTCCAT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (41 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
Found at i:78256 original size:82 final size:82
Alignment explanation
Indices: 78168--78363 Score: 247
Period size: 82 Copynumber: 2.4 Consensus size: 82
78158 TAGTCGAAAA
*
78168 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTGAAAATCG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATAGTTGAAAATCG
78233 CGTTGCGATTTTCCAGT
66 CGTTGCGATTTTCCAGT
* ** ** * * **
78250 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAAAATC
1 TCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATAGTTGAAAATC
*
78314 GCGTTGCGATTTTCCATT
65 GCGTTGCGATTTTCCAGT
*
78332 TCGCG-T--GATTTTCCATTTCGCGTTGTGATAGT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
78364 CTACAATGTC
Statistics
Matches: 94, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
78 14 0.15
79 4 0.04
81 1 0.01
82 60 0.64
83 15 0.16
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (82 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATAGTTGAAAATCG
CGTTGCGATTTTCCAGT
Found at i:78316 original size:62 final size:62
Alignment explanation
Indices: 78147--78323 Score: 196
Period size: 62 Copynumber: 2.9 Consensus size: 62
78137 GCGTTGCATT
* * **
78147 TCGCGTTGCGATAG-TCGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTC-AAAATCGCGTTGCGATGTTCAAAATCGCGTTGCGATAGTTGAAAA
* * * **
78209 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTCAAAATCGCGTTGCGATGTTCAAAATCGCGTTGCGATAGTTGAAAA
* * ** *
78271 TCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 TCGCGTTGCGATAGTTCAAAATCGCGTTGCGAT-GTTCAAAATCGCGTTGCGAT
78324 TTTCCATTTC
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
61 15 0.15
62 85 0.84
63 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (62 bp):
TCGCGTTGCGATAGTTCAAAATCGCGTTGCGATGTTCAAAATCGCGTTGCGATAGTTGAAAA
Found at i:78343 original size:17 final size:17
Alignment explanation
Indices: 78321--78354 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
78311 ATCGCGTTGC
78321 GATTTTCCATTTCGCGT
1 GATTTTCCATTTCGCGT
78338 GATTTTCCATTTCGCGT
1 GATTTTCCATTTCGCGT
78355 TGTGATAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.47
Consensus pattern (17 bp):
GATTTTCCATTTCGCGT
Found at i:78377 original size:21 final size:20
Alignment explanation
Indices: 78352--78442 Score: 87
Period size: 19 Copynumber: 4.6 Consensus size: 20
78342 TTCCATTTCG
*
78352 CGTTGTGATAGTCTACAATGT
1 CGTTGCGATAGTCTACAAT-T
** *
78373 CGTTGCGATTTTCCA-AATT
1 CGTTGCGATAGTCTACAATT
*
78392 CGTTGCGATAGTCTACAGTT
1 CGTTGCGATAGTCTACAATT
** *
78412 CGTTGCGATTTTCCA-AATT
1 CGTTGCGATAGTCTACAATT
78431 CGTTGCGATAGT
1 CGTTGCGATAGT
78443 TAAAAAAAAG
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
19 26 0.47
20 18 0.33
21 11 0.20
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCTACAATT
Found at i:78396 original size:19 final size:19
Alignment explanation
Indices: 78372--78439 Score: 91
Period size: 19 Copynumber: 3.5 Consensus size: 19
78362 GTCTACAATG
78372 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
** * *
78391 TCGTTGCGATAGTCTACAGT
1 TCGTTGCGATTTTCCA-AAT
78411 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
78430 TCGTTGCGAT
1 TCGTTGCGAT
78440 AGTTAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 25 0.62
20 15 0.38
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:78426 original size:39 final size:40
Alignment explanation
Indices: 78352--78442 Score: 157
Period size: 39 Copynumber: 2.3 Consensus size: 40
78342 TTCCATTTCG
*
78352 CGTTGTGATAGTCTACAATGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAATGTCGTTGCGATTTTCCAAATT
*
78392 CGTTGCGATAGTCTACAGT-TCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAATGTCGTTGCGATTTTCCAAATT
78431 CGTTGCGATAGT
1 CGTTGCGATAGT
78443 TAAAAAAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 32 0.65
40 17 0.35
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (40 bp):
CGTTGCGATAGTCTACAATGTCGTTGCGATTTTCCAAATT
Found at i:78550 original size:10 final size:11
Alignment explanation
Indices: 78519--78552 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
78509 GACACGTATT
78519 ACCACGACCACG
1 ACCACGACC-CG
78531 ACCACGACCCG
1 ACCACGACCCG
78542 ACC-CGACCCG
1 ACCACGACCCG
78552 A
1 A
78553 GATGGAGGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.29, C:0.53, G:0.18, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:79179 original size:19 final size:19
Alignment explanation
Indices: 79155--79223 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
79145 CAACGAATTT
79155 TCGCAACGAATTTGAAAAA
1 TCGCAACGAATTTGAAAAA
** **
79174 TCGCAACGACAACTGTAGACTA
1 TCGCAACGA-ATTTG-A-AAAA
*
79196 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGAAAAA
79215 TCGCAACGA
1 TCGCAACGA
79224 CAACTGTAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 20 0.53
20 3 0.08
21 4 0.11
22 11 0.29
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (19 bp):
TCGCAACGAATTTGAAAAA
Found at i:79200 original size:41 final size:41
Alignment explanation
Indices: 79155--79244 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
79145 CAACGAATTT
79155 TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
*
79196 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
79237 TCGCAACG
1 TCGCAACG
79245 CGACTGGAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (41 bp):
TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
Found at i:79201 original size:22 final size:22
Alignment explanation
Indices: 79173--79244 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
79163 AATTTGAAAA
79173 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
79195 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
79214 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
79236 ATCGCAACG
1 ATCGCAACG
79245 CGACTGGAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:79253 original size:41 final size:41
Alignment explanation
Indices: 79155--79263 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
79145 CAACGAATTT
* *
79155 TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATCTGGAAAATCGCAACGACAACTGTAGACTA
*
79196 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATCTGGAAAATCGCAACGACAACTGTAGACTA
*
79237 TCGCAACGCGA-CTGGAAAATCGCAACG
1 TCGCAACG-AATCTGGAAAATCGCAACG
79264 CGAAATGGAA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 63 0.98
42 1 0.02
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (41 bp):
TCGCAACGAATCTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:79260 original size:19 final size:19
Alignment explanation
Indices: 79208--79285 Score: 77
Period size: 19 Copynumber: 3.9 Consensus size: 19
79198 GCAACGAATT
*
79208 TGGAAAATCGCAACGACAAC
1 TGGAAAATCGCAACG-CGAC
**
79228 TGTAGACTATCGCAACGCGAC
1 TG--GAAAATCGCAACGCGAC
*
79249 TGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGCG-AC
79269 TGG-AAATCGCAACGCGA
1 TGGAAAATCGCAACGCGA
79286 TTTTCAATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
18 1 0.02
19 26 0.53
20 6 0.12
21 5 0.10
22 11 0.22
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.13
Consensus pattern (19 bp):
TGGAAAATCGCAACGCGAC
Found at i:81010 original size:19 final size:20
Alignment explanation
Indices: 80986--81029 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
80976 TCAGATGGTG
*
80986 AGTCTGGGGAAAA-GTGTGC
1 AGTCTGGGGAAAATGTGTCC
81005 AGTCTGGGGAAAATGTGTCC
1 AGTCTGGGGAAAATGTGTCC
81025 AGTCT
1 AGTCT
81030 TGACACAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.25
Consensus pattern (20 bp):
AGTCTGGGGAAAATGTGTCC
Done.