Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002412.1 Hibiscus syriacus cultivar Beakdansim tig00004931_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: 115017
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:1234 original size:21 final size:21
Alignment explanation
Indices: 1191--1234 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1181 TAACTTTTTC
* *
1191 TTTTCTCTTTCTTTATTCATT
1 TTTTCTCTTTCATTATTAATT
*
1212 TTTTCTCTTTCATT-TTAACT
1 TTTTCTCTTTCATTATTAATT
1232 TTT
1 TTT
1235 ACTTTTTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTTCATTATTAATT
Found at i:4820 original size:17 final size:16
Alignment explanation
Indices: 4789--4822 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4779 CACGTGAGGA
4789 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
4805 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
4822 T
1 T
4823 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:7773 original size:13 final size:13
Alignment explanation
Indices: 7757--7818 Score: 88
Period size: 13 Copynumber: 4.8 Consensus size: 13
7747 GCTCAATGAA
7757 CGTCATAAATGCG
1 CGTCATAAATGCG
*
7770 CGTCATAAATGTG
1 CGTCATAAATGCG
* *
7783 TGTCATAAATGTG
1 CGTCATAAATGCG
*
7796 TGTCATAAATGCG
1 CGTCATAAATGCG
7809 CGTCATAAAT
1 CGTCATAAAT
7819 TTATGACGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:19053 original size:2 final size:2
Alignment explanation
Indices: 18997--19040 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
18987 ACATATAAGA
18997 AT AT AT AT AT 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 AT AT AT AT AT
19039 AT
1 AT
19041 CCATTTCTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19666 original size:12 final size:12
Alignment explanation
Indices: 19649--19673 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19639 AGATGATAAG
19649 TCAAATTCAACT
1 TCAAATTCAACT
19661 TCAAATTCAACT
1 TCAAATTCAACT
19673 T
1 T
19674 ATCAACTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (12 bp):
TCAAATTCAACT
Found at i:20555 original size:79 final size:79
Alignment explanation
Indices: 20458--20613 Score: 260
Period size: 79 Copynumber: 2.0 Consensus size: 79
20448 TCGCTAACTA
20458 ATTTTAGGTAGAACTCAATATTAACATTTTCGGTAGAAAAAATAATGTTTTAGGTAGCGA-TTTA
1 ATTTTAGGTAGAACTCAATATTAACATTTTCGGTAGAAAAAATAATGTTTTAGGTAGC-ATTTTA
* *
20522 CCGGAAATGTTAAAC
65 CCGAAAATATTAAAC
**
20537 ATTTTAGGTAGCGCTCAATATTAACATTTTCGGTAGAAAAAATAATGTTTTAGGTAGCATTTTAC
1 ATTTTAGGTAGAACTCAATATTAACATTTTCGGTAGAAAAAATAATGTTTTAGGTAGCATTTTAC
20602 CGAAAATATTAA
66 CGAAAATATTAA
20614 TATTTCCGGT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 1 0.01
79 71 0.99
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (79 bp):
ATTTTAGGTAGAACTCAATATTAACATTTTCGGTAGAAAAAATAATGTTTTAGGTAGCATTTTAC
CGAAAATATTAAAC
Found at i:20910 original size:122 final size:122
Alignment explanation
Indices: 20780--21024 Score: 472
Period size: 122 Copynumber: 2.0 Consensus size: 122
20770 TCAATATTTC
*
20780 TATAATTCTATTATTAAAAATTGGTTTCATGATTTTTTTATTATTTTAATGAAAATAGATAAAAA
1 TATAATTCTATTATTAAAAATTGGTTTCATGATTTATTTATTATTTTAATGAAAATAGATAAAAA
20845 ACAATGTTAATTTATTTTATATATTTTTTCATACTTATGTTTTTCATTCATTTCATA
66 ACAATGTTAATTTATTTTATATATTTTTTCATACTTATGTTTTTCATTCATTTCATA
*
20902 TATAATTCTATTATTAAAAATTGGTTTCATGATTTATTTATTATTTTAATGAAAATAGATATAAA
1 TATAATTCTATTATTAAAAATTGGTTTCATGATTTATTTATTATTTTAATGAAAATAGATAAAAA
20967 ACAATGTTAATTTATTTTATATATTTTTTCATACTTATGTTTTTCATTCATTTCATA
66 ACAATGTTAATTTATTTTATATATTTTTTCATACTTATGTTTTTCATTCATTTCATA
21024 T
1 T
21025 TTTGTTAGAC
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 121 1.00
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.53
Consensus pattern (122 bp):
TATAATTCTATTATTAAAAATTGGTTTCATGATTTATTTATTATTTTAATGAAAATAGATAAAAA
ACAATGTTAATTTATTTTATATATTTTTTCATACTTATGTTTTTCATTCATTTCATA
Found at i:21712 original size:21 final size:21
Alignment explanation
Indices: 21659--21720 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
21649 TACTTCGCCT
* **
21659 TAATTTAATGTTTTTCTACACA
1 TAATTTAATGATTTT-TATGCA
* *
21681 CAATTTGATGATTTTTATGCA
1 TAATTTAATGATTTTTATGCA
21702 TAATTTAATGATTTTTATG
1 TAATTTAATGATTTTTATG
21721 ATAGTCGTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.52
Consensus pattern (21 bp):
TAATTTAATGATTTTTATGCA
Found at i:22673 original size:20 final size:20
Alignment explanation
Indices: 22648--22685 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22638 AATATAAAAA
*
22648 TTTTAACTAATAATTATTTT
1 TTTTAAATAATAATTATTTT
*
22668 TTTTAAATAATTATTATT
1 TTTTAAATAATAATTATT
22686 AAACTCATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAATAATAATTATTTT
Found at i:31155 original size:3 final size:3
Alignment explanation
Indices: 31147--31180 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
31137 CTTTGCACCT
*
31147 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31181 CCAACTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:31596 original size:9 final size:9
Alignment explanation
Indices: 31582--31611 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
31572 CGTTCCATCC
31582 TTGGTCCCA
1 TTGGTCCCA
31591 TTGGTCCCA
1 TTGGTCCCA
31600 TTGGTCCCA
1 TTGGTCCCA
31609 TTG
1 TTG
31612 TTCATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.30, G:0.23, T:0.37
Consensus pattern (9 bp):
TTGGTCCCA
Found at i:32644 original size:23 final size:23
Alignment explanation
Indices: 32573--32645 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
32563 ATTGTGTTGT
* *
32573 CTTTGTGATATGTTTATCTCTTTC
1 CTTTATGATACGTTTATCTC-TTC
** * *
32597 C-TTATGGCACGTTTATCTATGC
1 CTTTATGATACGTTTATCTCTTC
*
32619 CTTTATGATACGTTTTTCTCTTC
1 CTTTATGATACGTTTATCTCTTC
32642 CTTT
1 CTTT
32646 TGGTAGTTTT
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
22 3 0.08
23 33 0.89
24 1 0.03
ACGTcount: A:0.14, C:0.21, G:0.12, T:0.53
Consensus pattern (23 bp):
CTTTATGATACGTTTATCTCTTC
Found at i:38474 original size:25 final size:25
Alignment explanation
Indices: 38444--38511 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
38434 ATGTTATTTC
38444 ACCTAAAGTGATAATATATCAAATG
1 ACCTAAAGTGATAATATATCAAATG
* * * * *
38469 ATCTAAAATGATGATATATCATATT
1 ACCTAAAGTGATAATATATCAAATG
38494 ACCTAAAGTGATAATATA
1 ACCTAAAGTGATAATATA
38512 ATGTCATATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.32
Consensus pattern (25 bp):
ACCTAAAGTGATAATATATCAAATG
Found at i:39615 original size:26 final size:28
Alignment explanation
Indices: 39585--39636 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
39575 AATATTTTCA
39585 AAATAATAATATTATG-T-TTTGATAAT
1 AAATAATAATATTATGATATTTGATAAT
* *
39611 AAATAATATTTTTATGATATTTGATA
1 AAATAATAATATTATGATATTTGATA
39637 TTTGTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 1 0.05
28 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (28 bp):
AAATAATAATATTATGATATTTGATAAT
Found at i:39623 original size:19 final size:19
Alignment explanation
Indices: 39587--39629 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
39577 TATTTTCAAA
*
39587 ATAATAATATTATGTTTTG
1 ATAATAATAATATGTTTTG
*
39606 ATAATAAATAATATTTTTATG
1 ATAAT-AATAATATGTTT-TG
39627 ATA
1 ATA
39630 TTTGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 10 0.50
21 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (19 bp):
ATAATAATAATATGTTTTG
Found at i:42068 original size:49 final size:49
Alignment explanation
Indices: 41923--42068 Score: 274
Period size: 49 Copynumber: 3.0 Consensus size: 49
41913 AGCCATTAAG
**
41923 AGTCGTTGTAATAGAACTGTTACCTACAAAAAATAGTATTTATGACACG
1 AGTCGTTGTAATAGAACTGTTACCTACAAAAAATAGTATTTATGACATA
41972 AGTCGTTGTAATAGAACTGTTACCTACAAAAAATAGTATTTATGACATA
1 AGTCGTTGTAATAGAACTGTTACCTACAAAAAATAGTATTTATGACATA
42021 AGTCGTTGTAATAGAACTGTTACCTACAAAAAATAGTATTTATGACAT
1 AGTCGTTGTAATAGAACTGTTACCTACAAAAAATAGTATTTATGACAT
42069 GAGGGATCAA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 95 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (49 bp):
AGTCGTTGTAATAGAACTGTTACCTACAAAAAATAGTATTTATGACATA
Found at i:46109 original size:2 final size:2
Alignment explanation
Indices: 46102--46139 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
46092 CATTGAAACA
46102 AT AT AT 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 AT AT AT
46140 CAAAGTGGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46460 original size:16 final size:16
Alignment explanation
Indices: 46441--46483 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
46431 ATAACATCCC
*
46441 TAATTTAATTTTCTTT
1 TAATTTAATTTTCATT
**
46457 TAATTGGATTTTCATT
1 TAATTTAATTTTCATT
46473 TAA-TTAATTTT
1 TAATTTAATTTT
46484 AGTGACCAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (16 bp):
TAATTTAATTTTCATT
Found at i:48546 original size:144 final size:144
Alignment explanation
Indices: 48284--48571 Score: 443
Period size: 144 Copynumber: 2.0 Consensus size: 144
48274 CAAAAAATCG
48284 GGAAATCAATGTATCAATTAGATAAAATATTCATAAATAAAATCAAATAAACAATTACATTTCAG
1 GGAAATCAATGTATCAATTAGATAAAATATTCATAAATAAAATCAAATAAACAATTACATTTCAG
* * * *
48349 AACATATTAAACAGTCGTATAACACACAGGAACACACTAGAGGATCCAGTTATTTTTTAGAGGTA
66 AACAGATTAAACAGTCGTACAACACACAGGAACACACTAGAGGATCCAATTATTTTATAGAGGTA
48414 CTTAGTAGCTATCA
131 CTTAGTAGCTATCA
* * **
48428 GGAAATCAATGTATCAATTAGATAAAATATTCATAAATCAAATCAAGTAAACAATTGTATTTCAG
1 GGAAATCAATGTATCAATTAGATAAAATATTCATAAATAAAATCAAATAAACAATTACATTTCAG
* * * *
48493 AACAGGTTAAACAGTTGTACATCATAC-GAGAACACACTAGAGGATCCAATTATTTTATAGAGGT
66 AACAGATTAAACAGTCGTACAACACACAG-GAACACACTAGAGGATCCAATTATTTTATAGAGGT
*
48557 ACTTGGTAGCTATCA
130 ACTTAGTAGCTATCA
48572 AGAAGGGAAA
Statistics
Matches: 130, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
143 1 0.01
144 129 0.99
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (144 bp):
GGAAATCAATGTATCAATTAGATAAAATATTCATAAATAAAATCAAATAAACAATTACATTTCAG
AACAGATTAAACAGTCGTACAACACACAGGAACACACTAGAGGATCCAATTATTTTATAGAGGTA
CTTAGTAGCTATCA
Found at i:50164 original size:16 final size:17
Alignment explanation
Indices: 50143--50189 Score: 69
Period size: 16 Copynumber: 2.7 Consensus size: 17
50133 TTTGAGTTTT
50143 TGGTCAAAGTCAAC-TC
1 TGGTCAAAGTCAACATC
50159 TGGTCAAAGTCAACAGTC
1 TGGTCAAAGTCAACA-TC
50177 TAGGTCAAAGTCA
1 T-GGTCAAAGTCA
50190 TCAATTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.50
18 3 0.11
19 11 0.39
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (17 bp):
TGGTCAAAGTCAACATC
Found at i:54273 original size:14 final size:15
Alignment explanation
Indices: 54256--54289 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
54246 GATTTTACTA
*
54256 TTTTGATGTA-TTAT
1 TTTTGATATACTTAT
54270 TTTTGATATACTTAT
1 TTTTGATATACTTAT
54285 TTTTG
1 TTTTG
54290 GAGCTCCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.65
Consensus pattern (15 bp):
TTTTGATATACTTAT
Found at i:56642 original size:28 final size:28
Alignment explanation
Indices: 56610--56663 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
56600 ATTGAATAAA
56610 GTTCGATTAACGATTAAATAAAAAAATG
1 GTTCGATTAACGATTAAATAAAAAAATG
56638 GTTCGATTAACGATTAAATAAAAAAA
1 GTTCGATTAACGATTAAATAAAAAAA
56664 GTTAGACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (28 bp):
GTTCGATTAACGATTAAATAAAAAAATG
Found at i:58097 original size:16 final size:16
Alignment explanation
Indices: 58072--58136 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
58062 TAATAAATAA
*
58072 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
58088 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
58104 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
58120 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
58136 A
1 A
58137 TAAACGTTGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:58101 original size:10 final size:10
Alignment explanation
Indices: 58068--58142 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
58058 CATTTAATAA
*
58068 ATAAACGAAT
1 ATAAACGAAC
58078 ATAAACGAAC
1 ATAAACGAAC
58088 ----ACGAAC
1 ATAAACGAAC
58094 ATAAACGAAC
1 ATAAACGAAC
** *
58104 ACGAAC-ATAA
1 ATAAACGA-AC
58114 ATGAACACGAAC
1 AT-AA-ACGAAC
58126 ATAAACGAAC
1 ATAAACGAAC
58136 ATAAACG
1 ATAAACG
58143 TTGGAGACCC
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 34 0.68
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:61210 original size:24 final size:24
Alignment explanation
Indices: 61178--61229 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
61168 TGATATAGAT
61178 ATATGATTCACTTTCGCGTATCAC
1 ATATGATTCACTTTCGCGTATCAC
61202 ATATGATTCACTTTCGCGTATCAC
1 ATATGATTCACTTTCGCGTATCAC
61226 ATAT
1 ATAT
61230 ACTTTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (24 bp):
ATATGATTCACTTTCGCGTATCAC
Found at i:62414 original size:23 final size:23
Alignment explanation
Indices: 62365--62441 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
62355 ACTTGGAGTA
* *
62365 GTATCGGTACC-CCCT-GTAG-C
1 GTATCGGTACCTCCCTAGTTGTG
*
62385 GTATCGGTACTTCCCTA-TCTGTG
1 GTATCGGTACCTCCCTAGT-TGTG
*
62408 GTATCGGTACCTCTCTAGTTGTG
1 GTATCGGTACCTCCCTAGTTGTG
62431 GTATCGGTACC
1 GTATCGGTACC
62442 ATGACTAGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
20 10 0.21
21 5 0.11
22 1 0.02
23 30 0.64
24 1 0.02
ACGTcount: A:0.14, C:0.27, G:0.25, T:0.34
Consensus pattern (23 bp):
GTATCGGTACCTCCCTAGTTGTG
Found at i:64037 original size:32 final size:32
Alignment explanation
Indices: 63993--64074 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 32
63983 CTGATACTCT
*
63993 TGTGCA-TATCTGAATGCAAACCTAAACATAC
1 TGTGCATTATCTGAATGCAAACCTAAACATAA
* * * *
64024 TGTGCATTATCTGATTGCAAACCTTACCGTAA
1 TGTGCATTATCTGAATGCAAACCTAAACATAA
64056 TGTGCATTATCTGAATGCA
1 TGTGCATTATCTGAATGCA
64075 CCCTGACTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 6 0.14
32 38 0.86
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (32 bp):
TGTGCATTATCTGAATGCAAACCTAAACATAA
Found at i:65176 original size:21 final size:21
Alignment explanation
Indices: 65151--65225 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
65141 GATACTTTAG
*
65151 AAAGTCTCCATACTCTTGGGT
1 AAAGTATCCATACTCTTGGGT
*
65172 AAAGTATCGATACTCTTGGGT
1 AAAGTATCCATACTCTTGGGT
* *
65193 AAAGTATCGATACTC-TAGG-
1 AAAGTATCCATACTCTTGGGT
65212 AAAGTATCCATACT
1 AAAGTATCCATACT
65226 ATTGAAAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.26
20 3 0.06
21 34 0.68
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (21 bp):
AAAGTATCCATACTCTTGGGT
Found at i:65187 original size:59 final size:59
Alignment explanation
Indices: 65115--65242 Score: 170
Period size: 59 Copynumber: 2.2 Consensus size: 59
65105 TGTTACCTTG
* * * * *
65115 AGTATCGATACTCTAGGG-AAAGTATTGATACTTTA-GAAAGTCTCCATACTCTTGGGTAA
1 AGTATCGATACTCTAGGGTAAAGTATCGATACTCTAGGAAAGTATCCATACTATT--GAAA
*
65174 AGTATCGATACTCTTGGGTAAAGTATCGATACTCTAGGAAAGTATCCATACTATTGAAA
1 AGTATCGATACTCTAGGGTAAAGTATCGATACTCTAGGAAAGTATCCATACTATTGAAA
65233 AGTATCGATA
1 AGTATCGATA
65243 ATCTTTGCCT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
59 30 0.49
60 15 0.25
61 16 0.26
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (59 bp):
AGTATCGATACTCTAGGGTAAAGTATCGATACTCTAGGAAAGTATCCATACTATTGAAA
Found at i:66285 original size:23 final size:24
Alignment explanation
Indices: 66258--66305 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
66248 AATAGTTTTG
*
66258 TCTTTATTGCACATTT-TCATTTA
1 TCTTTATAGCACATTTATCATTTA
* *
66281 TCTTTATAGTACGTTTATCATTTA
1 TCTTTATAGCACATTTATCATTTA
66305 T
1 T
66306 AATGTTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.23, C:0.15, G:0.06, T:0.56
Consensus pattern (24 bp):
TCTTTATAGCACATTTATCATTTA
Found at i:66936 original size:2 final size:2
Alignment explanation
Indices: 66931--66967 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
66921 AAATTAAAAT
66931 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66968 TATTAAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:67994 original size:16 final size:17
Alignment explanation
Indices: 67961--67994 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
67951 ACCTTTTATT
*
67961 TTATTTTATATTTTAAA
1 TTATTTTATATATTAAA
67978 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
67994 T
1 T
67995 AATAACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:68810 original size:60 final size:60
Alignment explanation
Indices: 68735--68883 Score: 176
Period size: 60 Copynumber: 2.5 Consensus size: 60
68725 ACGGTTAAGG
* *
68735 GACTAATTTAGAATGAGAGTCATAGTTTGGGGATGAAATTAGAAAATTCA-ATAATTAAAA
1 GACTAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATTAGAAAATTCAGACAATT-AAA
* * * * * *
68795 GACTAATTTAGAATGAAAGTAATAATTTAGGGATGAAATTATAATATTCAGACAATTAAG
1 GACTAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATTAGAAAATTCAGACAATTAAA
* *
68855 GA-TCAATTTAAAATGAGAATCATAGTTTA
1 GACT-AATTTAGAATGAGAGTCATAGTTTA
68884 AGGACATATA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
59 1 0.01
60 68 0.92
61 5 0.07
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.32
Consensus pattern (60 bp):
GACTAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATTAGAAAATTCAGACAATTAAA
Found at i:69477 original size:2 final size:2
Alignment explanation
Indices: 69470--69497 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
69460 TCTTATGGGT
69470 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
69498 AACATGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72908 original size:8 final size:8
Alignment explanation
Indices: 72895--72931 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
72885 CCATGTAAAT
72895 TGAAGAAG
1 TGAAGAAG
72903 TGAAGAAG
1 TGAAGAAG
72911 TGAAGAAG
1 TGAAGAAG
*
72919 TGAAGAAC
1 TGAAGAAG
72927 TGAAG
1 TGAAG
72932 CTTTAAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.49, C:0.03, G:0.35, T:0.14
Consensus pattern (8 bp):
TGAAGAAG
Found at i:78689 original size:24 final size:23
Alignment explanation
Indices: 78652--78700 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
78642 TTCATTGAAA
*
78652 AACCGAAAAACCGAACCGAACCG
1 AACCGAAAAACCGAACCAAACCG
78675 AACCGAAAAACCCGAACCAAACCG
1 AACCGAAAAA-CCGAACCAAACCG
78699 AA
1 AA
78701 AAAACCGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.51, C:0.35, G:0.14, T:0.00
Consensus pattern (23 bp):
AACCGAAAAACCGAACCAAACCG
Found at i:78691 original size:19 final size:19
Alignment explanation
Indices: 78667--78703 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
78657 AAAAACCGAA
*
78667 CCGAACCGAACCGAAAAAC
1 CCGAACCAAACCGAAAAAC
78686 CCGAACCAAACCGAAAAA
1 CCGAACCAAACCGAAAAA
78704 ACCGGTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.35, G:0.14, T:0.00
Consensus pattern (19 bp):
CCGAACCAAACCGAAAAAC
Found at i:81221 original size:150 final size:150
Alignment explanation
Indices: 80988--81287 Score: 600
Period size: 150 Copynumber: 2.0 Consensus size: 150
80978 GATATCACTT
80988 CGATCATGCCCTATTCATAATCATATTTAAGAAATTTTCTGTTAATCTTGGTAATGCGGTAATCT
1 CGATCATGCCCTATTCATAATCATATTTAAGAAATTTTCTGTTAATCTTGGTAATGCGGTAATCT
81053 GTAAGTTAGAATATAGGATAACCTGCCATCAACAGTTCATGAAGAAATCTATTGGCATCTGTCAG
66 GTAAGTTAGAATATAGGATAACCTGCCATCAACAGTTCATGAAGAAATCTATTGGCATCTGTCAG
81118 AAGCTACTTATGCTAATTGG
131 AAGCTACTTATGCTAATTGG
81138 CGATCATGCCCTATTCATAATCATATTTAAGAAATTTTCTGTTAATCTTGGTAATGCGGTAATCT
1 CGATCATGCCCTATTCATAATCATATTTAAGAAATTTTCTGTTAATCTTGGTAATGCGGTAATCT
81203 GTAAGTTAGAATATAGGATAACCTGCCATCAACAGTTCATGAAGAAATCTATTGGCATCTGTCAG
66 GTAAGTTAGAATATAGGATAACCTGCCATCAACAGTTCATGAAGAAATCTATTGGCATCTGTCAG
81268 AAGCTACTTATGCTAATTGG
131 AAGCTACTTATGCTAATTGG
81288 TGTACTTCAA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (150 bp):
CGATCATGCCCTATTCATAATCATATTTAAGAAATTTTCTGTTAATCTTGGTAATGCGGTAATCT
GTAAGTTAGAATATAGGATAACCTGCCATCAACAGTTCATGAAGAAATCTATTGGCATCTGTCAG
AAGCTACTTATGCTAATTGG
Found at i:84733 original size:3 final size:3
Alignment explanation
Indices: 84725--84754 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
84715 TGGGGTTAAC
84725 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
84755 CTTTGGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:90551 original size:21 final size:21
Alignment explanation
Indices: 90527--90576 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
90517 CATGGTTTAC
90527 CCATTTTCTTCATCTAGTTAT
1 CCATTTTCTTCATCTAGTTAT
90548 CCATTTTCTTCATCTAGTTAT
1 CCATTTTCTTCATCTAGTTAT
90569 CCATTTTC
1 CCATTTTC
90577 CATTCAATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.26, G:0.04, T:0.52
Consensus pattern (21 bp):
CCATTTTCTTCATCTAGTTAT
Found at i:93577 original size:17 final size:17
Alignment explanation
Indices: 93555--93595 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
93545 AGGGACTTAT
93555 TTCAAGATCAGAGAATG
1 TTCAAGATCAGAGAATG
93572 TTCAAGATCAGAGAATG
1 TTCAAGATCAGAGAATG
93589 TTCAAGA
1 TTCAAGA
93596 AAACAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.24
Consensus pattern (17 bp):
TTCAAGATCAGAGAATG
Found at i:93608 original size:27 final size:27
Alignment explanation
Indices: 93578--93635 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
93568 AATGTTCAAG
93578 ATCAGAGAATGTTCAAGAAAACAATTA
1 ATCAGAGAATGTTCAAGAAAACAATTA
93605 ATCAGAGAATGTTCAAGAAAACAATTA
1 ATCAGAGAATGTTCAAGAAAACAATTA
93632 ATCA
1 ATCA
93636 TAGGATCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.22
Consensus pattern (27 bp):
ATCAGAGAATGTTCAAGAAAACAATTA
Found at i:95084 original size:24 final size:24
Alignment explanation
Indices: 95057--95179 Score: 176
Period size: 24 Copynumber: 5.1 Consensus size: 24
95047 TTCTATTTGA
95057 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
95081 ATTCTGATATGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
95105 ATTTTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
95129 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
95153 ATTTTGATATGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
95177 ATT
1 ATT
95180 ATGTTTTGAT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 87 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:101801 original size:34 final size:36
Alignment explanation
Indices: 101756--101832 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
101746 TTATTCATAA
* **
101756 AAGAATAGCTTAAATT-AC-TATTCTTATCAACAAT
1 AAGAATGGCTTAAATTGACATATTCTTAAAAACAAT
*
101790 AAGAATGGCTTAAATTGCCATATTCTTAAAAACAAT
1 AAGAATGGCTTAAATTGACATATTCTTAAAAACAAT
*
101826 AATAATG
1 AAGAATG
101833 AAGTAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 15 0.42
35 1 0.03
36 20 0.56
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.32
Consensus pattern (36 bp):
AAGAATGGCTTAAATTGACATATTCTTAAAAACAAT
Found at i:103245 original size:3 final size:3
Alignment explanation
Indices: 103234--103309 Score: 95
Period size: 3 Copynumber: 26.0 Consensus size: 3
103224 GTTTTTTTCG
**
103234 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
103281 -TC TTA TTA TT- TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
103310 CGAATTTTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 5 0.08
3 55 0.87
4 3 0.05
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:105378 original size:22 final size:22
Alignment explanation
Indices: 105353--105396 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
105343 TCAAACGATG
*
105353 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
105375 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
105397 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:111236 original size:36 final size:35
Alignment explanation
Indices: 111191--111309 Score: 100
Period size: 35 Copynumber: 3.4 Consensus size: 35
111181 ACAAAGTTGA
**
111191 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAAC-AACTTTG
* *
111227 TCTCGCTTGAGACAATTTCTCTAAAAACAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAACTTTG
* * * * *
111262 TCTCATTTGAGACTATATCT-T-AAAGCAAATTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAACTTT-G
*
111296 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
111310 TCATTTTCTC
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
33 9 0.13
34 13 0.19
35 29 0.43
36 17 0.25
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (35 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAACTTTG
Found at i:111262 original size:35 final size:36
Alignment explanation
Indices: 111207--111309 Score: 115
Period size: 35 Copynumber: 3.0 Consensus size: 36
111197 TTGAGATCGT
*
111207 TTTCTC-AAAAACAAACTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
** *
111242 TTTCTCTAAAAAC-AATTTTGTCTCATTTGAGACTA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
* * *
111277 TATCT-T-AAAGCAAATTTCGTCTCGCTTGAGACA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
111310 TCATTTTCTC
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
33 4 0.07
34 18 0.32
35 28 0.50
36 6 0.11
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
Found at i:111595 original size:28 final size:28
Alignment explanation
Indices: 111558--111683 Score: 161
Period size: 29 Copynumber: 4.5 Consensus size: 28
111548 TCTTTTGAGG
111558 AAAAATCTTTGAGTTTGTTCCTCTTGAA-
1 AAAAATCTTTGAGTTTGTTCCT-TTGAAT
111586 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCC-TTTGAAT
*
111615 AAAAATCTTGGAGTTTGTTCCTTTGGAAT
1 AAAAATCTTTGAGTTTGTTCCTTT-GAAT
* *
111644 AAAAATCTGTGAG-TTGTTTCGTTTG-A-
1 AAAAATCTTTGAGTTTG-TTCCTTTGAAT
111670 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
111684 CTATTTACTT
Statistics
Matches: 88, Mismatches: 5, Indels: 11
0.85 0.05 0.11
Matches are distributed among these distances:
26 12 0.14
27 1 0.01
28 33 0.38
29 42 0.48
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (28 bp):
AAAAATCTTTGAGTTTGTTCCTTTGAAT
Found at i:111620 original size:57 final size:56
Alignment explanation
Indices: 111549--111683 Score: 168
Period size: 57 Copynumber: 2.4 Consensus size: 56
111539 AAGACAATTT
* *
111549 CTTTTGAGGAAAAATCTTTGAGTTTGTTCCTCTT-GAA-AAAAATCTTTGAGTTTGTTC
1 CTTTTGA-AAAAAATCTTTGAGTTTGTTCCT-TTGGAATAAAAATCTGTGAG-TTGTTC
* *
111606 CTTTTGAATAAAAATCTTGGAGTTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTT
1 CTTTTGAA-AAAAATCTTTGAGTTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTC
*
111663 CGTTTG-AAAAAATCTTTGAGT
1 CTTTTGAAAAAAATCTTTGAGT
111684 CTATTTACTT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
55 13 0.19
56 3 0.04
57 41 0.59
58 12 0.17
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (56 bp):
CTTTTGAAAAAAATCTTTGAGTTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTC
Found at i:111695 original size:27 final size:26
Alignment explanation
Indices: 111644--111698 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
111634 CCTTTGGAAT
*
111644 AAAAATCTGTGAGTTGTTTCGTTTGA
1 AAAAATCTGTGAGTTATTTCGTTTGA
*
111670 AAAAATCTTTGAGTCTATTTAC-TTTGA
1 AAAAATCTGTGAGT-TATTT-CGTTTGA
111697 AA
1 AA
111699 CAAAGTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 11 0.44
28 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (26 bp):
AAAAATCTGTGAGTTATTTCGTTTGA
Found at i:111996 original size:67 final size:67
Alignment explanation
Indices: 111749--112311 Score: 975
Period size: 66 Copynumber: 8.5 Consensus size: 67
111739 TTTGAGATTG
111749 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAAC-AAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
111813 AA
66 AA
* *
111815 TTTCTTTTGAAACAAAAATCTTTAAGTTTGTTTCTTTGGAAACAAAA-TTTGTCTCTTTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
111879 AA
66 AA
111881 TTTCTTTTGAAAC-AAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
111945 AA
66 AA
* *
111947 TTTCTTTTGAAACAAAAATCTTTAAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTGTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
112012 AA
66 AA
112014 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
112079 AA
66 AA
112081 TTTCTTTTGAAAC-AAAATCTTTGAGTTTGTTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTG-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
112145 TAA
65 TAA
112148 -TTCTTTTGAAAC-AAAATCTTTGAGTTTGTTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTG-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
112211 TAA
65 TAA
*
112214 TTTC-TTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGTT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
112278 AA
66 AA
* *
112280 TTTCTTTTG--A-AAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCT
112312 CTTAAAATGA
Statistics
Matches: 479, Mismatches: 11, Indels: 16
0.95 0.02 0.03
Matches are distributed among these distances:
64 20 0.04
65 33 0.07
66 234 0.49
67 192 0.40
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:112166 original size:199 final size:200
Alignment explanation
Indices: 111749--112311 Score: 996
Period size: 199 Copynumber: 2.8 Consensus size: 200
111739 TTTGAGATTG
111749 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAAC-AAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
* *
111813 AATTTCTTTTGAAACAAAAATCTTTAAGTTTGTTTCTTTGGAAACAAAA-TTTGTCTCTTTTAAG
66 AATTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAG
111877 ATAATTTCTTTTGAAACAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAA
131 ATAATTTCTTTTGAAACAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAA
111942 GATAA
196 GATAA
* *
111947 TTTCTTTTGAAACAAAAATCTTTAAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTGTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
112012 AATTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAG
66 AATTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAG
112077 ATAATTTCTTTTGAAACAAAATCTTTGAGTTTGTTTTCTTTGGAAACAAAATTTTGTCTCTCTTA
131 ATAATTTCTTTTGAAACAAAATCTTTGAGTTTG-TTTCTTTGGAAACAAAATTTTGTCTCTCTTA
112142 AGATAA
195 AGATAA
112148 -TTCTTTTGAAAC-AAAATCTTTGAGTTTGTTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTG-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
112211 TAATTTC-TTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAA
65 TAATTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAA
* * *
112275 GTTAATTTCTTTTG-AA-AAAATCTTTGAATCTGTTTCT
130 GATAATTTCTTTTGAAACAAAATCTTTGAGTTTGTTTCT
112312 CTTAAAATGA
Statistics
Matches: 352, Mismatches: 9, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
196 5 0.01
197 14 0.04
198 44 0.12
199 153 0.43
200 99 0.28
201 37 0.11
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (200 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AATTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAG
ATAATTTCTTTTGAAACAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAA
GATAA
Found at i:112615 original size:65 final size:64
Alignment explanation
Indices: 112532--112654 Score: 176
Period size: 65 Copynumber: 1.9 Consensus size: 64
112522 GTGATCCATC
* *
112532 TTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGAC-ATTTCTTTTGAGAAATTTTTT
1 TTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTT-AAGACAACTTCTTTTGA-AAATTTTTT
112596 T
64 T
* * *
112597 TTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTTGAGACAACTTCTTTTGAAAAT
1 TTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAGACAACTTCTTTTGAAAAT
112655 ACCCATCTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 8 0.15
65 44 0.85
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (64 bp):
TTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAGACAACTTCTTTTGAAAATTTTTTT
Found at i:112730 original size:67 final size:65
Alignment explanation
Indices: 112596--112754 Score: 162
Period size: 67 Copynumber: 2.4 Consensus size: 65
112586 GAAATTTTTT
* * **
112596 TTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTTGAGACAACTTCTTTTGAAAATACCCAT
1 TTTGAGTTTGTTT-CTTTAAAACAAAATTTTGTCCCTTGAGACAACTTCTTTTGAAAATACAAAT
112661 C
65 C
* *
112662 TTTGAGATTGTTTCTATTAAAAC-AAATTTTGTATCCCTTGAGACAA-TT-TTTTCTAGAAATAC
1 TTTGAGTTTGTTTCT-TTAAAACAAAATTTTG--TCCCTTGAGACAACTTCTTTT-GA-AAATAC
112724 AAATC
61 AAATC
* * *
112729 TTTAAGTTTGTTTCTCTAAAATAAAA
1 TTTGAGTTTGTTTCTTTAAAACAAAA
112755 ACTATCTTTG
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
65 14 0.18
66 26 0.34
67 37 0.48
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (65 bp):
TTTGAGTTTGTTTCTTTAAAACAAAATTTTGTCCCTTGAGACAACTTCTTTTGAAAATACAAATC
Found at i:112958 original size:35 final size:35
Alignment explanation
Indices: 112885--112980 Score: 106
Period size: 35 Copynumber: 2.7 Consensus size: 35
112875 TTTTGGAAAA
*** *
112885 ATCTTTGAGTTTGTTTCT-TTGGAAACAAATTTACC
1 ATCTTTGAGTTTGTTTCTCTT-GAAACAAAACAAAC
112920 ATCTTTGAGTTTGTTTCTCTTGAAACAAAACAAAC
1 ATCTTTGAGTTTGTTTCTCTTGAAACAAAACAAAC
* *
112955 ATCTTTGAGATCGTTTC-CTTTGAAAC
1 ATCTTTGAGTTTGTTTCTC-TTGAAAC
112981 GAATTTTGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
34 1 0.02
35 50 0.94
36 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (35 bp):
ATCTTTGAGTTTGTTTCTCTTGAAACAAAACAAAC
Found at i:113276 original size:40 final size:40
Alignment explanation
Indices: 113232--113422 Score: 152
Period size: 40 Copynumber: 4.5 Consensus size: 40
113222 CAGCCGTCCC
* * *
113232 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCT
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCT
* ** * *
113272 TCATCACGTATGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTATGAGCCGTGTCATCCCCAG---ACCAGATC-TCT
* * * * *
113315 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTATGAGCCGTGTCATC-CC--CAGA---CCAGATCTCT
113361 TCATCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCT
1 TCATCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCT
113401 TCATCACGTATGAGCCGTGTCA
1 TCATCACGTATGAGCCGTGTCA
113423 CCCTTAGATA
Statistics
Matches: 119, Mismatches: 20, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
40 54 0.45
42 1 0.01
43 30 0.25
44 1 0.01
46 30 0.25
47 3 0.03
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (40 bp):
TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCT
Found at i:113319 original size:43 final size:44
Alignment explanation
Indices: 113261--113511 Score: 151
Period size: 46 Copynumber: 5.8 Consensus size: 44
113251 TCATCCCCAG
* * *
113261 ACCAGATCTCTTCATCACGTATGAGCCGTGTCA-ACCATAGATA
1 ACCAGACCTCCTCATCACGTATGAGCCGTGTCATACCTTAGATA
* * * *
113304 ACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTATGAGCCGTGTCAT-ACC-TTAGATA
* * * * **
113350 GCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCC-CCG---
1 ACCAGACCTCCTCATCACGTATGAGCCGTGTCATACCTTAGATA
* * *
113390 ACCAGATCTCTTCATCACGTATGAGCCGTGTCA-CCCTTAGATA
1 ACCAGACCTCCTCATCACGTATGAGCCGTGTCATACCTTAGATA
* * * * *
113433 ACCAG-CCGTCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTATGAGCCGTGTCAT-ACC-TTAGATA
* * * *
113479 GCCAAGAACTCTTC-TCACGTAGGAGCCGTGTCA
1 ACC-AGACCTCCTCATCACGTATGAGCCGTGTCA
113512 CCTTTAGACG
Statistics
Matches: 158, Mismatches: 35, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
39 2 0.01
40 32 0.20
42 2 0.01
43 52 0.33
45 7 0.04
46 55 0.35
47 7 0.04
48 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
ACCAGACCTCCTCATCACGTATGAGCCGTGTCATACCTTAGATA
Found at i:113367 original size:46 final size:45
Alignment explanation
Indices: 113315--113542 Score: 169
Period size: 46 Copynumber: 5.2 Consensus size: 45
113305 CCAGCCGTCC
*
113315 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTG-TATCACCTTTAGATGGCCAGAACTCT
* * *
113361 TCATCACGTATGAGCCGTGTCATTC-CC---CGA---CCAGATCTCT
1 TCATCACGTAGGAGCCGTGT-A-TCACCTTTAGATGGCCAGAACTCT
* * ** * *
113401 TCATCACGTATGAGCCGTG--TCACCCTTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTATCACCTTTAGATGGCCAGAAC-TCT
* *
113444 TCATCACGTAGGAACTGTGTTATCACCTTTAGATGGCCAAGAACTCT
1 TCATCACGTAGGAGCCGTG-TATCACCTTTAGATGGCC-AGAACTCT
* *
113491 TC-TCACGTAGGAGCCGTG--TCACCTTTAGACGACCCA-AACTCT
1 TCATCACGTAGGAGCCGTGTATCACCTTTAGATG-GCCAGAACTCT
113533 TCATCACGTA
1 TCATCACGTA
113543 TGAGTAGTCG
Statistics
Matches: 146, Mismatches: 19, Indels: 37
0.72 0.09 0.18
Matches are distributed among these distances:
36 2 0.01
37 2 0.01
40 30 0.21
42 9 0.06
43 44 0.30
44 2 0.01
45 1 0.01
46 47 0.32
47 8 0.05
48 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
TCATCACGTAGGAGCCGTGTATCACCTTTAGATGGCCAGAACTCT
Found at i:113372 original size:89 final size:84
Alignment explanation
Indices: 113221--113382 Score: 227
Period size: 89 Copynumber: 1.9 Consensus size: 84
113211 CTAAAGATGG
* *
113221 CCAGCCGTCCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAG
1 CCAGCCGTCCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAG
113286 CCGTGTCAACCATAGATAA
66 CCGTGTCAACCATAGATAA
* *
113305 CCAGCCGT-CCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACG
1 CCAGCCGTCCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGAACTCTTCATCACG
113369 TATGAGCCGTGTCA
60 TATGAGCCGTGTCA
113383 TTCCCCGACC
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
83 24 0.35
84 10 0.15
86 3 0.04
89 31 0.46
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (84 bp):
CCAGCCGTCCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAG
CCGTGTCAACCATAGATAA
Found at i:113464 original size:129 final size:130
Alignment explanation
Indices: 113232--113511 Score: 476
Period size: 129 Copynumber: 2.2 Consensus size: 130
113222 CAGCCGTCCC
* *
113232 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACC
1 TCATCACGTAGGAGCCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACC
113297 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCT
66 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCT
* *
113361 TCATCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCTTCATCACGTATGAGCCGTGTCACC
1 TCATCACGTAGGAGCCGTGTCA-TCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAAC
* *
113425 CTTAGATAACCAGCCGTCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATGGCCAAGAACTC
65 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTC
113490 T
130 T
113491 TC-TCACGTAGGAGCCGTGTCA
1 TCATCACGTAGGAGCCGTGTCA
113512 CCTTTAGACG
Statistics
Matches: 142, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
129 127 0.89
130 15 0.11
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (130 bp):
TCATCACGTAGGAGCCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACC
ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCT
Found at i:113540 original size:43 final size:44
Alignment explanation
Indices: 113262--113542 Score: 163
Period size: 43 Copynumber: 6.5 Consensus size: 44
113252 CATCCCCAGA
* * * * *
113262 CCAGATCTCTTCATCACGTATGAGCCGTGTCAACC-ATAGA-TAA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTC-ACCTTTAGACGAC
* * * * *
113305 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATG-G
1 CCAGAAC-TCTTCATCACGTAGGAGCCGTG---TCACCTTTAGACGAC
* ***
113351 CCAGAACTCTTCATCACGTATGAGCCGTGTCA---TTCCCCGA-
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCACCTTTAGACGAC
* * * * *
113391 CCAGATCTCTTCATCACGTATGAGCCGTGTCACCCTTAGA-TAA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCACCTTTAGACGAC
* * * * * *
113434 CCAG-CCGTCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATGGC
1 CCAGAAC-TCTTCATCACGTAGGAGCCGTG---TCACCTTTAGACGAC
*
113481 CAAGAACTCTTC-TCACGTAGGAGCCGTGTCACCTTTAGACGAC
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCACCTTTAGACGAC
113524 CCA-AACTCTTCATCACGTA
1 CCAGAACTCTTCATCACGTA
113543 TGAGTAGTCG
Statistics
Matches: 182, Mismatches: 37, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
40 34 0.19
42 11 0.06
43 72 0.40
45 3 0.02
46 53 0.29
47 8 0.04
48 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (44 bp):
CCAGAACTCTTCATCACGTAGGAGCCGTGTCACCTTTAGACGAC
Found at i:113565 original size:129 final size:128
Alignment explanation
Indices: 113232--113546 Score: 393
Period size: 129 Copynumber: 2.4 Consensus size: 128
113222 CAGCCGTCCC
* * * * * *
113232 TCATCATGTAGGAACCGTGTCA-TCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAAC
1 TCATCACGTAGGAGCCGTGTCATTACAC-GACCAGAACTCTTCATCACGTATGAGCAGTGTC-AC
* *
113296 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
64 CCTAGACAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* * * * *
113361 TCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCC
1 TCATCACGTAGGAGCCGTGTCATTACACGACCAGAACTCTTCATCACGTATGAGCAGTGTCACCC
* *
113426 TTAGATAACCAGCCGTCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATGGCCAAGAACTCT
66 -TAGACAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCT
*
113491 TC-TCACGTAGGAGCCGTGTCACCTTTAGACGACCCA-AACTCTTCATCACGTATGAG
1 TCATCACGTAGGAGCCGTGTCA---TTACACGA-CCAGAACTCTTCATCACGTATGAG
113547 TAGTCGTCCC
Statistics
Matches: 169, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
128 3 0.02
129 124 0.73
130 15 0.09
132 24 0.14
133 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (128 bp):
TCATCACGTAGGAGCCGTGTCATTACACGACCAGAACTCTTCATCACGTATGAGCAGTGTCACCC
TAGACAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:113719 original size:3 final size:3
Alignment explanation
Indices: 113713--113767 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
113703 CGTTATTTTT
** *
113713 TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TT- TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
113758 TTTA TTA TTA
1 -TTA TTA TTA
113768 CAAATTTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 5 0.12
3 35 0.81
4 3 0.07
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Done.