Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 50 of 172
Found at i:13423054 original size:43 final size:42
Alignment explanation
Indices: 13422977--13423078 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 42
13422967 TGCCATTTCA
*
13422977 GCCCGCACACTTAGTGCCATCCACAACCGTGAACAC-TTATTT
1 GCCCGCACACTTAGTGCAATCCACAACCGTGAACACATTA-TT
13423019 GCCCGCACACTTTAGTGCAATCTCACAACCG-GAACACATTATT
1 GCCCGCACAC-TTAGTGCAATC-CACAACCGTGAACACATTATT
* *
13423062 GCACGCAAACTTAGTGC
1 GCCCGCACACTTAGTGC
13423079 CTGAAAACCA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
42 17 0.31
43 26 0.48
44 11 0.20
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (42 bp):
GCCCGCACACTTAGTGCAATCCACAACCGTGAACACATTATT
Found at i:13424979 original size:37 final size:38
Alignment explanation
Indices: 13424915--13424994 Score: 101
Period size: 37 Copynumber: 2.1 Consensus size: 38
13424905 TTATTACGAA
* *
13424915 GTCTTACCCGGACATAATTCTCAACACGAAGTTATC-G
1 GTCTTACCCGGACAAAATTCTCAACACGAAGTCATCGG
* *
13424952 GTCTTACCCGGACAAAAATTC-CCACACGTAGTCATCGG
1 GTCTTACCCGGAC-AAAATTCTCAACACGAAGTCATCGG
13424990 GTCTT
1 GTCTT
13424995 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (38 bp):
GTCTTACCCGGACAAAATTCTCAACACGAAGTCATCGG
Found at i:13425332 original size:46 final size:47
Alignment explanation
Indices: 13425162--13425485 Score: 554
Period size: 46 Copynumber: 7.0 Consensus size: 47
13425152 ACTCGCCCCG
13425162 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
13425209 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
13425255 T-ACATATATACACTTTCACA-TCAT-ACATCGGCCATTA-GCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
13425298 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
13425345 TCACA-ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
13425391 TCACACATATACACTTTCACATTCA-CACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
13425437 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
13425486 CTATCATTCA
Statistics
Matches: 265, Mismatches: 3, Indels: 16
0.93 0.01 0.06
Matches are distributed among these distances:
42 1 0.00
43 18 0.07
44 23 0.09
45 23 0.09
46 87 0.33
47 72 0.27
48 20 0.08
49 21 0.08
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:13432364 original size:22 final size:23
Alignment explanation
Indices: 13432321--13432364 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
13432311 GTCCAAAATA
13432321 ATGTTTAAATGTTCATCCAAAGC
1 ATGTTTAAATGTTCATCCAAAGC
*
13432344 ATGTTTTAATGTTC-TCCAAAG
1 ATGTTTAAATGTTCATCCAAAG
13432365 TTGGACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (23 bp):
ATGTTTAAATGTTCATCCAAAGC
Found at i:13432555 original size:109 final size:104
Alignment explanation
Indices: 13432353--13432687 Score: 379
Period size: 110 Copynumber: 3.1 Consensus size: 104
13432343 CATGTTTTAA
* *
13432353 TGTTCTCCAAAGTTGGACATTTCTATTATGTTTAAATGTTAAATTAAATTGTTAGGATTAAATAA
1 TGTTTTCCAAAGCTGGACATTTCTATTATGTTT--ATGTTAAATTAAA-TGTTAGGATTAAAT--
* * *
13432418 AGTGGTTATGTC-A-ATTTAATGCTAATATTATAGGTGGATAAG
61 AGTGGTTATGTCGATTTTTAATGCTGATATTATAGGAGGATAAG
*
13432460 TGATTTTGCAAAGCTGGAACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAATAGT
1 TG-TTTTCCAAAGCTGG-ACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAATAGT
* * *
13432525 GGTTTATGTCGATTTTTAAATGCTGGATATTATAAGCAAGTTAAG
64 GG-TTATGTCGATTTTT-AATGCT-GATATTAT-AGGAGGATAAG
* *
13432570 TGTTTTTTCCACAGCTGGACATTTCTATTAATG-TTATGTTAAATTAAATGTTAGGATTAAATAA
1 TG--TTTTCCAAAGCTGGACATTTCTATT-ATGTTTATGTTAAATTAAATGTTAGGATTAAATAG
* * * *
13432634 AGGTTATGTCGATTTTTAATGCTAGATCTTATAGGCGCATAAG
63 TGGTTATGTCGATTTTTAATGCT-GATATTATAGGAGGATAAG
13432677 TGTTTTCCAAA
1 TGTTTTCCAAA
13432688 AAACTATATC
Statistics
Matches: 196, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
104 5 0.03
105 15 0.08
106 15 0.08
107 26 0.13
108 30 0.15
109 38 0.19
110 52 0.27
111 15 0.08
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (104 bp):
TGTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAATAGTGG
TTATGTCGATTTTTAATGCTGATATTATAGGAGGATAAG
Found at i:13432621 original size:17 final size:16
Alignment explanation
Indices: 13432599--13432642 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
13432589 CATTTCTATT
13432599 AATGTTATGTTAAATTA
1 AATGTTATGTTAAA-TA
*
13432616 AATGTTAGGATTAAATA
1 AATGTTATG-TTAAATA
*
13432633 AAGGTTATGT
1 AATGTTATGT
13432643 CGATTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 17 0.74
18 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (16 bp):
AATGTTATGTTAAATA
Found at i:13440149 original size:21 final size:22
Alignment explanation
Indices: 13440125--13440171 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
13440115 TATGAGAAGC
13440125 ATTAAATGCTGGTTT-TAAA-TT
1 ATTAAAT-CTGGTTTATAAAGTT
* *
13440146 ATTATATCTTGTTTATAAAGTT
1 ATTAAATCTGGTTTATAAAGTT
13440168 ATTA
1 ATTA
13440172 TAATTTGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 6 0.27
21 10 0.45
22 6 0.27
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (22 bp):
ATTAAATCTGGTTTATAAAGTT
Found at i:13442816 original size:17 final size:18
Alignment explanation
Indices: 13442794--13442828 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13442784 TCAATTCTCC
*
13442794 TTTTTAA-AAACTCATTT
1 TTTTTAAGAAACCCATTT
13442811 TTTTTAAGAAACCCATTT
1 TTTTTAAGAAACCCATTT
13442829 CCCCTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTTAAGAAACCCATTT
Found at i:13448660 original size:41 final size:41
Alignment explanation
Indices: 13448454--13448649 Score: 315
Period size: 41 Copynumber: 4.8 Consensus size: 41
13448444 TTTATCGTTA
* * * * *
13448454 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
13448495 GTGA-A-ATATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACAT-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
13448535 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
13448576 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
13448617 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
13448650 AAGAGCCGGT
Statistics
Matches: 147, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
39 1 0.01
40 34 0.23
41 110 0.75
42 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:13448918 original size:33 final size:33
Alignment explanation
Indices: 13448863--13448959 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
13448853 GATAGATATG
*
13448863 TATATATATATGT-TGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
*
13448895 TATATTTATGTGTATGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
* * *
13448928 AATAAGTGTATGTATCTATGCATTCGGCATAG
1 TAT-A-TATATG--TGTATGCATTCGGCATAG
13448960 ATGGGTATAG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.31
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (33 bp):
TATATATATGTGTATGCATTCGGCATAGGTGAA
Found at i:13454583 original size:13 final size:13
Alignment explanation
Indices: 13454565--13454589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13454555 TATTTTAATA
13454565 TTATTTTGTGTGT
1 TTATTTTGTGTGT
13454578 TTATTTTGTGTG
1 TTATTTTGTGTG
13454590 CATTCGATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:13455854 original size:41 final size:41
Alignment explanation
Indices: 13455647--13455843 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
13455637 TTTATCGTTA
* * * *
13455647 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
13455688 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
13455729 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
13455770 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
13455811 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
13455844 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:13456115 original size:32 final size:31
Alignment explanation
Indices: 13456060--13456123 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
13456050 AGATATGTAT
13456060 ATATATATATATGTTGCATTCGGCATAGGTG
1 ATATATATATATGTTGCATTCGGCATAGGTG
* *
13456091 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
13456123 A
1 A
13456124 AAATAAGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.39
Consensus pattern (31 bp):
ATATATATATATGTTGCATTCGGCATAGGTG
Found at i:13457410 original size:10 final size:10
Alignment explanation
Indices: 13457395--13457420 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13457385 ATAGTTAATA
13457395 AATATTTTAT
1 AATATTTTAT
13457405 AATATTTTAT
1 AATATTTTAT
13457415 AATATT
1 AATATT
13457421 ATTAGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AATATTTTAT
Found at i:13461277 original size:36 final size:37
Alignment explanation
Indices: 13461230--13461301 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
13461220 ATATGTAGGT
*
13461230 TGTCCTAAGTGAA-GGTCGCTATGGATG-GTTCCTAAC
1 TGTCCTAAGTGAATGATCGCTATGGA-GAGTTCCTAAC
13461266 TGTCCTAAGTGAATGATCGCTATGGAGAGTTCCTAA
1 TGTCCTAAGTGAATGATCGCTATGGAGAGTTCCTAA
13461302 TGAAGGATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 14 0.42
37 19 0.58
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (37 bp):
TGTCCTAAGTGAATGATCGCTATGGAGAGTTCCTAAC
Found at i:13464158 original size:22 final size:22
Alignment explanation
Indices: 13464132--13464177 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
13464122 TGTTTAATCG
13464132 TGTTTCGAGTATGTTAAATGAC
1 TGTTTCGAGTATGTTAAATGAC
13464154 TGTTTCGAGTATGTTAAATGAC
1 TGTTTCGAGTATGTTAAATGAC
13464176 TG
1 TG
13464178 GTGAATTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (22 bp):
TGTTTCGAGTATGTTAAATGAC
Found at i:13471251 original size:41 final size:41
Alignment explanation
Indices: 13471206--13471288 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
13471196 TCACGATGCA
13471206 ACACTCAACAATCATCACACCTGGACCATGCAGAAACTGCC
1 ACACTCAACAATCATCACACCTGGACCATGCAGAAACTGCC
13471247 ACACTCAACAATCATCACACCTGGACCATGCAGAAACTGCC
1 ACACTCAACAATCATCACACCTGGACCATGCAGAAACTGCC
13471288 A
1 A
13471289 AACACCTTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.36, G:0.12, T:0.14
Consensus pattern (41 bp):
ACACTCAACAATCATCACACCTGGACCATGCAGAAACTGCC
Found at i:13472134 original size:36 final size:37
Alignment explanation
Indices: 13472061--13472148 Score: 135
Period size: 36 Copynumber: 2.4 Consensus size: 37
13472051 TCCTGTAACA
* *
13472061 TCAAATCCAACAAAAAACTGCAAAAATAAATTATACT
1 TCAAATCCAACCAAAAACTGCAAAAATAAATGATACT
*
13472098 TCAAATCCAACCAAAAACTGC-AAACTAAATGATACT
1 TCAAATCCAACCAAAAACTGCAAAAATAAATGATACT
13472134 TCAAATCCAA-CAAAA
1 TCAAATCCAACCAAAA
13472149 GAAATATATA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
35 5 0.10
36 23 0.48
37 20 0.42
ACGTcount: A:0.55, C:0.23, G:0.03, T:0.19
Consensus pattern (37 bp):
TCAAATCCAACCAAAAACTGCAAAAATAAATGATACT
Found at i:13479336 original size:50 final size:50
Alignment explanation
Indices: 13479210--13479355 Score: 168
Period size: 50 Copynumber: 2.9 Consensus size: 50
13479200 TAAGTGATAC
* ** ** *
13479210 CCGGTTCACATAGTAGCCTGCACATAGTACTACACACATGATCGAAGC-TAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGCGA-CCTATCAT-T
* *
13479261 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACCTATCATT
* * *
13479311 CCGGTACACGTAGTAGCCTGGACATAGTACTACACACGTGACCTA
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACCTA
13479356 GCAACTTCAC
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
50 44 0.54
51 37 0.46
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (50 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACCTATCATT
Found at i:13484780 original size:7 final size:7
Alignment explanation
Indices: 13484768--13484846 Score: 67
Period size: 7 Copynumber: 11.1 Consensus size: 7
13484758 ACTTTTTTTA
13484768 AAAAAAG
1 AAAAAAG
13484775 AAAAAATG
1 AAAAAA-G
13484783 --AAAAG
1 AAAAAAG
13484788 AAAAAAG
1 AAAAAAG
13484795 AAAAAAG
1 AAAAAAG
*
13484802 AAAAGAAA
1 AAAA-AAG
13484810 AGAAAAAG
1 A-AAAAAG
13484818 AAAAACA-
1 AAAAA-AG
13484825 AATAAAAG
1 AA-AAAAG
*
13484833 -AAAAAT
1 AAAAAAG
13484839 AAAAAAG
1 AAAAAAG
13484846 A
1 A
13484847 TAGGCTAAGG
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
5 1 0.02
6 8 0.14
7 36 0.61
8 11 0.19
9 3 0.05
ACGTcount: A:0.82, C:0.01, G:0.13, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:13484786 original size:6 final size:5
Alignment explanation
Indices: 13484770--13484836 Score: 54
Period size: 5 Copynumber: 13.8 Consensus size: 5
13484760 TTTTTTTAAA
*
13484770 AAAAG -AAA- AAATG AAAAG AAAA- AAGAA- AAAAG AAAAG AAAAG AAAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG AAAAG AAAAG -AAAAG
*
13484818 AAAA- ACAAAT AAAAG AAAA
1 AAAAG A-AAAG AAAAG AAAA
13484837 ATAAAAAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
4 10 0.19
5 36 0.69
6 6 0.12
ACGTcount: A:0.82, C:0.01, G:0.13, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:13484793 original size:20 final size:19
Alignment explanation
Indices: 13484768--13484821 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
13484758 ACTTTTTTTA
13484768 AAAAAAGAAAAAATGAAAAG
1 AAAAAAGAAAAAA-GAAAAG
13484788 AAAAAAGAAAAAAGAAAAG
1 AAAAAAGAAAAAAGAAAAG
13484807 --AAAAG-AAAAAGAAAA
1 AAAAAAGAAAAAAGAAAA
13484822 ACAAATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.29
17 5 0.15
19 6 0.18
20 13 0.38
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAAAGAAAAAAGAAAAG
Found at i:13484837 original size:6 final size:6
Alignment explanation
Indices: 13484769--13484822 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 6
13484759 CTTTTTTTAA
13484769 AAAAAG AAAAA- ATGAAAAG AAAAAAG AAAAA- AGAAAAG -AAAAG AAAAAG
1 AAAAAG AAAAAG A--AAAAG -AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG
13484818 AAAAA
1 AAAAA
13484823 CAAATAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
5 7 0.17
6 24 0.59
7 9 0.22
9 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:13485795 original size:44 final size:44
Alignment explanation
Indices: 13485728--13486166 Score: 289
Period size: 44 Copynumber: 9.7 Consensus size: 44
13485718 TATAACAAAC
* *
13485728 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
* *
13485772 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
* * * * **
13485816 CCTATCTCCCTAAAGTTGCAGTGGAG-AGAATT-AAAACAATGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAGA-TACCAAT
* * * * * ** *
13485860 CCTATAC-CTCTGAGGTTGCAGTAGGTTAGATTAAATCT-ACCATAGCAAGT
1 CTTAT-CTCCCTGAAGTTGCAGT-GG--AG--CAGAT-TGAAGATACCAA-T
* * **
13485910 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CCAAT
* * * * *
13485955 CTTATTTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTATAAATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--CCA-AT
* * * * * * * *
13486006 ATTATCTCTCTGAAGTTGCAATAGAGCAGA-T-CATAT-CAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
* *
13486047 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
** * *
13486091 CTTATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
*
13486135 CCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
13486167 AAAATAATGA
Statistics
Matches: 302, Mismatches: 70, Indels: 46
0.72 0.17 0.11
Matches are distributed among these distances:
41 26 0.09
42 2 0.01
43 7 0.02
44 158 0.52
45 42 0.14
46 2 0.01
47 8 0.03
49 10 0.03
50 23 0.08
51 24 0.08
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
Found at i:13486081 original size:92 final size:88
Alignment explanation
Indices: 13486004--13486258 Score: 213
Period size: 88 Copynumber: 2.9 Consensus size: 88
13485994 TAAATTACAG
13486004 ATATTATCTCTCTGAAGTTGCAATAGAGCAGA-TC-A-TA-TCAAACCTTATCTCCCTGAAGTTG
1 ATATTATCTCTCTGAAGTTGCAATAGAGCAGATTCAAGTACT-AAACCTTATCTCCCTGAAGTTG
*
13486065 CAGTGGAGCAGGTTGAAGATAACA
65 CAGTGGAGCAGATTGAAGATAACA
* * * * * *
13486089 ATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAATCC-TATCTCCCTGAAGTTG
1 ATATTATCTCTCTGAAGTTGCAATAGAGCAGATTCAAG-TACTAAACCTTATCTCCCTGAAGTTG
* *
13486153 CAGTGGAGCAGATT-AAAATAATGA
65 CAGTGGAGCAGATTGAAGATAA-CA
* * * * *
13486177 ATCA-TATAC-CTCTGAGGTTGCAGTAG-GTCAGATTAAATCTACCATAGCAAGTCTTATCTCCC
1 AT-ATTAT-CTCTCTGAAGTTGCAATAGAG-CAGATTCAA-GTA-C-TA--AA-CCTTATCTCCC
13486239 TGAAGTTGCAGTGGAGCAGA
57 TGAAGTTGCAGTGGAGCAGA
13486259 CTAAAATCGC
Statistics
Matches: 137, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
85 28 0.20
86 1 0.01
87 8 0.06
88 59 0.43
89 8 0.06
90 3 0.02
92 1 0.01
93 1 0.01
94 28 0.20
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
ATATTATCTCTCTGAAGTTGCAATAGAGCAGATTCAAGTACTAAACCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTGAAGATAACA
Found at i:13486198 original size:88 final size:91
Alignment explanation
Indices: 13486049--13486265 Score: 232
Period size: 88 Copynumber: 2.4 Consensus size: 91
13486039 TATCAAACCT
* * * *
13486049 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACAATCTTATCTCTTTGAAGTTGCAGT-
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAATAACAATCATATCTCTCTGAAGTTGCAGTA
*
13486113 GGAGCAGATTGAAGT-TA-C-T-AA-TCC
65 GG-GCAGATT-AAATCTACCATAAAGTCC
* *
13486137 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATGAATCATATAC-CTCTGAGGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAA-CAATCATAT-CTCTCTGAAGTTGCAGT
* *
13486201 AGGTCAGATTAAATCTACCATAGCAAGTCT
64 AGGGCAGATTAAATCTACCATA--AAGTCC
*
13486231 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAT
13486266 CGCAAGTCTC
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
87 9 0.08
88 57 0.52
89 4 0.04
90 1 0.01
93 2 0.02
94 36 0.33
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (91 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAACAATCATATCTCTCTGAAGTTGCAGTAG
GGCAGATTAAATCTACCATAAAGTCC
Found at i:13488044 original size:17 final size:18
Alignment explanation
Indices: 13488017--13488054 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
13488007 TACAATAAAT
*
13488017 AATATATAATAAATTTGA
1 AATATATAATAAATATGA
*
13488035 AATA-ATAATACATATGA
1 AATATATAATAAATATGA
13488052 AAT
1 AAT
13488055 TTAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
AATATATAATAAATATGA
Found at i:13488128 original size:21 final size:21
Alignment explanation
Indices: 13488102--13488170 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 21
13488092 TGATAAATCC
*
13488102 AAAATATATATAATAAATTTA
1 AAAATATATATGATAAATTTA
13488123 AAAATAT-TAATGATAAATTTGA
1 AAAATATAT-ATGATAAATTT-A
*
13488145 AATAGATATACATGATAAATTTA
1 AA-A-ATATATATGATAAATTTA
13488168 AAA
1 AAA
13488171 TAATGTTAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
20 1 0.02
21 17 0.41
22 4 0.10
23 4 0.10
24 15 0.37
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (21 bp):
AAAATATATATGATAAATTTA
Found at i:13488153 original size:24 final size:23
Alignment explanation
Indices: 13488013--13488245 Score: 116
Period size: 24 Copynumber: 10.3 Consensus size: 23
13488003 AATTTACAAT
* *
13488013 AAATAATA-T-ATAATAAATTTG
1 AAATAATATTAATGATAAATTTA
*
13488034 AAATAATAATACAT-ATGAAATTT-
1 AAATAATATTA-ATGAT-AAATTTA
* *
13488057 AAA-AATTTTGATGAT-AATTCTA
1 AAATAATATTAATGATAAATT-TA
* **
13488079 GAATAATCA-TAAGTGATAAATCCA
1 AAATAAT-ATTAA-TGATAAATTTA
*
13488103 AAAT-ATA-T-ATAATAAATTT-
1 AAATAATATTAATGATAAATTTA
*
13488122 AAA-AATATTAATGATAAATTTG
1 AAATAATATTAATGATAAATTTA
13488144 AAATAGATA-TACATGATAAATTTA
1 AAATA-ATATTA-ATGATAAATTTA
* ** *
13488168 AAATAATGTTAACAATGAATTTA
1 AAATAATATTAATGATAAATTTA
* *
13488191 AAATAATAATATTGATAAA-TTA
1 AAATAATATTAATGATAAATTTA
** *
13488213 CAAATAATAAAAGATGATAAATGTA
1 -AAATAATATTA-ATGATAAATTTA
13488238 AAATAATA
1 AAATAATA
13488246 ATATACAATA
Statistics
Matches: 163, Mismatches: 27, Indels: 41
0.71 0.12 0.18
Matches are distributed among these distances:
19 6 0.04
20 12 0.07
21 22 0.13
22 17 0.10
23 49 0.30
24 52 0.32
25 5 0.03
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.34
Consensus pattern (23 bp):
AAATAATATTAATGATAAATTTA
Found at i:13488656 original size:27 final size:26
Alignment explanation
Indices: 13488605--13488656 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
13488595 ATAATATTAA
* *
13488605 AAAAAAATAAAGTATATAATTAATGG
1 AAAAAAATAAAGAATATAATGAATGG
13488631 AAAAAAATAAAAGAATGATAA-GAATG
1 AAAAAAAT-AAAGAAT-ATAATGAATG
13488657 ACTAAATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 10 0.45
28 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.21
Consensus pattern (26 bp):
AAAAAAATAAAGAATATAATGAATGG
Found at i:13489129 original size:22 final size:23
Alignment explanation
Indices: 13489087--13489131 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
13489077 AAACTAAACC
13489087 TCTAAGATTACAAAATCTTATCT
1 TCTAAGATTACAAAATCTTATCT
* *
13489110 TCTAAGATTGC-ATATCTTATCT
1 TCTAAGATTACAAAATCTTATCT
13489132 AAGATTGCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (23 bp):
TCTAAGATTACAAAATCTTATCT
Found at i:13489134 original size:19 final size:19
Alignment explanation
Indices: 13489110--13489163 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
13489100 AATCTTATCT
*
13489110 TCTAAGATTGCATATCTTA
1 TCTAAGATTGCATATCATA
* *
13489129 TCTAAGATTGCGTCTCATA
1 TCTAAGATTGCATATCATA
13489148 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
13489164 CTTGAAGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13489392 original size:15 final size:15
Alignment explanation
Indices: 13489372--13489403 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13489362 CTTAGTTTTC
13489372 TTATTTCTTTTTTAT
1 TTATTTCTTTTTTAT
13489387 TTATTTCTTTTTTAT
1 TTATTTCTTTTTTAT
13489402 TT
1 TT
13489404 TTTTTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTCTTTTTTAT
Found at i:13493254 original size:9 final size:9
Alignment explanation
Indices: 13493240--13493338 Score: 78
Period size: 9 Copynumber: 11.0 Consensus size: 9
13493230 TGTTTATTTA
13493240 TAAGTTATG
1 TAAGTTATG
13493249 TAAGTTATG
1 TAAGTTATG
* * *
13493258 ATATGATATA
1 -TAAGTTATG
*
13493268 T-ATTTATG
1 TAAGTTATG
13493276 TAAGTTATG
1 TAAGTTATG
13493285 TAAGTTATG
1 TAAGTTATG
* *
13493294 -ATA-TAATA
1 TA-AGTTATG
*
13493302 TATATTTATG
1 TA-AGTTATG
13493312 TAAGTTATG
1 TAAGTTATG
13493321 TAAGTTATG
1 TAAGTTATG
*
13493330 CAAGTTATG
1 TAAGTTATG
13493339 ATCCAAAGTT
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
8 8 0.11
9 52 0.73
10 11 0.15
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:13493285 original size:36 final size:36
Alignment explanation
Indices: 13493240--13493329 Score: 171
Period size: 36 Copynumber: 2.5 Consensus size: 36
13493230 TGTTTATTTA
*
13493240 TAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TAAGTTATGTAAGTTATGATATAATATATATTTATG
13493276 TAAGTTATGTAAGTTATGATATAATATATATTTATG
1 TAAGTTATGTAAGTTATGATATAATATATATTTATG
13493312 TAAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATG
13493330 CAAGTTATGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (36 bp):
TAAGTTATGTAAGTTATGATATAATATATATTTATG
Found at i:13493408 original size:13 final size:13
Alignment explanation
Indices: 13493390--13493415 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13493380 TGATTATCAT
13493390 TTTTAAATTTTAA
1 TTTTAAATTTTAA
13493403 TTTTAAATTTTAA
1 TTTTAAATTTTAA
13493416 CCCTTTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:13494053 original size:13 final size:13
Alignment explanation
Indices: 13494037--13494070 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
13494027 AATTTAAATT
13494037 TTAAATTTTTTTA
1 TTAAATTTTTTTA
13494050 TTAAATTTTTTTA
1 TTAAATTTTTTTA
13494063 TTAAATTT
1 TTAAATTT
13494071 AAAATTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTAAATTTTTTTA
Found at i:13495191 original size:13 final size:14
Alignment explanation
Indices: 13495165--13495193 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13495155 ATAACAATTA
13495165 AAACATTGATTAAT
1 AAACATTGATTAAT
13495179 AAACATT-ATTAAT
1 AAACATTGATTAAT
13495192 AA
1 AA
13495194 CAATTTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (14 bp):
AAACATTGATTAAT
Found at i:13497144 original size:8 final size:9
Alignment explanation
Indices: 13497125--13497150 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13497115 TTCGGTAGGT
13497125 AAAAATTAA
1 AAAAATTAA
13497134 AAAAATTAA
1 AAAAATTAA
13497143 AAAAATTA
1 AAAAATTA
13497151 GAAGAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAATTAA
Found at i:13497501 original size:48 final size:48
Alignment explanation
Indices: 13497406--13497552 Score: 201
Period size: 48 Copynumber: 3.0 Consensus size: 48
13497396 ATAAAAGCAC
*
13497406 AAGGGACGGGATTTTGGGGTTTTCAAGCAACA-AAAAGACTGAGAAAGAA
1 AAGGGACGAGATTTTGGGG-TTTCAAGCAA-AGAAAAGACTGAGAAAGAA
*
13497455 AAGGGACGAGATTTTGGGGTTTCAAGCAAAGAAAAGTCT-AGAAAAGAA
1 AAGGGACGAGATTTTGGGGTTTCAAGCAAAGAAAAGACTGAG-AAAGAA
* *
13497503 AAGGGA-AATGATTTTAGGGTTTCAAGCAAAGAAAAGACTGAGAAAGAA
1 AAGGGACGA-GATTTTGGGGTTTCAAGCAAAGAAAAGACTGAGAAAGAA
13497551 AA
1 AA
13497553 TAACTCGTCT
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
47 4 0.04
48 65 0.73
49 20 0.22
ACGTcount: A:0.45, C:0.08, G:0.29, T:0.18
Consensus pattern (48 bp):
AAGGGACGAGATTTTGGGGTTTCAAGCAAAGAAAAGACTGAGAAAGAA
Found at i:13497728 original size:41 final size:40
Alignment explanation
Indices: 13497614--13497729 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 40
13497604 AAAAGTAAAA
* * * * *
13497614 AACCTTTTGCGGCCTTTTTACCACAAACGCAGCTATTACT
1 AACCTTTTGTGGCGTTTTTATCATAAACGCCGCTATTACT
*
13497654 AACCTTTTGTGGCGTTTTTATCATAAACACCGCTATTACT
1 AACCTTTTGTGGCGTTTTTATCATAAACGCCGCTATTACT
* *
13497694 TACCTTTTGTGGTGTTTTTTATCATAAACGCCGCTA
1 AACCTTTTGTGGCG-TTTTTATCATAAACGCCGCTA
13497730 CTGCTTTACC
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 46 0.70
41 20 0.30
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (40 bp):
AACCTTTTGTGGCGTTTTTATCATAAACGCCGCTATTACT
Found at i:13497753 original size:42 final size:41
Alignment explanation
Indices: 13497668--13497754 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
13497658 TTTTGTGGCG
* * * **
13497668 TTTTTATCATAAACACCGCTATTACTTACCTTTTGTGGTGT
1 TTTTTATCATAAACACCGCTACTACTTACCTATTGCGACGT
* *
13497709 TTTTTATCATAAACGCCGCTACTGCTTTACCTATTGCGACGT
1 TTTTTATCATAAACACCGCTACTAC-TTACCTATTGCGACGT
13497751 TTTT
1 TTTT
13497755 CCGTTAGCAC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 22 0.58
42 16 0.42
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.45
Consensus pattern (41 bp):
TTTTTATCATAAACACCGCTACTACTTACCTATTGCGACGT
Found at i:13499966 original size:15 final size:15
Alignment explanation
Indices: 13499946--13499979 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13499936 TTCAATTACT
13499946 TTTAATTTAGT-TTAA
1 TTTAATTTA-TCTTAA
13499961 TTTAATTTATCTTAA
1 TTTAATTTATCTTAA
13499976 TTTA
1 TTTA
13499980 TTTTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTAATTTATCTTAA
Found at i:13500003 original size:21 final size:21
Alignment explanation
Indices: 13499961--13500003 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13499951 TTTAGTTTAA
* * **
13499961 TTTAATTTATCTTAATTTATT
1 TTTAATTTAACATAATAAATT
13499982 TTTAATTTAACATAATAAATT
1 TTTAATTTAACATAATAAATT
13500003 T
1 T
13500004 CTTTTATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAATTTAACATAATAAATT
Found at i:13505015 original size:24 final size:24
Alignment explanation
Indices: 13504967--13505013 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
13504957 ACTGGTCATA
*
13504967 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
13504991 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
13505014 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:13512551 original size:27 final size:28
Alignment explanation
Indices: 13512511--13512697 Score: 142
Period size: 27 Copynumber: 7.0 Consensus size: 28
13512501 GGTCGAATAC
* *
13512511 CGAAATAGCATCGAT-GGGTAAAATGAT
1 CGAAATACCCTCGATAGGGTAAAATGAT
13512538 CGAAATACCCTCGAT-GGGTAAAATGA-
1 CGAAATACCCTCGATAGGGTAAAATGAT
* * * *
13512564 CTAAAATGCCCT-TATAAGGTAAAATGAT
1 C-GAAATACCCTCGATAGGGTAAAATGAT
* * *
13512592 CGAAATACCCCCG-TAAGGTAGAAT-AT
1 CGAAATACCCTCGATAGGGTAAAATGAT
*
13512618 CGAAATACCC-CCATAGGGTAAAATGAT
1 CGAAATACCCTCGATAGGGTAAAATGAT
* * *
13512645 CGTAGTACCCT-TATAGGGTAAAATGA-
1 CGAAATACCCTCGATAGGGTAAAATGAT
* * *
13512671 CTGTAATGCCCTTG-TAGGGTAAAATGA
1 C-GAAATACCCTCGATAGGGTAAAATGA
13512698 CTGTAATACC
Statistics
Matches: 131, Mismatches: 20, Indels: 18
0.78 0.12 0.11
Matches are distributed among these distances:
25 1 0.01
26 25 0.19
27 104 0.79
28 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (28 bp):
CGAAATACCCTCGATAGGGTAAAATGAT
Found at i:13512624 original size:26 final size:27
Alignment explanation
Indices: 13512527--13512724 Score: 118
Period size: 27 Copynumber: 7.4 Consensus size: 27
13512517 AGCATCGATG
* *
13512527 GGTAAAATGATCGAAATACCCTCG-ATG
1 GGTAAAATGATCGAAATACCCCCGTA-A
* * ***
13512554 GGTAAAATGA-CTAAAATGCCCTTATAA
1 GGTAAAATGATC-GAAATACCCCCGTAA
13512581 GGTAAAATGATCGAAATACCCCCGTAA
1 GGTAAAATGATCGAAATACCCCCGTAA
* * *
13512608 GGTAGAAT-ATCGAAATACCCCCATAG
1 GGTAAAATGATCGAAATACCCCCGTAA
* * *** *
13512634 GGTAAAATGATCGTAGTACCCTTATAG
1 GGTAAAATGATCGAAATACCCCCGTAA
* * ** *
13512661 GGTAAAATGA-CTGTAATGCCCTTGTAG
1 GGTAAAATGATC-GAAATACCCCCGTAA
* *
13512688 GGTAAAATGA-CTGTAATACCCCTGTAA
1 GGTAAAATGATC-GAAATACCCCCGTAA
13512715 GGTAAAATGA
1 GGTAAAATGA
13512725 CCGTAATGCC
Statistics
Matches: 142, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
26 25 0.18
27 115 0.81
28 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (27 bp):
GGTAAAATGATCGAAATACCCCCGTAA
Found at i:13512692 original size:107 final size:107
Alignment explanation
Indices: 13512526--13512718 Score: 273
Period size: 107 Copynumber: 1.8 Consensus size: 107
13512516 TAGCATCGAT
13512526 GGGTAAAATGATCGAAATACCCTCGATGGGTAAAATGACTAAAATGCCCTTATAAGGTAAAATGA
1 GGGTAAAATGATCGAAATACCCTCGATGGGTAAAATGACTAAAATGCCCTTATAAGGTAAAATGA
13512591 -TCGAAATACCCCCGTAAGGTAGAATATCGAAATACCCCCATA
66 CT-GAAATACCCCCGTAAGGTAGAATATCGAAATACCCCCATA
* * * ** * *
13512633 GGGTAAAATGATCGTAGTACCCT-TATAGGGTAAAATGACTGTAATGCCCTTGTAGGGTAAAATG
1 GGGTAAAATGATCGAAATACCCTCGAT-GGGTAAAATGACTAAAATGCCCTTATAAGGTAAAATG
* *
13512697 ACTGTAATACCCCTGTAAGGTA
65 ACTGAAATACCCCCGTAAGGTA
13512719 AAATGACCGT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
106 2 0.03
107 72 0.96
108 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (107 bp):
GGGTAAAATGATCGAAATACCCTCGATGGGTAAAATGACTAAAATGCCCTTATAAGGTAAAATGA
CTGAAATACCCCCGTAAGGTAGAATATCGAAATACCCCCATA
Found at i:13512698 original size:27 final size:27
Alignment explanation
Indices: 13512631--13512736 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
13512621 AATACCCCCA
* *
13512631 TAGGGTAAAATGA-TCGTAGTACCCTTA
1 TAGGGTAAAATGACT-GTAATACCCTTG
*
13512658 TAGGGTAAAATGACTGTAATGCCCTTG
1 TAGGGTAAAATGACTGTAATACCCTTG
*
13512685 TAGGGTAAAATGACTGTAATACCCCTG
1 TAGGGTAAAATGACTGTAATACCCTTG
* * *
13512712 TAAGGTAAAATGACCGTAATGCCCT
1 TAGGGTAAAATGACTGTAATACCCT
13512737 GGTGTGTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 68 0.99
28 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (27 bp):
TAGGGTAAAATGACTGTAATACCCTTG
Found at i:13512719 original size:54 final size:54
Alignment explanation
Indices: 13512526--13512736 Score: 189
Period size: 54 Copynumber: 3.9 Consensus size: 54
13512516 TAGCATCGAT
* * *
13512526 GGGTAAAATGATCGAAATA-CCCTCG-ATGGGTAAAATGACTAAAATGCCCTTATA
1 GGGTAAAATGATCGTAATACCCCT-GTA-AGGTAAAATGACTGAAATGCCCTTATA
* * * * * **
13512580 AGGTAAAATGATCGAAATACCCCCGTAAGGTAGAAT-A-TCGAAATACCCCCATA
1 GGGTAAAATGATCGTAATACCCCTGTAAGGTAAAATGACT-GAAATGCCCTTATA
* * * * * *
13512633 GGGTAAAATGATCGTAGTACCCTTATAGGGTAAAATGACTGTAATGCCCTTGTA
1 GGGTAAAATGATCGTAATACCCCTGTAAGGTAAAATGACTGAAATGCCCTTATA
* *
13512687 GGGTAAAATGA-CTGTAATACCCCTGTAAGGTAAAATGACCGTAATGCCCT
1 GGGTAAAATGATC-GTAATACCCCTGTAAGGTAAAATGACTGAAATGCCCT
13512737 GGTGTGTAAA
Statistics
Matches: 125, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
52 1 0.01
53 40 0.32
54 79 0.63
55 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (54 bp):
GGGTAAAATGATCGTAATACCCCTGTAAGGTAAAATGACTGAAATGCCCTTATA
Found at i:13512828 original size:24 final size:23
Alignment explanation
Indices: 13512771--13512834 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
13512761 CCTCGAGGTC
*
13512771 AAATGATTGTTTTGTCTGTGGTT
1 AAATGATTGATTTGTCTGTGGTT
*
13512794 AAATGATTGATTTGTCTGTGTTT
1 AAATGATTGATTTGTCTGTGGTT
**
13512817 GGTATGATTGATTTGTCT
1 -AAATGATTGATTTGTCT
13512835 ATGATTTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.19, C:0.05, G:0.25, T:0.52
Consensus pattern (23 bp):
AAATGATTGATTTGTCTGTGGTT
Found at i:13512847 original size:24 final size:23
Alignment explanation
Indices: 13512772--13512853 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
13512762 CTCGAGGTCA
* * *
13512772 AATGATTGTTTTGTCTGTGGTTA
1 AATGATTGATTTGTCTGTGTTTG
13512795 AATGATTGATTTGTCTGTGTTTGG
1 AATGATTGATTTGTCTGTGTTT-G
* *
13512819 TATGATTGATTTGTCTATGATTTG
1 AATGATTGATTTGTCTGTG-TTTG
*
13512843 AATGACTGATT
1 AATGATTGATT
13512854 CTAAGCATGG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 20 0.40
24 27 0.54
25 3 0.06
ACGTcount: A:0.21, C:0.05, G:0.24, T:0.50
Consensus pattern (23 bp):
AATGATTGATTTGTCTGTGTTTG
Found at i:13513072 original size:32 final size:32
Alignment explanation
Indices: 13513000--13513114 Score: 126
Period size: 32 Copynumber: 3.6 Consensus size: 32
13512990 TGCTGTGAAC
* * *
13513000 TTACTGATGGCTTTGTGTCGATCATAGT-ACCG
1 TTACTGATGGCTTTGTGCCGGTCATA-TCACTG
* *
13513032 TTATTGATGGCTTTGTGCCGGTCATTTCACTG
1 TTACTGATGGCTTTGTGCCGGTCATATCACTG
*
13513064 TTACTGATGG-TTGTGTACCGGTCATATCACTG
1 TTACTGATGGCTT-TGTGCCGGTCATATCACTG
* *
13513096 CTACTGATGGTTTTGTGCC
1 TTACTGATGGCTTTGTGCC
13513115 AATCACATTA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
31 3 0.04
32 65 0.93
33 2 0.03
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (32 bp):
TTACTGATGGCTTTGTGCCGGTCATATCACTG
Found at i:13513156 original size:22 final size:21
Alignment explanation
Indices: 13513131--13513181 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
13513121 ATTACTGTAC
* *
13513131 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTTATA-CCATCCTGT
* *
13513153 TTATAGCTTATACTATCCTGT
1 TTATGGCTTATACCATCCTGT
13513174 TTATGGCT
1 TTATGGCT
13513182 CTTATCCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (21 bp):
TTATGGCTTATACCATCCTGT
Found at i:13531082 original size:15 final size:15
Alignment explanation
Indices: 13531062--13531098 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
13531052 TGGTCCAAAT
13531062 TGGCCTCATTATTGG
1 TGGCCTCATTATTGG
13531077 TGGCCTCATTATTGG
1 TGGCCTCATTATTGG
*
13531092 CGGCCTC
1 TGGCCTC
13531099 GATAAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.11, C:0.27, G:0.27, T:0.35
Consensus pattern (15 bp):
TGGCCTCATTATTGG
Found at i:13537050 original size:21 final size:22
Alignment explanation
Indices: 13536997--13537051 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
13536987 AGATTTGATA
*
13536997 TATTCTATTATTTGATTTCTAG
1 TATTTTATTATTTGATTTCTAG
13537019 TA-TTTATTTATTT-ATTTTCT-G
1 TATTTTA-TTATTTGA-TTTCTAG
13537040 TATTTTATTATT
1 TATTTTATTATT
13537052 ATTAGTAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
TATTTTATTATTTGATTTCTAG
Found at i:13537537 original size:15 final size:15
Alignment explanation
Indices: 13537517--13537545 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13537507 GGATTCATCG
13537517 GCAGCAACAACAATA
1 GCAGCAACAACAATA
13537532 GCAGCAACAACAAT
1 GCAGCAACAACAAT
13537546 GCATAACTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.28, G:0.14, T:0.07
Consensus pattern (15 bp):
GCAGCAACAACAATA
Found at i:13544627 original size:26 final size:26
Alignment explanation
Indices: 13544596--13544776 Score: 112
Period size: 29 Copynumber: 6.5 Consensus size: 26
13544586 CTTAAAGAAA
**
13544596 GCCTTTGTGGCTATCTCTGGAAGGAT
1 GCCTTTGTGGCTATCTCTAAAAGGAT
* * *
13544622 GTCTTTGTGGTTATCTCTAAAATGAT
1 GCCTTTGTGGCTATCTCTAAAAGGAT
*
13544648 GCCTTTGTGGCTATCTCTATTAAAAGGAA
1 GCCTTTGTGGCTATCTC---TAAAAGGAT
* * * * *
13544677 GACATTGTGGCAATCTCTGTTAAAAAGAA
1 GCCTTTGTGGCTATCTC---TAAAAGGAT
* *
13544706 GCCTTTGTGGCAATCTCTATTAAAAGGAA
1 GCCTTTGTGGCTATCTC---TAAAAGGAT
*
13544735 GCGTTTGTGGCTATCTCTTCTAAAAAGG-T
1 GCCTTTGTGGCTA--TC-TCT-AAAAGGAT
13544764 GCCTTTGTGGCTA
1 GCCTTTGTGGCTA
13544777 ACTTAGTTAA
Statistics
Matches: 126, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
26 36 0.29
29 80 0.63
30 6 0.05
31 2 0.02
32 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (26 bp):
GCCTTTGTGGCTATCTCTAAAAGGAT
Found at i:13544684 original size:29 final size:28
Alignment explanation
Indices: 13544650--13544833 Score: 146
Period size: 29 Copynumber: 6.4 Consensus size: 28
13544640 AAAATGATGC
*
13544650 CTTTGTGGCTATCTCTATTAAAAGGAAG
1 CTTTGTGGCAATCTCTATTAAAAGGAAG
* * *
13544678 ACATTGTGGCAATCTCTGTTAAAAAGAAG
1 -CTTTGTGGCAATCTCTATTAAAAGGAAG
13544707 CCTTTGTGGCAATCTCTATTAAAAGGAAG
1 -CTTTGTGGCAATCTCTATTAAAAGGAAG
* *
13544736 CGTTTGTGGCTATCTCT-TCTAAAAAGG-TG
1 C-TTTGTGGCAATCTCTAT-T-AAAAGGAAG
*
13544765 CCTTTGTGGCTAA-CT-TAGTT-AAATGAATG
1 -CTTTGTGGC-AATCTCTA-TTAAAAGGAA-G
* *
13544794 -TCTTGTGGCAAACTCTATTAAAAGGATG
1 CT-TTGTGGCAATCTCTATTAAAAGGAAG
13544822 TCTTTGTGGCAA
1 -CTTTGTGGCAA
13544834 AACTCTAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 30
0.74 0.09 0.18
Matches are distributed among these distances:
27 7 0.06
28 15 0.12
29 93 0.74
30 10 0.08
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (28 bp):
CTTTGTGGCAATCTCTATTAAAAGGAAG
Found at i:13544722 original size:58 final size:55
Alignment explanation
Indices: 13544639--13544833 Score: 189
Period size: 58 Copynumber: 3.4 Consensus size: 55
13544629 TGGTTATCTC
* *
13544639 TAAAATGATGCCTTTGTGGCTATCTCTATTAAAAGGAAGACATTGTGGCAATCTCTGT
1 TAAAAAGATGCCTTTGTGGCAATCTCTATTAAAAGGAAG-C-TTGTGGCAATCTCT-T
* *
13544697 TAAAAAGAAGCCTTTGTGGCAATCTCTATTAAAAGGAAGCGTTTGTGGCTATCTCTT
1 TAAAAAGATGCCTTTGTGGCAATCTCTATTAAAAGGAAGC--TTGTGGCAATCTCTT
* * *
13544754 CTAAAAAGGTGCCTTTGTGGCTAA-CT-TAGTT-AAATGAATGTCTTGTGGCAAACTCTAT
1 -TAAAAAGATGCCTTTGTGGC-AATCTCTA-TTAAAAGGAA-G-CTTGTGGCAATCTCT-T
* *
13544812 TAAAAGGATGTCTTTGTGGCAA
1 TAAAAAGATGCCTTTGTGGCAA
13544834 AACTCTAAAA
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
56 2 0.02
57 39 0.33
58 73 0.62
59 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (55 bp):
TAAAAAGATGCCTTTGTGGCAATCTCTATTAAAAGGAAGCTTGTGGCAATCTCTT
Found at i:13544772 original size:87 final size:86
Alignment explanation
Indices: 13544651--13544819 Score: 195
Period size: 87 Copynumber: 2.0 Consensus size: 86
13544641 AAATGATGCC
13544651 TTTGTGGCTATCTCTATTAAAAGGAAGACATTGTGGC-AATCTCT-GTTAAAAAGAA-GCCTTTG
1 TTTGTGGCTATCTCTATTAAAAGGAAGACATTGTGGCTAA-CT-TAGTT-AAAAGAATGCC-TTG
*
13544713 TGGCAATCTCTATTAAAAGGAAGCG
62 TGGCAAACTCTATTAAAAGGAAGCG
* * * * *
13544738 TTTGTGGCTATCTCT-TCTAAAAAGG-TGCCTTTGTGGCTAACTTAGTTAAATGAATGTCTTGTG
1 TTTGTGGCTATCTCTAT-T-AAAAGGAAGACATTGTGGCTAACTTAGTTAAAAGAATGCCTTGTG
13544801 GCAAACTCTATTAAAAGGA
64 GCAAACTCTATTAAAAGGA
13544820 TGTCTTTGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
86 31 0.44
87 32 0.45
88 8 0.11
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (86 bp):
TTTGTGGCTATCTCTATTAAAAGGAAGACATTGTGGCTAACTTAGTTAAAAGAATGCCTTGTGGC
AAACTCTATTAAAAGGAAGCG
Found at i:13546456 original size:16 final size:16
Alignment explanation
Indices: 13546435--13546467 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13546425 AACTAAATCC
13546435 AATAGATGACTCCCTA
1 AATAGATGACTCCCTA
13546451 AATAGATGACTCCCTA
1 AATAGATGACTCCCTA
13546467 A
1 A
13546468 CACATGTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (16 bp):
AATAGATGACTCCCTA
Found at i:13548845 original size:26 final size:27
Alignment explanation
Indices: 13548804--13548932 Score: 97
Period size: 26 Copynumber: 4.9 Consensus size: 27
13548794 CATCTTGACG
* * *
13548804 GACTGCCCCATTTTTATTTTCCTAGCA
1 GACTACCCCATGTTTATTGTCCTAGCA
* ** *
13548831 GACTA-TCCATGTTTAACGTCCTGGC-
1 GACTACCCCATGTTTATTGTCCTAGCA
* *
13548856 GAACTACCCCAT-TTTGTTGTCCCAGCA
1 G-ACTACCCCATGTTTATTGTCCTAGCA
* **
13548883 GACTA-TCCATGTTTATCATCCTAG-A
1 GACTACCCCATGTTTATTGTCCTAGCA
13548908 GGACTACCCCATGTTTATTGTCCTA
1 -GACTACCCCATGTTTATTGTCCTA
13548933 AAGAACTCCA
Statistics
Matches: 75, Mismatches: 21, Indels: 12
0.69 0.19 0.11
Matches are distributed among these distances:
25 6 0.08
26 45 0.60
27 24 0.32
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.35
Consensus pattern (27 bp):
GACTACCCCATGTTTATTGTCCTAGCA
Found at i:13548888 original size:52 final size:52
Alignment explanation
Indices: 13548809--13548930 Score: 154
Period size: 52 Copynumber: 2.3 Consensus size: 52
13548799 TGACGGACTG
* * * * *
13548809 CCCCATTTTTATTTTCCTAGCAGACTATCCATGTTTAACGTCCTGGCGAACTA
1 CCCCA-TTTTATTGTCCCAGCAGACTATCCATGTTTAACATCCTAGAGAACTA
* * *
13548862 CCCCATTTTGTTGTCCCAGCAGACTATCCATGTTTATCATCCTAGAGGACTA
1 CCCCATTTTATTGTCCCAGCAGACTATCCATGTTTAACATCCTAGAGAACTA
13548914 CCCCATGTTTATTGTCC
1 CCCCAT-TTTATTGTCC
13548931 TAAAGAACTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 45 0.76
53 14 0.24
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (52 bp):
CCCCATTTTATTGTCCCAGCAGACTATCCATGTTTAACATCCTAGAGAACTA
Found at i:13561963 original size:51 final size:49
Alignment explanation
Indices: 13561838--13562030 Score: 156
Period size: 51 Copynumber: 3.9 Consensus size: 49
13561828 CAATGATGTT
* * * *
13561838 CGGTTCACATGGTAGCCTGCACATAGTACTACATATGTGACC-ATTACCATT-
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCGA--A--ATTC
* * * * *
13561889 TGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTCTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCGAAA-T-TC
* * * * ** * *
13561940 CGGTACGCATAGTGGCCTGCACATAGTACTATACATGCAACCTATATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCGAAATTC
*
13561989 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC
13562031 ATCACTTTCT
Statistics
Matches: 109, Mismatches: 29, Indels: 10
0.74 0.20 0.07
Matches are distributed among these distances:
48 1 0.01
49 38 0.35
50 3 0.03
51 66 0.61
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCGAAATTC
Found at i:13562007 original size:49 final size:51
Alignment explanation
Indices: 13561892--13562025 Score: 155
Period size: 49 Copynumber: 2.7 Consensus size: 51
13561882 TACCATTTGA
* ** *
13561892 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTCTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGCAACCGAAACTCTCCGG
* * * * * * *
13561943 TACGCATAGTGGCCTGCACATAGTACTATACATGCAACCTATA-T-TCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGCAACCGAAACTCTCCGG
13561992 TACACGTAGTAGCCTGCACATAGTACTACACACG
1 TACACGTAGTAGCCTGCACATAGTACTACACACG
13562026 TGACCATCAC
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
49 34 0.51
50 1 0.01
51 32 0.48
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGCAACCGAAACTCTCCGG
Found at i:13567685 original size:29 final size:28
Alignment explanation
Indices: 13567649--13567726 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
13567639 TCATGAGATT
13567649 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
13567679 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
13567706 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
13567727 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:13567993 original size:173 final size:174
Alignment explanation
Indices: 13567679--13568005 Score: 575
Period size: 173 Copynumber: 1.9 Consensus size: 174
13567669 AAATTGTACA
* *
13567679 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
13567744 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
13567809 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
13567853 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
13567918 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
13567982 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
13568006 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
173 81 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:13575820 original size:29 final size:28
Alignment explanation
Indices: 13575784--13575861 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
13575774 TCATGAGATT
13575784 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
13575814 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
13575841 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
13575862 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:13576128 original size:173 final size:174
Alignment explanation
Indices: 13575814--13576140 Score: 575
Period size: 173 Copynumber: 1.9 Consensus size: 174
13575804 AAATTGTACA
* *
13575814 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
13575879 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
13575944 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
13575988 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
13576053 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
13576117 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
13576141 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
173 81 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:13576887 original size:23 final size:23
Alignment explanation
Indices: 13576861--13576910 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
13576851 TGTGATATGT
13576861 ATGATGAATTACTAGTTAGATCA
1 ATGATGAATTACTAGTTAGATCA
13576884 ATGATGAATTACTAGTTAGATCA
1 ATGATGAATTACTAGTTAGATCA
13576907 ATGA
1 ATGA
13576911 GAAATCACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (23 bp):
ATGATGAATTACTAGTTAGATCA
Found at i:13580375 original size:18 final size:18
Alignment explanation
Indices: 13580348--13580383 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13580338 ACTCCCAATC
13580348 AATCCAATCTCTCAGCAT
1 AATCCAATCTCTCAGCAT
* *
13580366 AATCCGATCTCTCGGCAT
1 AATCCAATCTCTCAGCAT
13580384 TTCAAGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (18 bp):
AATCCAATCTCTCAGCAT
Found at i:13580823 original size:12 final size:12
Alignment explanation
Indices: 13580806--13580830 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13580796 ATGGGTTAGG
13580806 AATTATCACACT
1 AATTATCACACT
13580818 AATTATCACACT
1 AATTATCACACT
13580830 A
1 A
13580831 TCACAGGGTA
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTATCACACT
Found at i:13587338 original size:27 final size:26
Alignment explanation
Indices: 13587304--13587764 Score: 491
Period size: 27 Copynumber: 17.2 Consensus size: 26
13587294 CATTTCATCT
** *
13587304 CCTA-GGGGTATAACAGTTATTTTAC
1 CCTATGGGGTATTTCAGTCATTTTAC
13587329 CCTATTGGGGTATTTCAGTCATTTTAC
1 CCTA-TGGGGTATTTCAGTCATTTTAC
* *
13587356 CGTATGGGGGTATTTCAGTCATTCTAC
1 CCTAT-GGGGTATTTCAGTCATTTTAC
*
13587383 CTTATGGGGGTATTTCAGTCATTTTAC
1 CCTAT-GGGGTATTTCAGTCATTTTAC
*
13587410 CCTATGGGAGTATTTC-GTTCATTTTAT
1 CCTATGGG-GTATTTCAG-TCATTTTAC
*
13587437 CCTATGAGGGTATTTTAGTCATTTTAC
1 CCTATG-GGGTATTTCAGTCATTTTAC
*
13587464 CCTATGAGGGTATTTTAGTCATTTTAC
1 CCTATG-GGGTATTTCAGTCATTTTAC
*
13587491 CCTATAGGGGTATTTCGGTCATTTTAC
1 CCTAT-GGGGTATTTCAGTCATTTTAC
*
13587518 CCTATGAGGGTAATTTGA-TCATTTTAC
1 CCTATG-GGGT-ATTTCAGTCATTTTAC
13587545 CCTATGGGGGTATTTCAGTCATTTTAC
1 CCTAT-GGGGTATTTCAGTCATTTTAC
13587572 CCTATGAGGGTATTTC-GATCATTTTAC
1 CCTATG-GGGTATTTCAG-TCATTTTAC
* * * * *
13587599 CTTATGAGGTTATTTCGGTCATTCTAT
1 CCTATG-GGGTATTTCAGTCATTTTAC
** *
13587626 CCTATAGGGGTATTTTGGTCATTCTAC
1 CCTAT-GGGGTATTTCAGTCATTTTAC
**
13587653 CCTATAGGGGTATTTTTGTCATTTTAC
1 CCTAT-GGGGTATTTCAGTCATTTTAC
* * *
13587680 CCTGTGGGGGTATTTCGGTCATTTTAT
1 CCTAT-GGGGTATTTCAGTCATTTTAC
*
13587707 CCTATGGGGGTATTTCGGTCATTTTAC
1 CCTAT-GGGGTATTTCAGTCATTTTAC
13587734 CCTATGGGGTATTTC-GATCATTTTAC
1 CCTATGGGGTATTTCAG-TCATTTTAC
13587760 CCTAT
1 CCTAT
13587765 CTTGAAGTCT
Statistics
Matches: 386, Mismatches: 33, Indels: 33
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.01
26 37 0.10
27 333 0.86
28 11 0.03
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.43
Consensus pattern (26 bp):
CCTATGGGGTATTTCAGTCATTTTAC
Found at i:13587411 original size:81 final size:79
Alignment explanation
Indices: 13587308--13587764 Score: 542
Period size: 81 Copynumber: 5.7 Consensus size: 79
13587298 TCATCTCCTA
** * * *
13587308 GGGGTATAACAGTTATTTTACCCTATTGGGGTATTTC-AGTCATTTTACCGTATGGGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCTA-TGGGGTATTTCGA-TCATTTTACCCTATGAGGGTATTTC
*
13587372 AGTCATTCTACCTTATG
64 AGTCATTTTACC-TATG
* * *
13587389 GGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGTTCATTTTATCCTATGAGGGTATTTTA
1 GGGGTATTTCAGTCATTTTACCCTATGGG-GTATTTCGATCATTTTACCCTATGAGGGTATTTCA
13587454 GTCATTTTACCCTATG
65 GTCATTTTA-CCTATG
* * * *
13587470 AGGGTATTTTAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGAGGGTAATTTG
1 GGGGTATTTCAGTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATGAGGGT-ATTTC
13587535 A-TCATTTTACCCTATG
64 AGTCATTTTA-CCTATG
* * *
13587551 GGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCTTATGAGGTTATTTCG
1 GGGGTATTTCAGTCATTTTACCCTATG-GGGTATTTCGATCATTTTACCCTATGAGGGTATTTCA
* *
13587616 GTCATTCTATCCTATA
65 GTCATTTTA-CCTATG
** * * * *
13587632 GGGGTATTTTGGTCATTCTACCCTATAGGGGTATTTTTG-TCATTTTACCCTGTGGGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCTAT-GGGGTA-TTTCGATCATTTTACCCTATGAGGGTATTTC
*
13587696 GGTCATTTTATCCTATG
64 AGTCATTTTA-CCTATG
*
13587713 GGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTAT
1 GGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTAT
13587765 CTTGAAGTCT
Statistics
Matches: 328, Mismatches: 38, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
79 4 0.01
80 28 0.09
81 281 0.86
82 15 0.05
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (79 bp):
GGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCAG
TCATTTTACCTATG
Found at i:13590093 original size:16 final size:16
Alignment explanation
Indices: 13590072--13590110 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13590062 TATTCCCTTC
13590072 CTCATTCAACACACCT
1 CTCATTCAACACACCT
** *
13590088 CTCATTCTTCACATCT
1 CTCATTCAACACACCT
13590104 CTCATTC
1 CTCATTC
13590111 TTTCACTCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (16 bp):
CTCATTCAACACACCT
Found at i:13590111 original size:16 final size:16
Alignment explanation
Indices: 13590081--13590112 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13590071 CCTCATTCAA
13590081 CACACCTCTCATTCTT
1 CACACCTCTCATTCTT
*
13590097 CACATCTCTCATTCTT
1 CACACCTCTCATTCTT
13590113 TCACTCACAT
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:0.19, C:0.41, G:0.00, T:0.41
Consensus pattern (16 bp):
CACACCTCTCATTCTT
Found at i:13596567 original size:18 final size:18
Alignment explanation
Indices: 13596539--13596582 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
13596529 TTTGGACCGA
*
13596539 GTGGG-CCACATAGGCGT
1 GTGGGCCCACATAGGCAT
*
13596556 GTGGGCCCACATGGGCAT
1 GTGGGCCCACATAGGCAT
*
13596574 GTGAGCCCA
1 GTGGGCCCA
13596583 TCTTTACTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.18, C:0.27, G:0.39, T:0.16
Consensus pattern (18 bp):
GTGGGCCCACATAGGCAT
Found at i:13603689 original size:21 final size:21
Alignment explanation
Indices: 13603663--13603711 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
13603653 TTAGACTTGG
* *
13603663 TCGTGTGGCTATCCAACAAGC
1 TCGTGTGACTACCCAACAAGC
* *
13603684 TCGTGTGACTACCCCACACGC
1 TCGTGTGACTACCCAACAAGC
13603705 TCGTGTG
1 TCGTGTG
13603712 CTGTCTTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.24
Consensus pattern (21 bp):
TCGTGTGACTACCCAACAAGC
Found at i:13617983 original size:18 final size:19
Alignment explanation
Indices: 13617957--13617992 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13617947 AAAATAACCT
*
13617957 AAGTGAAAA-CTAAGAATG
1 AAGTAAAAACCTAAGAATG
13617975 AAGTAAAAACCTAAGAAT
1 AAGTAAAAACCTAAGAAT
13617993 AATTTTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (19 bp):
AAGTAAAAACCTAAGAATG
Found at i:13619348 original size:41 final size:41
Alignment explanation
Indices: 13619289--13619492 Score: 158
Period size: 41 Copynumber: 5.0 Consensus size: 41
13619279 AGAATGATGA
*
13619289 TGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
** * * *
13619330 TGAATTACACATTTGTGCCCCTGTTTGTACTTTGGTA-CCT
1 TGAATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
** ** * * *
13619370 TCGAATTGTACATACGTGCTTCTGTTTGTACTTTGGTACTCC
1 T-GAATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * *** *
13619412 TGAATTGCACATACGTGCCTCTTTTTGTACTTTAATACCCA
1 TGAATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
*** * * *
13619453 TGAATCGTACATACATTCCCCTATTTGTACTTTGGTACCC
1 TGAATTACACATACGTGCCCCTATTTGTACTTCGGTACCC
13619493 TTGGATGTAC
Statistics
Matches: 132, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
40 3 0.02
41 127 0.96
42 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (41 bp):
TGAATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:13619383 original size:82 final size:82
Alignment explanation
Indices: 13619288--13619492 Score: 241
Period size: 82 Copynumber: 2.5 Consensus size: 82
13619278 AAGAATGATG
* * **
13619288 ATGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATTACACATTTGTGCCCCTG
1 ATGAATTGTACATACGTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACATACGTGCCCCTG
**
13619353 TTTGTACTTTGGTA-CC
66 TTTGTACTTTAATACCC
* ** * * * *
13619369 TTCGAATTGTACATACGTGCTTCTGTTTGTACTTTGGTACTCCTGAATTGCACATACGTGCCTCT
1 AT-GAATTGTACATACGTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACATACGTGCCCCT
*
13619434 TTTTGTACTTTAATACCC
65 GTTTGTACTTTAATACCC
* * *
13619452 ATGAATCGTACATACATTCCCCTATTTGTACTTTGGTACCC
1 ATGAATTGTACATACGTGCCCCTATTTGTACTTTGGTACCC
13619493 TTGGATGTAC
Statistics
Matches: 100, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
81 1 0.01
82 96 0.96
83 3 0.03
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (82 bp):
ATGAATTGTACATACGTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACATACGTGCCCCTG
TTTGTACTTTAATACCC
Found at i:13622625 original size:9 final size:9
Alignment explanation
Indices: 13622611--13622635 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13622601 ATGTCGCGAC
13622611 ATCGCTTTG
1 ATCGCTTTG
13622620 ATCGCTTTG
1 ATCGCTTTG
13622629 ATCGCTT
1 ATCGCTT
13622636 CCAATGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (9 bp):
ATCGCTTTG
Found at i:13624448 original size:15 final size:15
Alignment explanation
Indices: 13624424--13624453 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13624414 ATTTATATAT
13624424 AAAAGAGTGGTGTCA
1 AAAAGAGTGGTGTCA
*
13624439 AAAAGTGTGGTGTCA
1 AAAAGAGTGGTGTCA
13624454 GAGAGAGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (15 bp):
AAAAGAGTGGTGTCA
Found at i:13641147 original size:16 final size:15
Alignment explanation
Indices: 13641115--13641153 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
13641105 TTATAATAAC
13641115 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
13641131 TTATTATAATATATAT
1 TAATTATAAT-TATAT
13641147 TAATTAT
1 TAATTAT
13641154 TTTCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:13646849 original size:24 final size:24
Alignment explanation
Indices: 13646816--13646960 Score: 132
Period size: 24 Copynumber: 6.0 Consensus size: 24
13646806 CAAACCATTT
*
13646816 ATCGGGAAGCTCATGCGAGCCATA
1 ATCGGGAAGCTCATGAGAGCCATA
* * *
13646840 AGCGGGAAGCTCAAGAGAGCCAAA
1 ATCGGGAAGCTCATGAGAGCCATA
* *
13646864 TATCGGGAAACTC-CGAAGAGCCAGTA
1 -ATCGGGAAGCTCATG-AGAGCCA-TA
* * * *
13646890 ATTGAGAAGTTCATAAGAGCCATA
1 ATCGGGAAGCTCATGAGAGCCATA
*
13646914 ATCGGGAAGCTCATGCGAGCCA-A
1 ATCGGGAAGCTCATGAGAGCCATA
*
13646937 TATCGGGAAGCTCGTGAGAGCCAT
1 -ATCGGGAAGCTCATGAGAGCCAT
13646961 GTAGCGAGAT
Statistics
Matches: 94, Mismatches: 21, Indels: 11
0.75 0.17 0.09
Matches are distributed among these distances:
23 1 0.01
24 60 0.64
25 32 0.34
26 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.16
Consensus pattern (24 bp):
ATCGGGAAGCTCATGAGAGCCATA
Found at i:13654492 original size:24 final size:24
Alignment explanation
Indices: 13654409--13654553 Score: 109
Period size: 24 Copynumber: 5.9 Consensus size: 24
13654399 AAGCTCTTGT
*
13654409 GAGCCAATTATCGGGAAGCTCA-ATA
1 GAGCC-ATAATCGGGAAGCTCATA-A
* * *
13654434 GAGCCAAATATC-GAAAGCTC-TGGA
1 GAGCCATA-ATCGGGAAGCTCAT-AA
*
13654458 GAGCCTTTAATCGGGAAGCTCATAA
1 GAGCC-ATAATCGGGAAGCTCATAA
* *
13654483 GAGCCATAATCGTGAAGCTTCA-GA
1 GAGCCATAATCGGGAAGC-TCATAA
*
13654507 GAGCCATTAATCGGAAAGCTCATAA
1 GAGCCA-TAATCGGGAAGCTCATAA
**
13654532 GAGCTGTAATCGGGAAGCTCAT
1 GAGCCATAATCGGGAAGCTCAT
13654554 GCGAGCCAAT
Statistics
Matches: 94, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
24 53 0.56
25 40 0.43
26 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (24 bp):
GAGCCATAATCGGGAAGCTCATAA
Found at i:13654501 original size:49 final size:49
Alignment explanation
Indices: 13654409--13654551 Score: 150
Period size: 49 Copynumber: 2.9 Consensus size: 49
13654399 AAGCTCTTGT
* * *
13654409 GAGCCAATT-ATCGGGAAGCTCA-ATAGAGCCAAATATCGAAAGCTCT-GGA
1 GAGCC-ATTAATCGGGAAGCTCATA-AGAGCCATA-ATCGGAAGCTCTCAGA
*
13654458 GAGCCTTTAATCGGGAAGCTCATAAGAGCCATAATCGTGAAGCT-TCAGA
1 GAGCCATTAATCGGGAAGCTCATAAGAGCCATAATCG-GAAGCTCTCAGA
* **
13654507 GAGCCATTAATCGGAAAGCTCATAAGAGCTGTAATCGGGAAGCTC
1 GAGCCATTAATCGGGAAGCTCATAAGAGCCATAATC-GGAAGCTC
13654552 ATGCGAGCCA
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
48 7 0.09
49 71 0.89
50 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (49 bp):
GAGCCATTAATCGGGAAGCTCATAAGAGCCATAATCGGAAGCTCTCAGA
Found at i:13654573 original size:73 final size:73
Alignment explanation
Indices: 13654359--13654609 Score: 172
Period size: 73 Copynumber: 3.4 Consensus size: 73
13654349 AAACTCTTTC
* ** * * * * ** *
13654359 GAGCCATGTAACAAGAAGCTCATGTGAGTTGTATAACGGAAAGCTCTTGTGAGCCAATTATCGGG
1 GAGCCATGTAACGAGAAGCTCATAAGAGCTGTA-ATCGGGAAGCTCATAAGAGCC-ATAATCGGG
*
13654424 AAGC-TCAATA
64 AAGCTTC-AGA
** * * * *
13654434 GAGCCAAATATCGA-AAGCTC-TGGAGAGCCTTTAATCGGGAAGCTCATAAGAGCCATAATCGTG
1 GAGCCATGTAACGAGAAGCTCAT-AAGAG-CTGTAATCGGGAAGCTCATAAGAGCCATAATCGGG
13654497 AAGCTTCAGA
64 AAGCTTCAGA
** *
13654507 GAGCCAT-TAATCG-GAAAGCTCATAAGAGCTGTAATCGGGAAGCTCATGCGAGCCA-ATATTGG
1 GAGCCATGTAA-CGAG-AAGCTCATAAGAGCTGTAATCGGGAAGCTCATAAGAGCCATA-ATCGG
**
13654569 GAAGCTTGTGA
63 GAAGCTTCAGA
* *
13654580 GAGCTATGTAACGAGATGCTCATAAGAGCT
1 GAGCCATGTAACGAGAAGCTCATAAGAGCT
13654610 AAATGATGGG
Statistics
Matches: 139, Mismatches: 27, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
72 3 0.02
73 80 0.58
74 42 0.30
75 14 0.10
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (73 bp):
GAGCCATGTAACGAGAAGCTCATAAGAGCTGTAATCGGGAAGCTCATAAGAGCCATAATCGGGAA
GCTTCAGA
Found at i:13655840 original size:42 final size:42
Alignment explanation
Indices: 13655785--13656070 Score: 353
Period size: 42 Copynumber: 6.7 Consensus size: 42
13655775 TTCTTGAATG
* *
13655785 TAAAAGTGGTTGCTAAATGCTGATTCCCCGTATCTTTGATTA
1 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
*
13655827 TAAAAGGGGTTGCTATGTGCTGATTCCCCGTAT-TCTTGATTA
1 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCT-TTGATTA
* * * *
13655869 TCAAAGGGGTTGCTAAGTGTTGATTCCTCGTAT-TCTGATTA
1 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
* * *
13655910 TCAAAGGGGTTGCTAAGTGATGATTCCCCATATCTTTGATTA
1 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
* *
13655952 TAAACAAAGGGGTTGCTATGTGCGGATTCCCCGTATCTTTGATTA
1 T--A-AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
* * * *
13655997 TAAAAGGGGTTGCTATGTGCTGATTCCTCGTATCCTTGAATA
1 TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
13656039 T-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 TAAAAGG-GGTTGCTAAGTGCTGATTCC-CCGT
13656071 GTAACTATTA
Statistics
Matches: 214, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
41 42 0.20
42 131 0.61
43 4 0.02
45 37 0.17
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (42 bp):
TAAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTA
Found at i:13655994 original size:128 final size:125
Alignment explanation
Indices: 13655777--13656065 Score: 402
Period size: 128 Copynumber: 2.3 Consensus size: 125
13655767 ACCAAATATT
* * * *
13655777 CTTGAATGTAAAAGTGGTTGCTAAATGCTGATTCCCCGTATCTTTGATTATAAAAGGGGTTGCTA
1 CTTGAATAT-AAAGGGGTTGCTAAGTGCTGATTCCCCATATCTTTGATTATAAAAGGGGTTGCTA
* * * *
13655842 TGTGCTGATTCCCCGTATTCTTGATTATCAAAGGGGTTGCTAAGTGTTGATTCCTCGTATT
65 TGTGCGGATTCCCCGTATTCTTGATTATAAAAGGGGTTGCTAAGTGCTGATTCCTCGTATC
* *
13655903 C-TGATTATCAAAGGGGTTGCTAAGTGATGATTCCCCATATCTTTGATTATAAACAAAGGGGTTG
1 CTTGAATAT-AAAGGGGTTGCTAAGTGCTGATTCCCCATATCTTTGATTAT--A-AAAGGGGTTG
*
13655967 CTATGTGCGGATTCCCCGTA-TCTTTGATTATAAAAGGGGTTGCTATGTGCTGATTCCTCGTATC
62 CTATGTGCGGATTCCCCGTATTC-TTGATTATAAAAGGGGTTGCTAAGTGCTGATTCCTCGTATC
13656031 CTTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 CTTGAATATAAAGG-GGTTGCTAAGTGCTGATTCC
13656066 ACCGTGTAAC
Statistics
Matches: 143, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
125 42 0.29
126 1 0.01
127 3 0.02
128 72 0.50
129 25 0.17
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (125 bp):
CTTGAATATAAAGGGGTTGCTAAGTGCTGATTCCCCATATCTTTGATTATAAAAGGGGTTGCTAT
GTGCGGATTCCCCGTATTCTTGATTATAAAAGGGGTTGCTAAGTGCTGATTCCTCGTATC
Found at i:13661357 original size:13 final size:13
Alignment explanation
Indices: 13661341--13661365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13661331 CGTATAAACA
13661341 TTTCATATATTTG
1 TTTCATATATTTG
13661354 TTTCATATATTT
1 TTTCATATATTT
13661366 AAATTCATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTCATATATTTG
Found at i:13662428 original size:32 final size:32
Alignment explanation
Indices: 13662360--13662498 Score: 163
Period size: 32 Copynumber: 4.4 Consensus size: 32
13662350 GAATGGCTAC
** *
13662360 AAGCCATCAGT-ACAGTAATATGATTGGTACA
1 AAGCCATCAGTAACAGTAATATGATCAGCACA
* * *
13662391 AAGCCATTAGTAGCAGTGATATGATCAGCACA
1 AAGCCATCAGTAACAGTAATATGATCAGCACA
* *
13662423 CAGCCATCAGTAACGGTAATATGATCAGCACA
1 AAGCCATCAGTAACAGTAATATGATCAGCACA
** * *
13662455 AAGCCATCAGTAATGGTATTATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCAGCACA
13662487 AAGCCATCAGTA
1 AAGCCATCAGTA
13662499 GCATTGCAGC
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 10 0.11
32 82 0.89
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCAGCACA
Found at i:13662575 original size:27 final size:27
Alignment explanation
Indices: 13662555--13662605 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
13662545 GTAATAGTAT
*
13662555 ATGTGGTAAAGCCACCAGTAACAGTGA
1 ATGTGGCAAAGCCACCAGTAACAGTGA
* *
13662582 CTGTGGCAGAGCCACCAGT-ACAGT
1 ATGTGGCAAAGCCACCAGTAACAGT
13662606 ACTTCCTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (27 bp):
ATGTGGCAAAGCCACCAGTAACAGTGA
Found at i:13662697 original size:24 final size:24
Alignment explanation
Indices: 13662670--13662736 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
13662660 CCATGCTCAG
13662670 AATTAGTCATACAAATCACAAACA
1 AATTAGTCATACAAATCACAAACA
* *
13662694 AATTAGTCATACCAATCACAGACA
1 AATTAGTCATACAAATCACAAACA
**
13662718 AATTAGTCATTTAAATCAC
1 AATTAGTCATACAAATCAC
13662737 GTGAAATCAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.25
Consensus pattern (24 bp):
AATTAGTCATACAAATCACAAACA
Found at i:13662748 original size:23 final size:23
Alignment explanation
Indices: 13662707--13662777 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
13662697 TAGTCATACC
* *
13662707 AATCACAGACAAATTAGTCATTTA
1 AATCACGGA-AAATCAGTCATTTA
13662731 AATCACGTG-AAATCAGTCATTTA
1 AATCACG-GAAAATCAGTCATTTA
* *
13662754 CATCACGGACAAATCAATCATTTA
1 AATCACGGA-AAATCAGTCATTTA
13662778 CACTCGAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.03
23 19 0.47
24 19 0.47
25 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (23 bp):
AATCACGGAAAATCAGTCATTTA
Found at i:13662774 original size:24 final size:24
Alignment explanation
Indices: 13662708--13662779 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
13662698 AGTCATACCA
* * *
13662708 ATCACAGACAAATTAGTCATTTAA
1 ATCACGGACAAATCAGTCATTTAC
13662732 ATCACGTG--AAATCAGTCATTTAC
1 ATCACG-GACAAATCAGTCATTTAC
*
13662755 ATCACGGACAAATCAATCATTTAC
1 ATCACGGACAAATCAGTCATTTAC
13662779 A
1 A
13662780 CTCGAGGGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.02
23 19 0.46
24 20 0.49
25 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.28
Consensus pattern (24 bp):
ATCACGGACAAATCAGTCATTTAC
Found at i:13662840 original size:26 final size:26
Alignment explanation
Indices: 13662811--13662962 Score: 135
Period size: 27 Copynumber: 5.8 Consensus size: 26
13662801 TTACCCTCCA
*
13662811 AGGGCATTACGGTCATTTTACCTTAT
1 AGGGTATTACGGTCATTTTACCTTAT
*
13662837 AGGGGTATT-CGGTCATTTAACCTTAT
1 A-GGGTATTACGGTCATTTTACCTTAT
* ** *
13662863 GGGGTATTATAGTCATTTTACCTTACG
1 AGGGTATTACGGTCATTTTACCTTA-T
* *
13662890 GGGGTATTACGGTCATTTTACCCTAT
1 AGGGTATTACGGTCATTTTACCTTAT
* * * * * *
13662916 GGGGTTTTTTCGATTATTTTACCCTAT
1 AGGG-TATTACGGTCATTTTACCTTAT
*
13662943 AAGGTATTACGGTCATTTTA
1 AGGGTATTACGGTCATTTTA
13662963 TAGATATTGG
Statistics
Matches: 101, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
25 7 0.07
26 46 0.46
27 48 0.48
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (26 bp):
AGGGTATTACGGTCATTTTACCTTAT
Found at i:13662852 original size:52 final size:53
Alignment explanation
Indices: 13662796--13662913 Score: 132
Period size: 52 Copynumber: 2.2 Consensus size: 53
13662786 GGGCAAAATA
* *
13662796 GTCATTTACCCTCCA-AGGGCATTACGGTCATTTTACCTTATAGGGGTATT-CG
1 GTCATTTACCCT-CATAGGGCATTACAGTCATTTTACCTTACAGGGGTATTACG
* * * * * *
13662848 GTCATTTAACCTTATGGGGTATTATAGTCATTTTACCTTACGGGGGTATTACG
1 GTCATTTACCCTCATAGGGCATTACAGTCATTTTACCTTACAGGGGTATTACG
13662901 GTCATTTTACCCT
1 GTCA-TTTACCCT
13662914 ATGGGGTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 1 0.02
52 40 0.74
53 6 0.11
54 7 0.13
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (53 bp):
GTCATTTACCCTCATAGGGCATTACAGTCATTTTACCTTACAGGGGTATTACG
Found at i:13662893 original size:27 final size:26
Alignment explanation
Indices: 13662816--13662962 Score: 129
Period size: 26 Copynumber: 5.6 Consensus size: 26
13662806 CTCCAAGGGC
13662816 ATTACGGTCATTTTACCTTATAGGGGT
1 ATTACGGTCATTTTACCTTA-AGGGGT
* *
13662843 ATT-CGGTCATTTAACCTTATGGGGT
1 ATTACGGTCATTTTACCTTAAGGGGT
** *
13662868 ATTATAGTCATTTTACCTTACGGGGGT
1 ATTACGGTCATTTTACCTTA-AGGGGT
* *
13662895 ATTACGGTCATTTTACCCTATGGGGTT
1 ATTACGGTCATTTTACCTTAAGGGG-T
* * * *
13662922 TTTTCGATTATTTTACCCTATAA--GGT
1 ATTACGGTCATTTTA-CCT-TAAGGGGT
13662948 ATTACGGTCATTTTA
1 ATTACGGTCATTTTA
13662963 TAGATATTGG
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
25 8 0.08
26 44 0.46
27 39 0.41
28 2 0.02
29 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (26 bp):
ATTACGGTCATTTTACCTTAAGGGGT
Found at i:13667182 original size:32 final size:32
Alignment explanation
Indices: 13667137--13667210 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
13667127 ATTCCCAAAT
*
13667137 GCCCGTGTAGTTCAC-CTGTGTCGGGCCCATGC
1 GCCCGTGTGGTTCACTC-GTGTCGGGCCCATGC
* *
13667169 GTCCGTGTGGTTCACTCGTGTTGGGCCCATGC
1 GCCCGTGTGGTTCACTCGTGTCGGGCCCATGC
13667201 GCCCGTGTGG
1 GCCCGTGTGG
13667211 CCCACACAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 36 0.97
33 1 0.03
ACGTcount: A:0.07, C:0.31, G:0.35, T:0.27
Consensus pattern (32 bp):
GCCCGTGTGGTTCACTCGTGTCGGGCCCATGC
Found at i:13673844 original size:48 final size:48
Alignment explanation
Indices: 13673774--13673870 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
13673764 TTCTTTGCTT
13673774 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGA
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGA
* * * *
13673822 AAAAATGCCTAAGTCGGCCTAACTTGCAATGATAAAGGATTCAATAGA
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGA
13673870 A
1 A
13673871 TTCCCTCAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGA
Found at i:13674094 original size:17 final size:17
Alignment explanation
Indices: 13674072--13674135 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
13674062 CATTAAAGGC
*
13674072 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
13674089 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
13674108 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
13674125 TACAATTAGAA
1 TACAATTAGAA
13674136 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:13674114 original size:19 final size:19
Alignment explanation
Indices: 13674090--13674143 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
13674080 AAAGCTGTAT
13674090 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
13674109 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
13674126 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
13674144 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:13674121 original size:36 final size:36
Alignment explanation
Indices: 13674073--13674143 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
13674063 ATTAAAGGCT
13674073 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
13674109 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
13674144 TTACATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:13678979 original size:48 final size:48
Alignment explanation
Indices: 13678908--13679002 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
13678898 TTTTTTGCTT
13678908 AAAAACGCCTAAGTCAGCCTAACTCACAATAATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCACAATAATAAAGGATTCAACAGC
* ** *
13678956 AAAAACGCCTAAGTCGGCCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCACAATAATAAAGGATTCAACAG
13679003 AATTCCCTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCACAATAATAAAGGATTCAACAGC
Found at i:13679228 original size:17 final size:17
Alignment explanation
Indices: 13679206--13679269 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
13679196 CATCAAAGGC
*
13679206 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
13679223 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
13679242 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
13679259 TACAATTAGAA
1 TACAATTAGAA
13679270 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:13679248 original size:19 final size:19
Alignment explanation
Indices: 13679224--13679277 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
13679214 AAAGCTGTAT
13679224 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
13679243 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
13679260 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
13679278 TTACCTAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:13679255 original size:36 final size:36
Alignment explanation
Indices: 13679207--13679277 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
13679197 ATCAAAGGCT
13679207 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
13679243 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
13679278 TTACCTAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:13683352 original size:16 final size:16
Alignment explanation
Indices: 13683333--13683364 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13683323 ATATTATTCA
*
13683333 TTGTGTTTATTTCTTG
1 TTGTGATTATTTCTTG
13683349 TTGTGATTATTTCTTG
1 TTGTGATTATTTCTTG
13683365 CAAGGCATGT
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:0.09, C:0.06, G:0.19, T:0.66
Consensus pattern (16 bp):
TTGTGATTATTTCTTG
Found at i:13687587 original size:15 final size:15
Alignment explanation
Indices: 13687578--13687610 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13687568 CAAATGCTAT
13687578 AATAATAAATACAAC
1 AATAATAAATACAAC
*
13687593 AATAATAAATACATC
1 AATAATAAATACAAC
13687608 AAT
1 AAT
13687611 GGCATAAAAA
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:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:13687647 original size:13 final size:13
Alignment explanation
Indices: 13687617--13687657 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
13687607 CAATGGCATA
13687617 AAAATAATATAAAC
1 AAAATAA-ATAAAC
13687631 -AAATAAATAAAC
1 AAAATAAATAAAC
*
13687643 AAAATAAAAAAAC
1 AAAATAAATAAAC
13687656 AA
1 AA
13687658 TAATCCATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAATAAAC
Found at i:13687999 original size:28 final size:27
Alignment explanation
Indices: 13687938--13688002 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
13687928 AAATATATAC
* *
13687938 ATATAAGTAT-GAAAATATTCATAAAA
1 ATATAAATATAGAAAACATTCATAAAA
* *
13687964 AAATAAATATAGAAAACATTCGTTAAAA
1 ATATAAATATAGAAAACATTC-ATAAAA
13687992 ATATAAATATA
1 ATATAAATATA
13688003 CATACATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.25
27 9 0.28
28 15 0.47
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (27 bp):
ATATAAATATAGAAAACATTCATAAAA
Found at i:13689252 original size:17 final size:17
Alignment explanation
Indices: 13689230--13689271 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
13689220 TCGAATCTGC
* *
13689230 TTTGGGCCTCTGTTTGG
1 TTTGGGCCTCAGTTGGG
13689247 TTTGGGCCTCAGTTGGG
1 TTTGGGCCTCAGTTGGG
13689264 TTTGGGCC
1 TTTGGGCC
13689272 ACATAGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.02, C:0.19, G:0.38, T:0.40
Consensus pattern (17 bp):
TTTGGGCCTCAGTTGGG
Found at i:13690954 original size:27 final size:27
Alignment explanation
Indices: 13690912--13690966 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
13690902 TCTTCTCCTC
* *
13690912 AGGAATTATTCCATTGAAACAGTACTT
1 AGGAATTATTCAATTGAAACAGCACTT
13690939 AGGAATTATTCAATTGAAACAGCACTT
1 AGGAATTATTCAATTGAAACAGCACTT
13690966 A
1 A
13690967 CATGTTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (27 bp):
AGGAATTATTCAATTGAAACAGCACTT
Found at i:13696431 original size:23 final size:20
Alignment explanation
Indices: 13696386--13696423 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13696376 AAAGTGAGAA
13696386 TTTATTTTCTAAGTATAAAT
1 TTTATTTTCTAAGTATAAAT
*
13696406 TTTATTTTCTAAGAATAA
1 TTTATTTTCTAAGTATAA
13696424 TAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTATTTTCTAAGTATAAAT
Found at i:13696433 original size:20 final size:20
Alignment explanation
Indices: 13696384--13696433 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
13696374 AGAAAGTGAG
*
13696384 AATTTATTTTCTAAGTATAA
1 AATTTATTTTCTAAGAATAA
*
13696404 ATTTTATTTTCTAAGAATAA
1 AATTTATTTTCTAAGAATAA
13696424 TAATTT-TTTT
1 -AATTTATTTT
13696434 GGTTTCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (20 bp):
AATTTATTTTCTAAGAATAA
Found at i:13697803 original size:31 final size:31
Alignment explanation
Indices: 13697754--13697813 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
13697744 ATTATGCACT
*
13697754 TGAAATTTTAATTATGATTC-ATATGTATAAA
1 TGAAACTTTAATTATGATTCAAT-TGTATAAA
* *
13697785 TGAAACTTTGATTTTGATTCAATTGTATA
1 TGAAACTTTAATTATGATTCAATTGTATA
13697814 CATCTAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (31 bp):
TGAAACTTTAATTATGATTCAATTGTATAAA
Found at i:13702550 original size:21 final size:20
Alignment explanation
Indices: 13702516--13702555 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13702506 TTAAAAATAT
*
13702516 TAAAAATTAAATTTAATAAC
1 TAAAAATAAAATTTAATAAC
*
13702536 TAAAAATAAATATTTCATAA
1 TAAAAATAAA-ATTTAATAA
13702556 ACAAAACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAATAAAATTTAATAAC
Found at i:13703313 original size:16 final size:14
Alignment explanation
Indices: 13703292--13703325 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
13703282 ATAGAGAAAC
13703292 TTTGTTTTTGTTTTGT
1 TTTGTTTTT-TTTT-T
13703308 TTTGTTTTTTTTTT
1 TTTGTTTTTTTTTT
13703322 TTTG
1 TTTG
13703326 AGAGGGATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 4 0.22
16 9 0.50
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTGTTTTTTTTTT
Done.