Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_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: 6984689
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 29
Found at i:5843157 original size:84 final size:83
Alignment explanation
Indices: 5843003--5843164 Score: 229
Period size: 84 Copynumber: 1.9 Consensus size: 83
5842993 TGCACTAAGA
* * *
5843003 GTGCATCGATGCATGAAGTGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTAG
1 GTGCATCGATGCATCAAATGCATTCAATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTAG
5843068 TGCATCGATGCATGGCTT
66 TGCATCGATGCATGGCTT
* * *
5843086 GTGCATCGATGTATCAAATGCATTCAATGTTTTCATAA-AGCCCTGAGTGCATCTATGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCAATG-TTTCAAAATAG-CCTGAGTGCATCGATGCATGGCT
5843149 ATGTGCATCGATGCAT
64 A-GTGCATCGATGCAT
5843165 AAAATGCATT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
83 29 0.41
84 41 0.59
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (83 bp):
GTGCATCGATGCATCAAATGCATTCAATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTAG
TGCATCGATGCATGGCTT
Found at i:5843219 original size:20 final size:20
Alignment explanation
Indices: 5843194--5843269 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
5843184 TTTTATTTCA
*
5843194 TGGTGCATCGATGCATGGAT
1 TGGTGCATCGGTGCATGGAT
5843214 TGGTGCATCGGTGCATGGAT
1 TGGTGCATCGGTGCATGGAT
*
5843234 TGGTGTATCGGTGCATGGAT
1 TGGTGCATCGGTGCATGGAT
*
5843254 TGATGCATCGGTGCAT
1 TGGTGCATCGGTGCAT
5843270 CACTTTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.17, C:0.14, G:0.37, T:0.32
Consensus pattern (20 bp):
TGGTGCATCGGTGCATGGAT
Found at i:5843220 original size:65 final size:63
Alignment explanation
Indices: 5843066--5843229 Score: 161
Period size: 65 Copynumber: 2.5 Consensus size: 63
5843056 ATGCATGGCT
* * *
5843066 AGTGCATCGATGCATGGCTTGTGCATCGATGTATCAAATGCATTCAATGTTTTCATAAAGCCCTG
1 AGTGCATCGATGCATGG-TTGTGCATCGATGCATAAAATGCATTCAATGTTTT-ATAAAGCCATG
* * * ***
5843131 AGTGCATCTATGCATGGTATGTGCATCGATGCATAAAATGCATTCGATGTTCATT-TTATTTCAT
1 AGTGCATCGATGCATGGT-TGTGCATCGATGCATAAAATGCATTCAATGTT--TTATAAAGCCAT
5843195 G
63 G
*
5843196 -GTGCATCGATGCATGGATTGGTGCATCGGTGCAT
1 AGTGCATCGATGCATGG-TT-GTGCATCGATGCAT
5843230 GGATTGGTGT
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
64 17 0.20
65 64 0.77
67 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (63 bp):
AGTGCATCGATGCATGGTTGTGCATCGATGCATAAAATGCATTCAATGTTTTATAAAGCCATG
Found at i:5844140 original size:20 final size:20
Alignment explanation
Indices: 5844086--5844141 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
5844076 GTTACATTAT
** *
5844086 ATTTTTATTGAATTTTATTT
1 ATTTTTATTCTATTTTATTC
*
5844106 ATTTTAATTCT-TTTTATTGC
1 ATTTTTATTCTATTTTATT-C
5844126 ATTTTTATT-TATTTTA
1 ATTTTTATTCTATTTTA
5844142 AAAAAGTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (20 bp):
ATTTTTATTCTATTTTATTC
Found at i:5845342 original size:4 final size:4
Alignment explanation
Indices: 5845333--5845452 Score: 60
Period size: 4 Copynumber: 28.0 Consensus size: 4
5845323 GGAAGTAATT
* * * *
5845333 TTTA TTTA TTTTAA ATTA TTTA TTTA TTTA TTCA TTTA TTTCAA ATGA
1 TTTA TTTA -TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTT--A TTTA
* * * *** *
5845381 TGTA TTGA TTTA TTGA TTTA TTTCAA AAAA TTTA TTTA TTAA TTTA TTTCAA
1 TTTA TTTA TTTA TTTA TTTA TTT--A TTTA TTTA TTTA TTTA TTTA TTT--A
*
5845433 ATTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA
5845453 ATTGAAGGGG
Statistics
Matches: 84, Mismatches: 24, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
4 72 0.86
5 5 0.06
6 7 0.08
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (4 bp):
TTTA
Found at i:5845369 original size:26 final size:26
Alignment explanation
Indices: 5845333--5845452 Score: 114
Period size: 26 Copynumber: 4.3 Consensus size: 26
5845323 GGAAGTAATT
*
5845333 TTTATTTATTTTAAATTATTTATTTA
1 TTTATTTATTTCAAATTATTTATTTA
*
5845359 TTTATTCATTTATTTCAAATGATGTATTGATTTA
1 --T-TT-ATTTATTTC-AA--AT-TATTTATTTA
* **
5845393 TTGATTTATTTCAAAAAATTTATTTA
1 TTTATTTATTTCAAATTATTTATTTA
*
5845419 TTAATTTATTTCAAATTATTTATTTA
1 TTTATTTATTTCAAATTATTTATTTA
5845445 TTTATTTA
1 TTTATTTA
5845453 ATTGAAGGGG
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
26 38 0.50
27 1 0.01
28 1 0.01
29 4 0.05
30 17 0.22
31 3 0.04
32 1 0.01
33 2 0.03
34 9 0.12
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (26 bp):
TTTATTTATTTCAAATTATTTATTTA
Found at i:5845372 original size:30 final size:30
Alignment explanation
Indices: 5845336--5845455 Score: 140
Period size: 30 Copynumber: 4.1 Consensus size: 30
5845326 AGTAATTTTT
* *
5845336 ATTTATTTTAAATTATTTATTTATTTATTC
1 ATTTATTTCAAATTATTTATTTATTTATTA
* * * *
5845366 ATTTATTTCAAATGATGTATTGATTTATTG
1 ATTTATTTCAAATTATTTATTTATTTATTA
*
5845396 ATTTATTTCAAA--A--AATTTATTTATTA
1 ATTTATTTCAAATTATTTATTTATTTATTA
5845422 ATTTATTTCAAATTATTTATTTATTTATTTA
1 ATTTATTTCAAATTATTTATTTATTTA-TTA
5845453 ATT
1 ATT
5845456 GAAGGGGTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
26 22 0.29
28 2 0.03
30 46 0.61
31 6 0.08
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (30 bp):
ATTTATTTCAAATTATTTATTTATTTATTA
Found at i:5845437 original size:22 final size:24
Alignment explanation
Indices: 5845354--5845451 Score: 83
Period size: 22 Copynumber: 3.8 Consensus size: 24
5845344 TAAATTATTT
*
5845354 ATTTATTTATTCATTTATTTCAAA
1 ATTTATTTATTAATTTATTTCAAA
*
5845378 TGATGTATTGATTTATTGATTTATTTCAAAAA
1 --A--T-TT-ATTTATTAATTTATTTC--AAA
5845410 ATTTATTTATTAATTTATTTC-AA
1 ATTTATTTATTAATTTATTTCAAA
*
5845433 A-TTATTTATTTATTTATTT
1 ATTTATTTATTAATTTATTT
5845452 AATTGAAGGG
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
22 17 0.27
23 3 0.05
26 17 0.27
27 2 0.03
28 2 0.03
29 2 0.03
30 17 0.27
32 3 0.05
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (24 bp):
ATTTATTTATTAATTTATTTCAAA
Found at i:5850137 original size:11 final size:11
Alignment explanation
Indices: 5850121--5850147 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5850111 GGTATTATAT
5850121 TTATTGTTATG
1 TTATTGTTATG
5850132 TTATTGTTATG
1 TTATTGTTATG
5850143 TTATT
1 TTATT
5850148 TTAATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (11 bp):
TTATTGTTATG
Found at i:5850181 original size:16 final size:15
Alignment explanation
Indices: 5850152--5850185 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
5850142 GTTATTTTAA
*
5850152 TTATTTGACTAGGAT
1 TTATTTGACAAGGAT
5850167 TTATTGTGACAAGGAT
1 TTATT-TGACAAGGAT
5850183 TTA
1 TTA
5850186 GTCGAACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (15 bp):
TTATTTGACAAGGAT
Found at i:5850231 original size:83 final size:84
Alignment explanation
Indices: 5850127--5850289 Score: 265
Period size: 83 Copynumber: 2.0 Consensus size: 84
5850117 ATATTTATTG
* * *
5850127 TTATGTTATTGTTATGTTATTTTAATTATTTGACTAGGATTTATTGTGACAAGGATTTAGTCGAA
1 TTATGTTATTGTTATGTTATTTTAATTATATGACTAGGATTTACTATGACAAGGATTTAGTCGAA
*
5850192 CATAGAGAAAGAACCATTA
66 CATAAAGAAAGAACCATTA
* *
5850211 TTATGTTATT-TTATGTTATTTTAATTCTATGACTAGGATTTACTATGACAAGGATTTAGTTGAA
1 TTATGTTATTGTTATGTTATTTTAATTATATGACTAGGATTTACTATGACAAGGATTTAGTCGAA
5850275 CATAAAGAAAGAACC
66 CATAAAGAAAGAACC
5850290 GGACAGTCGA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 63 0.86
84 10 0.14
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (84 bp):
TTATGTTATTGTTATGTTATTTTAATTATATGACTAGGATTTACTATGACAAGGATTTAGTCGAA
CATAAAGAAAGAACCATTA
Found at i:5850256 original size:16 final size:16
Alignment explanation
Indices: 5850237--5850268 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5850227 TATTTTAATT
*
5850237 CTATGACTAGGATTTA
1 CTATGACAAGGATTTA
5850253 CTATGACAAGGATTTA
1 CTATGACAAGGATTTA
5850269 GTTGAACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (16 bp):
CTATGACAAGGATTTA
Found at i:5851627 original size:2 final size:2
Alignment explanation
Indices: 5851620--5851645 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5851610 ATTTAAACTA
5851620 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
5851646 TAAAACTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5861381 original size:21 final size:21
Alignment explanation
Indices: 5861356--5861423 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
5861346 AAATTGCTTG
5861356 TTTAAGTAGGCATAAACCTGT
1 TTTAAGTAGGCATAAACCTGT
***
5861377 TTTAAG--GG-A-AATGTTGCT
1 TTTAAGTAGGCATAAACCTG-T
5861395 TGTTTAAGTAGGCATAAACCTGT
1 T--TTAAGTAGGCATAAACCTGT
5861418 TTTAAG
1 TTTAAG
5861424 GGAAATGTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
17 4 0.12
18 3 0.09
19 2 0.06
20 5 0.15
21 11 0.32
22 2 0.06
23 3 0.09
24 4 0.12
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (21 bp):
TTTAAGTAGGCATAAACCTGT
Found at i:5861406 original size:41 final size:41
Alignment explanation
Indices: 5861349--5861432 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
5861339 TGAATTTAAA
5861349 TTGCTTGTTTAAGTAGGCATAAACCTGTTTTAAGGGAAATG
1 TTGCTTGTTTAAGTAGGCATAAACCTGTTTTAAGGGAAATG
5861390 TTGCTTGTTTAAGTAGGCATAAACCTGTTTTAAGGGAAATG
1 TTGCTTGTTTAAGTAGGCATAAACCTGTTTTAAGGGAAATG
5861431 TT
1 TT
5861433 ATCTAGTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (41 bp):
TTGCTTGTTTAAGTAGGCATAAACCTGTTTTAAGGGAAATG
Found at i:5866756 original size:26 final size:26
Alignment explanation
Indices: 5866678--5866757 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 26
5866668 GAACAAGTGT
5866678 TTAATTTAAACTAAACTACTTAGTAG
1 TTAATTTAAACTAAACTACTTAGTAG
* * *
5866704 TT-ATCCTT-ATCT-AACTTTCTAAG-AG
1 TTAAT--TTAAACTAAAC-TACTTAGTAG
5866729 TTAATTTAAACTAAACTACTTAGTAG
1 TTAATTTAAACTAAACTACTTAGTAG
5866755 TTA
1 TTA
5866758 TCTTTATCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
24 2 0.05
25 17 0.41
26 20 0.49
27 2 0.05
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (26 bp):
TTAATTTAAACTAAACTACTTAGTAG
Found at i:5866768 original size:26 final size:26
Alignment explanation
Indices: 5866688--5866768 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
5866678 TTAATTTAAA
*
5866688 CTAAACTACTTAGTAGTTATCCTTAT
1 CTAAACTACTTAGTAGTTATCTTTAT
* * * *
5866714 CT-AACTTTCTAAG-AGTTAAT-TTAAA
1 CTAAAC-TACTTAGTAGTT-ATCTTTAT
5866739 CTAAACTACTTAGTAGTTATCTTTAT
1 CTAAACTACTTAGTAGTTATCTTTAT
5866765 CTAA
1 CTAA
5866769 CTTGCAGATT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
25 18 0.44
26 23 0.56
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (26 bp):
CTAAACTACTTAGTAGTTATCTTTAT
Found at i:5874501 original size:21 final size:20
Alignment explanation
Indices: 5874477--5874574 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
5874467 ATCAGTTTCC
5874477 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* *
5874498 AAAATCGCAATGCGATAGTAT-
1 AAAATCGCAACGCGAT--TTTG
* ** *
5874519 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-G
* *
5874540 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
5874560 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
5874575 ACACATAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.03
20 15 0.24
21 43 0.69
22 1 0.02
23 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:5874565 original size:20 final size:20
Alignment explanation
Indices: 5874476--5874593 Score: 78
Period size: 21 Copynumber: 5.8 Consensus size: 20
5874466 AATCAGTTTC
* *
5874476 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGAAT-AT
* *
5874497 GAAAATCGCAATGCGATAGTAT
1 CAAAATCGCAACGCGA-A-TAT
* ** * *
5874519 -AAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGAATAT
5874538 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGAATAT
* *
5874559 GAAAATCGCAACGCGAACA-
1 CAAAATCGCAACGCGAATAT
5874578 CATAAATCGCAACGCG
1 CA-AAATCGCAACGCG
5874594 TATCCGTAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
19 3 0.04
20 30 0.39
21 41 0.54
22 1 0.01
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGAATAT
Found at i:5874603 original size:20 final size:20
Alignment explanation
Indices: 5874541--5874733 Score: 228
Period size: 20 Copynumber: 9.7 Consensus size: 20
5874531 CGATTTTCCA
* ** *
5874541 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
5874561 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
5874581 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
5874601 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
5874621 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
5874641 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
5874661 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
5874681 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* *
5874701 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCGTATCCGT
5874721 AAATCGCAACGCG
1 AAATCGCAACGCG
5874734 ATATTTAAAG
Statistics
Matches: 148, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 144 0.97
21 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:5875257 original size:20 final size:20
Alignment explanation
Indices: 5875233--5875307 Score: 98
Period size: 19 Copynumber: 3.8 Consensus size: 20
5875223 TGCAGAAGAG
***
5875233 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
5875253 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
*
5875274 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
5875293 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
5875308 CGCAACGCGA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 18 0.38
20 15 0.31
21 15 0.31
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:5875348 original size:19 final size:19
Alignment explanation
Indices: 5875326--5875409 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
5875316 GAAACCAAAA
*
5875326 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
5875345 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
5875364 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
5875378 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
5875397 TCGCGTTGCGATT
1 TCGCGTTGCGATT
5875410 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 3 0.05
19 41 0.73
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5875386 original size:14 final size:14
Alignment explanation
Indices: 5875367--5875423 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
5875357 TTTCATTTCG
5875367 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5875381 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
5875400 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
5875414 CGTTGCGATT
1 CGTTGCGATT
5875424 TTCATTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.25, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5875390 original size:33 final size:33
Alignment explanation
Indices: 5875348--5875431 Score: 159
Period size: 33 Copynumber: 2.5 Consensus size: 33
5875338 TTTCATTTCG
5875348 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
5875381 CGTTGCGATTGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
5875414 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
5875432 AACCCAAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:5877268 original size:93 final size:93
Alignment explanation
Indices: 5877109--5877577 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
5877099 TAGATTGCTT
*
5877109 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5877174 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
5877202 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5877267 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
5877295 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5877360 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
5877388 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5877453 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
5877481 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
5877546 TTTGTCTTTGTTTTGTCTATTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
5877573 AGTAA
1 AGTAA
5877578 TGCAATCCAT
Statistics
Matches: 372, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 366 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:5877665 original size:19 final size:19
Alignment explanation
Indices: 5877625--5877753 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
5877615 TAGTTTACTT
* *
5877625 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
5877645 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
5877664 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
5877683 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
5877697 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
5877716 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
5877730 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
5877749 TCGCA
1 TCGCA
5877754 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:5877704 original size:33 final size:32
Alignment explanation
Indices: 5877661--5877753 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
5877651 CGCGAAACCA
**
5877661 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
5877693 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
5877726 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
5877754 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:5877751 original size:52 final size:52
Alignment explanation
Indices: 5877625--5877753 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
5877615 TAGTTTACTT
**
5877625 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
5877677 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
5877730 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
5877754 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:5877771 original size:19 final size:18
Alignment explanation
Indices: 5877749--5877867 Score: 110
Period size: 19 Copynumber: 6.8 Consensus size: 18
5877739 GAAACCAAAA
*
5877749 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
5877768 TCGCGTTGCGA--TTCTT
1 TCGCGTTGCGATTTTCTT
*
5877784 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
*
5877801 TCGCGTTGCGA--TTCTG
1 TCGCGTTGCGATTTTCTT
5877817 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
5877834 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
5877853 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
5877868 AAGTTTCGTG
Statistics
Matches: 83, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
14 16 0.19
16 10 0.12
17 10 0.12
19 47 0.57
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:5877790 original size:14 final size:14
Alignment explanation
Indices: 5877771--5877827 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
5877761 TTTCATTTCG
5877771 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
*
5877785 CGTTGCGATTTTGGTTT
1 CGTTGCGA--TT-CTTT
*
5877802 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
5877818 CGTTGCGATT
1 CGTTGCGATT
5877828 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.51
16 4 0.11
17 5 0.14
19 8 0.23
ACGTcount: A:0.07, C:0.19, G:0.28, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:5877796 original size:33 final size:33
Alignment explanation
Indices: 5877754--5877846 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
5877744 CAAAATCGCA
*
5877754 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
**
5877787 TTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
5877820 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
5877847 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:5877875 original size:20 final size:19
Alignment explanation
Indices: 5877749--5877883 Score: 105
Period size: 19 Copynumber: 7.6 Consensus size: 19
5877739 GAAACCAAAA
*
5877749 TCGCATTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
5877768 TCGCGTTGCGA--TT-CTT
1 TCGCGTTGCGATTTTAGTT
*
5877784 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
*
5877801 TCGCGTTGCGATTCT-G--
1 TCGCGTTGCGATTTTAGTT
5877817 T--CGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
5877834 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
5877853 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-AGTT
*
5877873 TCGTGTTGCGA
1 TCGCGTTGCGA
5877884 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 7, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
14 19 0.20
16 6 0.06
17 6 0.06
18 1 0.01
19 50 0.53
20 13 0.14
ACGTcount: A:0.10, C:0.19, G:0.26, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGTT
Found at i:5879827 original size:14 final size:14
Alignment explanation
Indices: 5879808--5879843 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
5879798 ATTGTTTAAT
5879808 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
5879822 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
5879836 TGATTTGT
1 TGATTTGT
5879844 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:5879962 original size:19 final size:19
Alignment explanation
Indices: 5879946--5880043 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
5879936 AAAAATGACT
5879946 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
5879965 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
5879984 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
5879998 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
5880017 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
5880037 ATCGCAA
1 ATCGCAA
5880044 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:5880075 original size:53 final size:53
Alignment explanation
Indices: 5879946--5880062 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
5879936 AAAAATGACT
5879946 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
5879998 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
5880051 ATCGCAATGCGA
1 ATCGCAATGCGA
5880063 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:5880080 original size:19 final size:19
Alignment explanation
Indices: 5880052--5880273 Score: 250
Period size: 19 Copynumber: 12.7 Consensus size: 19
5880042 AACGAGAGAA
*
5880052 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5880071 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5880090 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
5880106 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5880123 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5880142 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
5880158 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5880175 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5880194 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
5880210 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
5880227 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
5880245 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
5880261 TCGCATTGCGATT
1 TCGCATTGCGATT
5880274 CTCTCGTTGC
Statistics
Matches: 173, Mismatches: 9, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 33 0.19
16 19 0.11
17 16 0.09
18 3 0.02
19 91 0.53
20 11 0.06
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:5880115 original size:52 final size:52
Alignment explanation
Indices: 5880058--5880245 Score: 340
Period size: 52 Copynumber: 3.6 Consensus size: 52
5880048 AGAATCGCAA
5880058 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
5880110 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
5880162 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
5880214 TGCGATTTTTATTTCCGCATTGCGATTTTCAT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCAT
5880246 GTTGGGATTT
Statistics
Matches: 132, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 115 0.87
53 17 0.13
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
Found at i:5880295 original size:33 final size:33
Alignment explanation
Indices: 5880076--5880287 Score: 207
Period size: 33 Copynumber: 6.2 Consensus size: 33
5880066 TCATTTCGCA
*
5880076 TTGCGATTTTCATTTCGCATTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
5880109 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
5880145 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
*
5880180 TTGCGATTTTCATTTCGCATTGCGATTTTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
5880213 TTGCGATTTTTATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
5880247 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
5880280 TTGCGATT
1 TTGCGATT
5880288 GTAATTTCCG
Statistics
Matches: 147, Mismatches: 18, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
31 9 0.06
32 6 0.04
33 72 0.49
34 29 0.20
35 5 0.03
36 4 0.03
37 2 0.01
38 8 0.05
39 3 0.02
40 9 0.06
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:5882608 original size:12 final size:12
Alignment explanation
Indices: 5882591--5882615 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5882581 TCTTCGGGGA
5882591 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5882603 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5882615 C
1 C
5882616 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:5882824 original size:24 final size:24
Alignment explanation
Indices: 5882790--5882836 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5882780 CTGAAACATC
5882790 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
5882814 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
5882837 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:5883573 original size:20 final size:20
Alignment explanation
Indices: 5883548--5883792 Score: 267
Period size: 20 Copynumber: 12.2 Consensus size: 20
5883538 TGCCCTACCG
* *
5883548 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
**
5883568 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
**
5883588 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
*
5883608 GATTTACGGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
**
5883628 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
*
5883648 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* * *
5883668 GATATACGGATACGCATTGC
1 GATTTACGGATTCGCGTTGC
** *
5883688 GATTTACCCATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* *
5883708 GATTTACGGATACACGTTGC
1 GATTTACGGATTCGCGTTGC
*
5883728 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
*
5883748 GATTTATGTG-TTCGCGTTGC
1 GATTTACG-GATTCGCGTTGC
* **
5883768 GATTTTCATATTCGCGTTGC
1 GATTTACGGATTCGCGTTGC
5883788 GATTT
1 GATTT
5883793 TGGAAAATCG
Statistics
Matches: 200, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 199 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GATTTACGGATTCGCGTTGC
Found at i:5883809 original size:21 final size:21
Alignment explanation
Indices: 5883779--5883861 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
5883769 ATTTTCATAT
*
5883779 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
5883800 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
5883821 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
5883842 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
5883862 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:5883852 original size:42 final size:43
Alignment explanation
Indices: 5883759--5883857 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
5883749 ATTTATGTGT
* *
5883759 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
5883800 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
5883842 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
5883858 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:5884628 original size:24 final size:24
Alignment explanation
Indices: 5884601--5884650 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
5884591 TCATAAGAAA
*
5884601 TTAATCAAAGGTCTTTGAATTTTT
1 TTAATCAAAGGTCTATGAATTTTT
5884625 TTAATCAAAGGTCTATGAATTTTT
1 TTAATCAAAGGTCTATGAATTTTT
5884649 TT
1 TT
5884651 TAGTAAGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (24 bp):
TTAATCAAAGGTCTATGAATTTTT
Found at i:5884684 original size:18 final size:19
Alignment explanation
Indices: 5884642--5884684 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
5884632 AAGGTCTATG
*
5884642 AATTTTTTTTAGTAAGAGT
1 AATTTTATTTAGTAAGAGT
*
5884661 AA-TTTATTTAGTAATA-T
1 AATTTTATTTAGTAAGAGT
5884678 AATTTTA
1 AATTTTA
5884685 GTACGTGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 3 0.14
18 16 0.76
19 2 0.10
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (19 bp):
AATTTTATTTAGTAAGAGT
Found at i:5884718 original size:26 final size:27
Alignment explanation
Indices: 5884672--5884724 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5884662 ATTTATTTAG
5884672 TAATATAATTTTAGTACGTGACATTAA
1 TAATATAATTTTAGTACGTGACATTAA
* * *
5884699 TAATATATTTTTA-TATGTGATATTAA
1 TAATATAATTTTAGTACGTGACATTAA
5884725 ACAGAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (27 bp):
TAATATAATTTTAGTACGTGACATTAA
Found at i:5887534 original size:33 final size:33
Alignment explanation
Indices: 5887494--5887571 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
5887484 CACCTAAACC
5887494 ACCTCCAACTCCGCCGCCAATTCAACCACCTAG
1 ACCTCCAACTCCGCCGCCAATTCAACCACCTAG
* * * ** *
5887527 ACCTCCAAGTCCGCTGCCAGTTCTGCCGCCTAG
1 ACCTCCAACTCCGCCGCCAATTCAACCACCTAG
5887560 ACCTCCAACTCC
1 ACCTCCAACTCC
5887572 ATCGCCTAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.22, C:0.47, G:0.13, T:0.18
Consensus pattern (33 bp):
ACCTCCAACTCCGCCGCCAATTCAACCACCTAG
Found at i:5890453 original size:20 final size:21
Alignment explanation
Indices: 5890430--5890478 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
5890420 AATAATTTTC
*
5890430 TTTTGAAAAAAAAAATTAA-A
1 TTTTGAAAAAAAAAATGAAGA
*
5890450 TTTTG-AAAAACAAATGAAGA
1 TTTTGAAAAAAAAAATGAAGA
5890470 TTTTGAAAA
1 TTTTGAAAA
5890479 TTGATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 11 0.44
21 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (21 bp):
TTTTGAAAAAAAAAATGAAGA
Found at i:5890458 original size:19 final size:20
Alignment explanation
Indices: 5890430--5890478 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
5890420 AATAATTTTC
*
5890430 TTTTGAAAAAAAAAATTAA-A
1 TTTTG-AAAAAAAAATGAAGA
*
5890450 TTTTGAAAAACAAATGAAGA
1 TTTTGAAAAAAAAATGAAGA
5890470 TTTTGAAAA
1 TTTTGAAAA
5890479 TTGATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (20 bp):
TTTTGAAAAAAAAATGAAGA
Found at i:5892049 original size:20 final size:20
Alignment explanation
Indices: 5892020--5892074 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
5892010 CATGTTCTTG
5892020 GTTTCGAAACCC-TCTGACTA
1 GTTTCGAAACCCAT-TGACTA
* *
5892040 GTTTCTAAACCCATTGACTG
1 GTTTCGAAACCCATTGACTA
*
5892060 GTTTCAAAAACCCAT
1 GTTTC-GAAACCCAT
5892075 ATTCCAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (20 bp):
GTTTCGAAACCCATTGACTA
Found at i:5892687 original size:60 final size:59
Alignment explanation
Indices: 5892562--5892696 Score: 153
Period size: 60 Copynumber: 2.2 Consensus size: 59
5892552 AGTCGGATGG
* * * * *
5892562 CCATTTTGTAACTTTTAATAGTTGAGGGACTCAACAAAGCAACGCCTTATAATTGGGGGA
1 CCATTTTGT-ACTTTTAATAGTTAAGGGACTCAACAAAGCAACACCTCATAATCGAGGGA
* * * * *
5892622 TCATTTTGTAGCTTTTAATAGTTAAGGGACTCATCAAAGTAATACCTCATAGTCGAGGGA
1 CCATTTTGTA-CTTTTAATAGTTAAGGGACTCAACAAAGCAACACCTCATAATCGAGGGA
5892682 CCATTTATGTACTTT
1 CCATTT-TGTACTTT
5892697 ACCATATTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 1 0.02
60 57 0.92
61 4 0.06
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (59 bp):
CCATTTTGTACTTTTAATAGTTAAGGGACTCAACAAAGCAACACCTCATAATCGAGGGA
Found at i:5899511 original size:19 final size:19
Alignment explanation
Indices: 5899487--5899531 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
5899477 CCTTGACGGG
5899487 TGCATCGATGCACTATCTA
1 TGCATCGATGCACTATCTA
5899506 TGCATCGATGCACTATCTA
1 TGCATCGATGCACTATCTA
5899525 TGCATCG
1 TGCATCG
5899532 TTACATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTATCTA
Found at i:5903052 original size:28 final size:28
Alignment explanation
Indices: 5903012--5903071 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
5903002 ATCAAACAAG
5903012 TCATCAATGCGCGGGAGGGGATACTTAT
1 TCATCAATGCGCGGGAGGGGATACTTAT
5903040 TCATCAATGCGCGGGAGGGGATACTTAT
1 TCATCAATGCGCGGGAGGGGATACTTAT
5903068 TCAT
1 TCAT
5903072 GATGGTCACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (28 bp):
TCATCAATGCGCGGGAGGGGATACTTAT
Found at i:5905119 original size:31 final size:31
Alignment explanation
Indices: 5905035--5905140 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
5905025 GTCGAGGGTG
* *
5905035 TACCTATGTTCTATGGAACATATAGACAGAA
1 TACCTATGTTCTATGGAACATATGGACAGTA
* * *
5905066 TTACCTATG-TCTTTCGAGACATATGGATAGTA
1 -TACCTATGTTCTATGGA-ACATATGGACAGTA
* *
5905098 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTATGGAACATATGGACAGTA
*
5905129 TACCTAGGTTCT
1 TACCTATGTTCT
5905141 TCAGAAACTA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
31 37 0.61
32 24 0.39
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (31 bp):
TACCTATGTTCTATGGAACATATGGACAGTA
Found at i:5905153 original size:31 final size:32
Alignment explanation
Indices: 5905084--5905171 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 32
5905074 GTCTTTCGAG
* * * *
5905084 ACATATGGATAGTATACCTATGTTC-TAAGGA
1 ACATATGGACAGTTTACCTAGGTTCTTAAGAA
*
5905115 ACATATGGACAGTTTACCTAGGTTCTTCAGAA
1 ACATATGGACAGTTTACCTAGGTTCTTAAGAA
*
5905147 AC-TATGGACAGTTT-CCGAGGTTCTT
1 ACATATGGACAGTTTACCTAGGTTCTT
5905172 TATGACCTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 10 0.20
31 34 0.68
32 6 0.12
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (32 bp):
ACATATGGACAGTTTACCTAGGTTCTTAAGAA
Found at i:5905495 original size:2 final size:2
Alignment explanation
Indices: 5905490--5905524 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5905480 TATATATATA
5905490 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
5905525 TTTGTGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:5909233 original size:31 final size:31
Alignment explanation
Indices: 5909147--5909270 Score: 108
Period size: 31 Copynumber: 4.0 Consensus size: 31
5909137 GTCGAGGGTT
* *
5909147 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTAAGGAACATATGGACAGTA
*** *
5909178 TTACCTATG-TCTTTCGAGACATATGGATAGTA
1 -TACCTATGTTCTAAGGA-ACATATGGACAGTA
*
5909210 TACCTATGTTCTAAGGAATATATGGACAGCT-
1 TACCTATGTTCTAAGGAACATATGGACAG-TA
* ** *
5909241 TACCTAGGTTCTTCGGAACCTATGGACAGT
1 TACCTATGTTCTAAGGAACATATGGACAGT
5909271 TGTCGAGGTT
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
30 1 0.01
31 47 0.64
32 26 0.35
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAGTA
Found at i:5909599 original size:2 final size:2
Alignment explanation
Indices: 5909594--5909657 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
5909584 TATATATATA
5909594 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
5909636 TG TG TG TG TG TG TG TG TT TG TG
1 TG TG TG TG TG TG TG TG TG TG TG
5909658 ATATGAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:5911607 original size:23 final size:23
Alignment explanation
Indices: 5911577--5911633 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
5911567 CGTATAAATG
5911577 CACCGAAGTGCCACATAGAATTA
1 CACCGAAGTGCCACATAGAATTA
* * *
5911600 CACCGAAGTTCCACGTAGAATTG
1 CACCGAAGTGCCACATAGAATTA
*
5911623 CACCGTAGTGC
1 CACCGAAGTGC
5911634 TATATAAGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (23 bp):
CACCGAAGTGCCACATAGAATTA
Found at i:5912283 original size:20 final size:20
Alignment explanation
Indices: 5912235--5912285 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
5912225 TTAATGAAGG
5912235 TATGCATCGATGCACTACAC
1 TATGCATCGATGCACTACAC
* * *
5912255 CATGTATCGATGCATCTA-TC
1 TATGCATCGATGCA-CTACAC
5912275 TATGCATCGAT
1 TATGCATCGAT
5912286 ACATAAATCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (20 bp):
TATGCATCGATGCACTACAC
Found at i:5912363 original size:63 final size:64
Alignment explanation
Indices: 5912257--5912415 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 64
5912247 CACTACACCA
* * *
5912257 TGTATCGATGCATCTA-TCTATGCATCGATACATAAATCACATTCGATGTTTGTA-TTTAAGGGG
1 TGTATCGATGCA-CTACT-TGTGCATCGATACATAAATCACATTCGATGTTTGTATTTTAAAGGA
5912320 G
64 G
** ** *
5912321 TGTATCGATGCACTACTTGTGCATCGATACATTGATGTCATTCGATGTTTTTATTTTAAAGGAG
1 TGTATCGATGCACTACTTGTGCATCGATACATAAATCACATTCGATGTTTGTATTTTAAAGGAG
* * *
5912385 TGCATCGATGCACTTCATGTGCATCGATACA
1 TGTATCGATGCACTACTTGTGCATCGATACA
5912416 CCTTGAACAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 33 0.40
64 49 0.60
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (64 bp):
TGTATCGATGCACTACTTGTGCATCGATACATAAATCACATTCGATGTTTGTATTTTAAAGGAG
Found at i:5915458 original size:24 final size:24
Alignment explanation
Indices: 5915426--5915476 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
5915416 TCAGCATACT
* *
5915426 TCAGGGTATGTAACACGTTGATGG
1 TCAGGGTATGGAACACATTGATGG
* *
5915450 TCAGTGTATGGAATACATTGATGG
1 TCAGGGTATGGAACACATTGATGG
5915474 TCA
1 TCA
5915477 AACTTTGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.31
Consensus pattern (24 bp):
TCAGGGTATGGAACACATTGATGG
Found at i:5922833 original size:17 final size:17
Alignment explanation
Indices: 5922811--5922844 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5922801 CAGTTATTTT
5922811 CCGCTCTCAAATTCTTA
1 CCGCTCTCAAATTCTTA
5922828 CCGCTCTCAAATTCTTA
1 CCGCTCTCAAATTCTTA
5922845 ATGCAAACTC
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:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (17 bp):
CCGCTCTCAAATTCTTA
Found at i:5929702 original size:29 final size:29
Alignment explanation
Indices: 5929634--5929694 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
5929624 GCTCAGAACT
* * *
5929634 GAAT-ACTGTAGTCGGGAATAGTATCCGA
1 GAATCACTGTAGCCGAGAATAGTAACCGA
5929662 GAATCACTGTAGCCGAGAATAGTAACCGA
1 GAATCACTGTAGCCGAGAATAGTAACCGA
5929691 GAAT
1 GAAT
5929695 TATTGTAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.21
Consensus pattern (29 bp):
GAATCACTGTAGCCGAGAATAGTAACCGA
Found at i:5929711 original size:29 final size:29
Alignment explanation
Indices: 5929650--5929715 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
5929640 TGTAGTCGGG
* * * *
5929650 AATAGTATCCGAGAATCACTGTAGCCGAG
1 AATAGTAACCGAGAATCACTGTAGACAAA
* *
5929679 AATAGTAACCGAGAATTATTGTAGACAAA
1 AATAGTAACCGAGAATCACTGTAGACAAA
5929708 AATAGTAA
1 AATAGTAA
5929716 TCGTCGACGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.23
Consensus pattern (29 bp):
AATAGTAACCGAGAATCACTGTAGACAAA
Found at i:5940744 original size:76 final size:76
Alignment explanation
Indices: 5940616--5940763 Score: 235
Period size: 76 Copynumber: 1.9 Consensus size: 76
5940606 CTCTCGTCAG
* * *
5940616 ATTAACATGAAACCGATATTGGTGCACAATCAACAATAAAGAATTTGCATATATAAATACATA-A
1 ATTAACATGAAACCGATATTGGTGCACAATCAACAATAAAGAATTTGAATATATAAACACACATA
5940680 ACAATTAAAGT
66 ACAATTAAAGT
* *
5940691 ATTAACATGAGATCGAATATTGGTGCACAATCAACAATAAAGAATTTGAATATATAAACACACAT
1 ATTAACATGAAACCG-ATATTGGTGCACAATCAACAATAAAGAATTTGAATATATAAACACACAT
5940756 AACAATTA
65 AACAATTA
5940764 CTGGAGAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 13 0.20
76 45 0.68
77 8 0.12
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (76 bp):
ATTAACATGAAACCGATATTGGTGCACAATCAACAATAAAGAATTTGAATATATAAACACACATA
ACAATTAAAGT
Found at i:5949913 original size:23 final size:23
Alignment explanation
Indices: 5949868--5949914 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
5949858 AAACTTAAAA
** *
5949868 TAAATCTTGTTTATTTTACTAAT
1 TAAATCTTGTTTATTCAAATAAT
*
5949891 TAAATCTTTTTTATTCAAATAAT
1 TAAATCTTGTTTATTCAAATAAT
5949914 T
1 T
5949915 CAATGCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (23 bp):
TAAATCTTGTTTATTCAAATAAT
Found at i:5962562 original size:20 final size:20
Alignment explanation
Indices: 5962529--5962567 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5962519 GGTCTACGCG
*
5962529 ATCCTTCGGGACATATATGT
1 ATCCTTCGGAACATATATGT
* *
5962549 ATCCTTTGGAACATCTATG
1 ATCCTTCGGAACATATATG
5962568 AGGTCTTTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (20 bp):
ATCCTTCGGAACATATATGT
Found at i:5962689 original size:23 final size:23
Alignment explanation
Indices: 5962655--5962717 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
5962645 CATCTTATAT
*
5962655 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTAGGTGCATTTCTACGC
* *
5962678 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTAGGTGCATTTCTACGC
5962701 GGCACTTCA-GTGCATTT
1 GGCACTT-AGGTGCATTT
5962718 ATATGAACTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.32
Consensus pattern (23 bp):
GGCACTTAGGTGCATTTCTACGC
Found at i:5963928 original size:5 final size:5
Alignment explanation
Indices: 5963918--5963959 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
5963908 CTGAACCGGT
*
5963918 CCGAC CCGAC CCGAC CGTTGAC CCGAC CCGAC CCGAC CCGAC
1 CCGAC CCGAC CCGAC C--CGAC CCGAC CCGAC CCGAC CCGAC
5963960 TGTTGACCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 29 0.88
7 4 0.12
ACGTcount: A:0.19, C:0.55, G:0.21, T:0.05
Consensus pattern (5 bp):
CCGAC
Found at i:5978347 original size:15 final size:15
Alignment explanation
Indices: 5978327--5978358 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5978317 GGATTAAAAC
*
5978327 ATAAGAAATAATTCA
1 ATAAGAAACAATTCA
5978342 ATAAGAAACAATTCA
1 ATAAGAAACAATTCA
5978357 AT
1 AT
5978359 GAAAATAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.25
Consensus pattern (15 bp):
ATAAGAAACAATTCA
Found at i:5980898 original size:18 final size:18
Alignment explanation
Indices: 5980872--5980906 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5980862 ACTGAATATT
* *
5980872 TGTCTCGAATGACCACTA
1 TGTCCCGAAAGACCACTA
5980890 TGTCCCGAAAGACCACT
1 TGTCCCGAAAGACCACT
5980907 GATAATCCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:5985446 original size:28 final size:28
Alignment explanation
Indices: 5985407--5985462 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
5985397 TTGGAACTTT
5985407 AAAAATCATGAGACATGGATTAAATGCA
1 AAAAATCATGAGACATGGATTAAATGCA
5985435 AAAAATCATGAGACATGGATTAAATGCA
1 AAAAATCATGAGACATGGATTAAATGCA
5985463 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (28 bp):
AAAAATCATGAGACATGGATTAAATGCA
Found at i:5987040 original size:165 final size:165
Alignment explanation
Indices: 5986761--5987190 Score: 580
Period size: 165 Copynumber: 2.6 Consensus size: 165
5986751 AGAGTTTAAA
* * *
5986761 AATCTTCA-AATAACGGGTCTGCTCCCTATTCTTTTA-AGGAGTATA-AGACTCGATCAATCTTC
1 AATCTTCATAA-AACGGGTCTGCTCTCTATTCCTTTAGA-GAGTATAGA-ACTCGAACAATCTTC
** * * *
5986823 GGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCA-ATAAACGG
63 AACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAAAACTCGAACAATCTTCATA-AAACGG
* *
5986887 GTCTGATCCCTATCCGTTCAGGGAGTATAGAACTCGAAC
127 GTCCGATCCCTATCCGTTCAGAGAGTATAGAACTCGAAC
* *
5986926 AATCTTCATAAAATGGGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAAC
1 AATCTTCATAAAACGGGTCTGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAAC
* * * *
5986991 AAACGGGTCCGCTCTCTATTCCTTCAAAGAGTATAAAACTCGAACAATCTTCATAAAACGGGTCC
66 AAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAAAACTCGAACAATCTTCATAAAACGGGTCC
* * * *
5987056 GCTCTCTATTCTTTCAGAGAGTATAGAACTCGAAC
131 GATCCCTATCCGTTCAGAGAGTATAGAACTCGAAC
*
5987091 AATCTTCATAAAACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAC
1 AATCTTCATAAAACGGGTCTGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAAC
* * *
5987156 GAACTTGTCCGCTCCCTATTCGTTCAGAGAGTATA
66 AAACGTGTCCGCTCCCTATTCATTCAGAGAGTATA
5987191 GGACTCAATC
Statistics
Matches: 232, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
165 227 0.98
166 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (165 bp):
AATCTTCATAAAACGGGTCTGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAAC
AAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAAAACTCGAACAATCTTCATAAAACGGGTCC
GATCCCTATCCGTTCAGAGAGTATAGAACTCGAAC
Found at i:5987175 original size:55 final size:54
Alignment explanation
Indices: 5986761--5987196 Score: 484
Period size: 55 Copynumber: 7.9 Consensus size: 54
5986751 AGAGTTTAAA
* * * *
5986761 AATCTTCAAATAACGGGTCTGCTCCCTATTCTTTTA-AGGAGTATA-AGACTCGATC
1 AATCTTCAAA-AACGGGTCCGCTCCCTATTCCTTCAGA-GAGTATAGA-ACTCGAAC
** * * * *
5986816 AATCTTCGGCAAACGTGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTCGAAC
1 AATCTTC-AAAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAAC
* * *
5986871 AATCTTCAATAAACGGGTCTGATCCCTA-TCCGTTCAGGGAGTATAGAACTCGAAC
1 AATCTTCAA-AAACGGGTCCGCTCCCTATTCC-TTCAGAGAGTATAGAACTCGAAC
* * *
5986926 AATCTTCATAAAATGGGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAAC
1 AATCTTCA-AAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
* * *
5986981 AATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAAAGAGTATAAAACTCGAAC
1 AATCTTCAA-AAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
* *
5987036 AATCTTCATAAAACGGGTCCGCTCTCTATTCTTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCA-AAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
* *
5987091 AATCTTCATAAAACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCA-AAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
* ** * *
5987146 AATCTTCAACGAACTTGTCCGCTCCCTATTCGTTCAGAGAGTATAGGACTC
1 AATCTTCAA-AAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTC
5987197 AATCTTCAAC
Statistics
Matches: 337, Mismatches: 34, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
54 4 0.01
55 326 0.97
56 7 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (54 bp):
AATCTTCAAAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAAC
Found at i:5988599 original size:29 final size:29
Alignment explanation
Indices: 5988565--5988642 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 29
5988555 ACCCCCCTTT
5988565 TATTTCTTTTTCTTTTTTCATCATTTTTTC
1 TATTTCTTTTT-TTTTTTCATCATTTTTTC
**
5988595 T-TTTC-TTTTTTCGTTC-TCATTTTTTC
1 TATTTCTTTTTTTTTTTCATCATTTTTTC
5988621 TATTTCATTTTTTTCTTTTCAT
1 TATTTC-TTTTTTT-TTTTCAT
5988643 TTTTTCCATC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
26 11 0.28
27 9 0.23
28 4 0.10
29 10 0.26
30 4 0.10
31 1 0.03
ACGTcount: A:0.09, C:0.17, G:0.01, T:0.73
Consensus pattern (29 bp):
TATTTCTTTTTTTTTTTCATCATTTTTTC
Found at i:5988617 original size:14 final size:13
Alignment explanation
Indices: 5988585--5988648 Score: 85
Period size: 14 Copynumber: 4.8 Consensus size: 13
5988575 TCTTTTTTCA
5988585 TCATTTTTTCTTT
1 TCATTTTTTCTTT
*
5988598 TC-TTTTTTCGTTC
1 TCATTTTTTC-TTT
5988611 TCATTTTTTCTATT
1 TCATTTTTTCT-TT
5988625 TCATTTTTTTCTTT
1 TCA-TTTTTTCTTT
5988639 TCATTTTTTC
1 TCATTTTTTC
5988649 CATCATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
12 7 0.16
13 14 0.31
14 16 0.36
15 8 0.18
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.73
Consensus pattern (13 bp):
TCATTTTTTCTTT
Found at i:5988632 original size:15 final size:14
Alignment explanation
Indices: 5988567--5988696 Score: 74
Period size: 14 Copynumber: 8.8 Consensus size: 14
5988557 CCCCCTTTTA
5988567 TTTC-TTTTTCTT-T
1 TTTCATTTTT-TTCT
5988580 TTTCATCATTTTTTCT
1 TTTCAT--TTTTTTCT
5988596 TTTC--TTTTTTCGT
1 TTTCATTTTTTTC-T
*
5988609 TCTCA-TTTTTTCT
1 TTTCATTTTTTTCT
5988622 ATTTCATTTTTTTCT
1 -TTTCATTTTTTTCT
5988637 TTTCATTTTTTCCATCATT
1 TTTCATTTTTT---TC--T
*
5988656 TTTCCATTATTTTCATT
1 TTT-CATTTTTTTC--T
*
5988673 TTTC-TTTTCTTCT
1 TTTCATTTTTTTCT
5988686 TTTCATTTTTT
1 TTTCATTTTTT
5988697 CATTATTTTT
Statistics
Matches: 96, Mismatches: 6, Indels: 29
0.73 0.05 0.22
Matches are distributed among these distances:
12 7 0.07
13 14 0.15
14 28 0.29
15 16 0.17
16 10 0.10
17 10 0.10
19 4 0.04
20 7 0.07
ACGTcount: A:0.09, C:0.18, G:0.01, T:0.72
Consensus pattern (14 bp):
TTTCATTTTTTTCT
Found at i:5988646 original size:29 final size:28
Alignment explanation
Indices: 5988565--5988647 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 28
5988555 ACCCCCCTTT
5988565 TATTTCTTTTTCTT-TTTTCATCATTTTTTC
1 TATTTCTTTTT-TTCTTTTCAT--TTTTTTC
*
5988595 T-TTTC-TTTTTTCGTTCTCA-TTTTTTC
1 TATTTCTTTTTTTC-TTTTCATTTTTTTC
5988621 TATTTCATTTTTTTCTTTTCATTTTTT
1 TATTTC-TTTTTTTCTTTTCATTTTTT
5988648 CCATCATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
26 8 0.18
27 6 0.13
28 9 0.20
29 21 0.47
30 1 0.02
ACGTcount: A:0.08, C:0.16, G:0.01, T:0.75
Consensus pattern (28 bp):
TATTTCTTTTTTTCTTTTCATTTTTTTC
Found at i:5995180 original size:50 final size:44
Alignment explanation
Indices: 5995124--5995228 Score: 111
Period size: 45 Copynumber: 2.2 Consensus size: 44
5995114 CCTATCCAAT
5995124 ATGATATCTACCCCCATGCTTTGTTATTCACAAAAAGAAATCCTAACCGC
1 ATGATATCTACCCCCATGC----TTATTCA-AAAAAGAAA-CCTAACCGC
** * *
5995174 ATGATATCTAATTCGCATGCTTATTCAAAAAATAAACCTAACCGC
1 ATGATATCT-ACCCCCATGCTTATTCAAAAAAGAAACCTAACCGC
5995219 ATGATATCTA
1 ATGATATCTA
5995229 GTTCGCATGC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
44 1 0.02
45 18 0.36
46 8 0.16
47 7 0.14
50 9 0.18
51 7 0.14
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.30
Consensus pattern (44 bp):
ATGATATCTACCCCCATGCTTATTCAAAAAAGAAACCTAACCGC
Found at i:5995214 original size:45 final size:47
Alignment explanation
Indices: 5995147--5995257 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 47
5995137 CCATGCTTTG
5995147 TTATTCACAAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-
1 TTATTCA-AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA
* *
5995194 TTATTCAAAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCA
1 TTATTCAAAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA
*
5995240 TTTATTCGAAAAACGAAA
1 -TTATTC-AAAAAAGAAA
5995258 ATAAATGACT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 28 0.49
46 8 0.14
47 13 0.23
48 8 0.14
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (47 bp):
TTATTCAAAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA
Found at i:5996829 original size:27 final size:30
Alignment explanation
Indices: 5996799--5996859 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 30
5996789 ATCATCATAC
*
5996799 AAAATAAATATAAACA-ACT-AATT-AAAG
1 AAAACAAATATAAACAGACTAAATTAAAAG
*
5996826 AAAACAAATCTAAACATGACTAAATTAAAAG
1 AAAACAAATATAAACA-GACTAAATTAAAAG
5996857 AAA
1 AAA
5996860 CTTAAATGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 14 0.50
29 3 0.11
30 4 0.14
31 7 0.25
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.20
Consensus pattern (30 bp):
AAAACAAATATAAACAGACTAAATTAAAAG
Found at i:5997192 original size:28 final size:28
Alignment explanation
Indices: 5997153--5997206 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
5997143 ATTGGAACTT
5997153 AAAAATCATGAGACATGGATTAAATGCA
1 AAAAATCATGAGACATGGATTAAATGCA
5997181 AAAAATCATGAGACATGGATTAAATG
1 AAAAATCATGAGACATGGATTAAATG
5997207 TATTAAAAAA
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:0.50, C:0.09, G:0.19, T:0.22
Consensus pattern (28 bp):
AAAAATCATGAGACATGGATTAAATGCA
Found at i:6000000 original size:13 final size:13
Alignment explanation
Indices: 5999982--6000021 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
5999972 ATAATTATAA
5999982 AAACCTAAACCCT
1 AAACCTAAACCCT
* *
5999995 AAACCTTACCCCT
1 AAACCTAAACCCT
6000008 AAACCCTAAACCCT
1 AAA-CCTAAACCCT
6000022 TAATTAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.17
Consensus pattern (13 bp):
AAACCTAAACCCT
Found at i:6002688 original size:29 final size:29
Alignment explanation
Indices: 6002655--6002730 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
6002645 TCCCCAAGCA
*
6002655 TAGGTCGTCATGCCCTCCGGGCGACCTTG
1 TAGGTCGTCATGCACTCCGGGCGACCTTG
*
6002684 TAGGTCGTCATGCACTCCGGGTGACCTTG
1 TAGGTCGTCATGCACTCCGGGCGACCTTG
*
6002713 TAGGTCGCCATGCACTCC
1 TAGGTCGTCATGCACTCC
6002731 CTCCTGCTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.13, C:0.33, G:0.29, T:0.25
Consensus pattern (29 bp):
TAGGTCGTCATGCACTCCGGGCGACCTTG
Found at i:6002803 original size:14 final size:14
Alignment explanation
Indices: 6002784--6002811 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6002774 CATAGCTTGC
6002784 TCGGATGGTCTCGG
1 TCGGATGGTCTCGG
6002798 TCGGATGGTCTCGG
1 TCGGATGGTCTCGG
6002812 ATGCTCTCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (14 bp):
TCGGATGGTCTCGG
Found at i:6003604 original size:18 final size:19
Alignment explanation
Indices: 6003583--6003632 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
6003573 TGGCGTTTTG
6003583 TATTTTT-GTTTTTGTTTC
1 TATTTTTAGTTTTTGTTTC
* *
6003601 TATTTGTTAATTTTTTTTTC
1 TATTT-TTAGTTTTTGTTTC
6003621 -ATTTTTAGTTTT
1 TATTTTTAGTTTT
6003633 CTATAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 12 0.44
19 6 0.22
20 9 0.33
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.76
Consensus pattern (19 bp):
TATTTTTAGTTTTTGTTTC
Found at i:6004251 original size:30 final size:32
Alignment explanation
Indices: 6004199--6004270 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 32
6004189 AACTTGACAT
* *
6004199 TAAACTTTAGAAGAAACTATTAATTTAA-CCTA
1 TAAA-TTTAGAAGAAACTATTAATTCAAGCCCA
6004231 TAAATTTAGATA-AAA-TATTAATTCAAGCCCA
1 TAAATTTAGA-AGAAACTATTAATTCAAGCCCA
6004262 -AAATTTAGA
1 TAAATTTAGA
6004271 GTCTATTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 19 0.53
31 12 0.33
32 5 0.14
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (32 bp):
TAAATTTAGAAGAAACTATTAATTCAAGCCCA
Found at i:6006177 original size:13 final size:13
Alignment explanation
Indices: 6006158--6006187 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
6006148 CCCCTATATA
6006158 AAAAAAAGAAGAAG
1 AAAAAAA-AAGAAG
6006172 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
6006185 AAA
1 AAA
6006188 GACTAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:6006666 original size:25 final size:25
Alignment explanation
Indices: 6006632--6006700 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
6006622 GGGTAGAGGG
*
6006632 TCTATGCGGTCCTTCGGGACAAAAT
1 TCTACGCGGTCCTTCGGGACAAAAT
*
6006657 TCTACGCGGTCCTTCAGGACAAAAT
1 TCTACGCGGTCCTTCGGGACAAAAT
6006682 TCTACGCGGTCCTTCGGGA
1 TCTACGCGGTCCTTCGGGA
6006701 TATATATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGACAAAAT
Found at i:6006859 original size:23 final size:23
Alignment explanation
Indices: 6006815--6006859 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6006805 ATTATTATAT
*
6006815 GGCACTATAGTGCAATTCTACGC
1 GGCACTATAGTGCAATTATACGC
*
6006838 GGCACT-TCAGTGCATTTATACG
1 GGCACTAT-AGTGCAATTATACG
6006860 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (23 bp):
GGCACTATAGTGCAATTATACGC
Found at i:6012915 original size:21 final size:21
Alignment explanation
Indices: 6012873--6012915 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6012863 TTTCTGGGCT
* *
6012873 AGGGGAATCGGTACCCATTTA
1 AGGGGAATCGATACCCACTTA
*
6012894 AGGGGAATCGATACCCCCTTA
1 AGGGGAATCGATACCCACTTA
6012915 A
1 A
6012916 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTTA
Found at i:6013004 original size:15 final size:15
Alignment explanation
Indices: 6012984--6013016 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6012974 TCCCCTATAT
6012984 AAAAAAAAGAAGAAG
1 AAAAAAAAGAAGAAG
*
6012999 AAAAAAGAGAAGAAG
1 AAAAAAAAGAAGAAG
6013014 AAA
1 AAA
6013017 GACTAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAGAAG
Found at i:6013497 original size:25 final size:25
Alignment explanation
Indices: 6013463--6013531 Score: 138
Period size: 25 Copynumber: 2.8 Consensus size: 25
6013453 GGGTAGAGGG
6013463 TCTACGCGGTCCTTCGGGACAAAAT
1 TCTACGCGGTCCTTCGGGACAAAAT
6013488 TCTACGCGGTCCTTCGGGACAAAAT
1 TCTACGCGGTCCTTCGGGACAAAAT
6013513 TCTACGCGGTCCTTCGGGA
1 TCTACGCGGTCCTTCGGGA
6013532 TATATATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.25
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGACAAAAT
Found at i:6015867 original size:2 final size:2
Alignment explanation
Indices: 6015860--6015894 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6015850 GAATGGTCAG
6015860 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6015895 CTATTTTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6016939 original size:13 final size:13
Alignment explanation
Indices: 6016923--6016968 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6016913 AATGAGTGTT
6016923 ATAAATGCGCGTC
1 ATAAATGCGCGTC
**
6016936 ATAAATGCATGTC
1 ATAAATGCGCGTC
* *
6016949 ATAAATGTGCGTA
1 ATAAATGCGCGTC
6016962 ATAAATG
1 ATAAATG
6016969 TATGACGCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (13 bp):
ATAAATGCGCGTC
Found at i:6019575 original size:21 final size:22
Alignment explanation
Indices: 6019525--6019623 Score: 105
Period size: 23 Copynumber: 4.5 Consensus size: 22
6019515 ATAAATTGCA
*
6019525 CCGAAGTG-CCACATAGAATATC
1 CCGAAG-GACCACATAGAATGTC
*
6019547 CTGAAGGACCACATAG-ATGTC
1 CCGAAGGACCACATAGAATGTC
*
6019568 CCGAAGGACCGCATAGAAATGTC
1 CCGAAGGACCACATAG-AATGTC
6019591 CCGAAGGACCA-AGTAGAATTGTC
1 CCGAAGGACCACA-TAGAA-TGTC
*
6019614 CTGAAGGACC
1 CCGAAGGACC
6019624 GCCTAGAACT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
21 19 0.29
22 16 0.24
23 31 0.47
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.16
Consensus pattern (22 bp):
CCGAAGGACCACATAGAATGTC
Found at i:6019748 original size:28 final size:30
Alignment explanation
Indices: 6019717--6019786 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 30
6019707 CACATTTTCA
*
6019717 ATTATTCACATAGTTC-TATA-TCACATAG
1 ATTATTCACATAGTTCGCATAGTCACATAG
6019745 ATTATATCACAT-GTTCGCATAGTCACATAG
1 ATTAT-TCACATAGTTCGCATAGTCACATAG
*
6019775 ATCA-TCACATAG
1 ATTATTCACATAG
6019787 ACATGTACTC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 15 0.42
29 10 0.28
30 11 0.31
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (30 bp):
ATTATTCACATAGTTCGCATAGTCACATAG
Found at i:6019752 original size:14 final size:14
Alignment explanation
Indices: 6019717--6019756 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6019707 CACATTTTCA
6019717 ATTAT-TCACATAG
1 ATTATATCACATAG
*
6019730 TTCTATATCACATAG
1 AT-TATATCACATAG
6019745 ATTATATCACAT
1 ATTATATCACAT
6019757 GTTCGCATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 1 0.04
14 13 0.57
15 9 0.39
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (14 bp):
ATTATATCACATAG
Found at i:6022655 original size:31 final size:31
Alignment explanation
Indices: 6022588--6022647 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
6022578 CAATTTAAGG
*
6022588 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
6022619 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
6022648 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:6022775 original size:19 final size:19
Alignment explanation
Indices: 6022725--6022778 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
6022715 ATAGTAATTT
* *
6022725 ACTATTTGAACAATAAATT
1 ACTATTTGAACAGTAAATC
6022744 ACTATTTGAACAGTAAATC
1 ACTATTTGAACAGTAAATC
*
6022763 ACTGTTTGAACAGTAA
1 ACTATTTGAACAGTAA
6022779 CCCGAGGCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (19 bp):
ACTATTTGAACAGTAAATC
Found at i:6022909 original size:21 final size:21
Alignment explanation
Indices: 6022883--6022924 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6022873 ATTTGAATAT
*
6022883 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
6022904 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
6022925 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:6023246 original size:34 final size:32
Alignment explanation
Indices: 6023207--6023276 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
6023197 TTTTGTAAAG
*
6023207 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
6023241 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
6023273 GGGA
1 GGGA
6023277 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:6024082 original size:20 final size:20
Alignment explanation
Indices: 6024043--6024102 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
6024033 AAAAATGTTT
* *
6024043 TATGAATAATACTG-TACTG
1 TATGAATAGTACCGATACTG
6024062 TATGAATAGTACCGATACTG
1 TATGAATAGTACCGATACTG
* * *
6024082 TGTAAACAGTACCGATACTG
1 TATGAATAGTACCGATACTG
6024102 T
1 T
6024103 GTAAAACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 12 0.34
20 23 0.66
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (20 bp):
TATGAATAGTACCGATACTG
Found at i:6024103 original size:20 final size:20
Alignment explanation
Indices: 6024069--6024107 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6024059 CTGTATGAAT
6024069 AGTACCGATACTGTGTAAAC
1 AGTACCGATACTGTGTAAAC
6024089 AGTACCGATACTGTGTAAA
1 AGTACCGATACTGTGTAAA
6024108 ACAATGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
AGTACCGATACTGTGTAAAC
Found at i:6025184 original size:2 final size:2
Alignment explanation
Indices: 6025177--6025215 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6025167 CAACCACTTA
6025177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6025216 CCTCATATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6025542 original size:22 final size:21
Alignment explanation
Indices: 6025517--6025561 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6025507 CACCAAAGTG
*
6025517 CCATATAGATTGTCCCGAATGA
1 CCATATAGA-TGTCCCGAAGGA
*
6025539 CCATATAGATGTCCTGAAGGA
1 CCATATAGATGTCCCGAAGGA
6025560 CC
1 CC
6025562 GCGTAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (21 bp):
CCATATAGATGTCCCGAAGGA
Found at i:6025581 original size:23 final size:23
Alignment explanation
Indices: 6025547--6025615 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
6025537 GACCATATAG
6025547 ATGTCCTGAAGGACCGCGTAGAA
1 ATGTCCTGAAGGACCGCGTAGAA
* *
6025570 ATGTCCTAAAGGACCACGTAGAA
1 ATGTCCTGAAGGACCGCGTAGAA
*
6025593 TTGTCCTGAAGGACCGCGTAGAA
1 ATGTCCTGAAGGACCGCGTAGAA
6025616 CTCTCGACTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.19
Consensus pattern (23 bp):
ATGTCCTGAAGGACCGCGTAGAA
Found at i:6028802 original size:28 final size:29
Alignment explanation
Indices: 6028751--6028821 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
6028741 TTTGGAGATT
6028751 AAATTAATAATTATTAAAAGTTTAAA-TC
1 AAATTAATAATTATTAAAAGTTTAAAGTC
* *
6028779 AAATTATTAATTTTTTAAAA-TTTAAAGGTC
1 AAATTAATAA-TTATTAAAAGTTTAAA-GTC
*
6028809 AAATTAAAAATTA
1 AAATTAATAATTA
6028822 ATTATTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 15 0.43
29 10 0.29
30 10 0.29
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (29 bp):
AAATTAATAATTATTAAAAGTTTAAAGTC
Found at i:6037524 original size:15 final size:15
Alignment explanation
Indices: 6037501--6037535 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6037491 ATTTGATGTC
*
6037501 TTTTAACTTATGTTG
1 TTTTGACTTATGTTG
*
6037516 TTTTGACTTGTGTTG
1 TTTTGACTTATGTTG
6037531 TTTTG
1 TTTTG
6037536 GTGTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.20, T:0.63
Consensus pattern (15 bp):
TTTTGACTTATGTTG
Found at i:6048403 original size:12 final size:12
Alignment explanation
Indices: 6048396--6048478 Score: 76
Period size: 12 Copynumber: 6.9 Consensus size: 12
6048386 CGTATACGTA
*
6048396 TACATATATACG
1 TACACATATACG
*
6048408 TACACATACACG
1 TACACATATACG
*
6048420 TACACATACACG
1 TACACATATACG
* *
6048432 TACACGTACACG
1 TACACATATACG
* *
6048444 TACACGTACACG
1 TACACATATACG
* *
6048456 TACACGTACACG
1 TACACATATACG
*
6048468 TACACGTATAC
1 TACACATATAC
6048479 ACATATATAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.20
Consensus pattern (12 bp):
TACACATATACG
Found at i:6048417 original size:6 final size:6
Alignment explanation
Indices: 6048405--6048475 Score: 124
Period size: 6 Copynumber: 11.8 Consensus size: 6
6048395 ATACATATAT
* *
6048405 ACGTAC ACATAC ACGTAC ACATAC ACGTAC ACGTAC ACGTAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
6048453 ACGTAC ACGTAC ACGTAC ACGTA
1 ACGTAC ACGTAC ACGTAC ACGTA
6048476 TACACATATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.37, C:0.32, G:0.14, T:0.17
Consensus pattern (6 bp):
ACGTAC
Found at i:6049000 original size:14 final size:14
Alignment explanation
Indices: 6048977--6049017 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
6048967 CTTAAGTTTA
6048977 AGAGCATGAAGAGC
1 AGAGCATGAAGAGC
*
6048991 AGAGCTTGAAGAGC
1 AGAGCATGAAGAGC
6049005 AGAGCATAGAAGA
1 AGAGCAT-GAAGA
6049018 ATAATAAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.44, C:0.12, G:0.34, T:0.10
Consensus pattern (14 bp):
AGAGCATGAAGAGC
Found at i:6050439 original size:21 final size:21
Alignment explanation
Indices: 6050399--6050450 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6050389 AATTCAAGAA
*
6050399 ATTTTCTTTTCTTGAAAAAAT
1 ATTTTCTTTTCTTCAAAAAAT
**
6050420 ATTTTCTTTTCTTCTCAAAAT
1 ATTTTCTTTTCTTCAAAAAAT
6050441 -TTATTCTTTT
1 ATT-TTCTTTT
6050451 TTTTCCTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.25, C:0.13, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTCTTTTCTTCAAAAAAT
Found at i:6053453 original size:17 final size:16
Alignment explanation
Indices: 6053420--6053453 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6053410 CCTTTTAGGC
6053420 TTTATAAATAATAATA
1 TTTATAAATAATAATA
*
6053436 TTTATAATATAATTATA
1 TTTATAA-ATAATAATA
6053453 T
1 T
6053454 ATAATAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTATAAATAATAATA
Found at i:6059940 original size:16 final size:16
Alignment explanation
Indices: 6059921--6059954 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6059911 CAATATACGA
6059921 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
6059937 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
6059953 AT
1 AT
6059955 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:6060028 original size:16 final size:18
Alignment explanation
Indices: 6059996--6060029 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
6059986 TATTAATGTA
6059996 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
6060014 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
6060030 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:6060574 original size:21 final size:23
Alignment explanation
Indices: 6060529--6060575 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6060519 GTGTCACCAA
6060529 TAACATATATCATGATCATGTGT
1 TAACATATATCATGATCATGTGT
* *
6060552 TAACATATGTCA-GATCCTG-GT
1 TAACATATATCATGATCATGTGT
6060573 TAA
1 TAA
6060576 ATGATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (23 bp):
TAACATATATCATGATCATGTGT
Found at i:6060706 original size:130 final size:130
Alignment explanation
Indices: 6060502--6060749 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
6060492 AATTTTCTTC
* * * *
6060502 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACATATGTCAGAT
1 TAATTAGGTGGTGACATGCGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
6060567 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
6060632 TAATTAGGTGGTGACATGCGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGCGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
6060697 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
6060750 TATATAAATA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGCGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:6061196 original size:35 final size:35
Alignment explanation
Indices: 6061146--6061221 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
6061136 AATTGAATTT
*
6061146 AATTGAATCATTTTGGAAATTAGGGTTGAGAATGA
1 AATTGAATCACTTTGGAAATTAGGGTTGAGAATGA
* * *
6061181 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATCACTTTGGAAATTAGGGTTGAGAATGA
6061216 AATTGA
1 AATTGA
6061222 GGACTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.36
Consensus pattern (35 bp):
AATTGAATCACTTTGGAAATTAGGGTTGAGAATGA
Done.