Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009000.1 Hibiscus syriacus cultivar Beakdansim tig00112382_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: 1742898
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:346559 original size:13 final size:13
Alignment explanation
Indices: 346543--346572 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
346533 TTATGACACG
346543 CATTTATGACTTA
1 CATTTATGACTTA
346556 CATTTATGACTTA
1 CATTTATGACTTA
346569 CATT
1 CATT
346573 GCGTGTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (13 bp):
CATTTATGACTTA
Found at i:347707 original size:12 final size:12
Alignment explanation
Indices: 347690--347720 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
347680 ATATATTGAT
347690 AATCAAATGAAA
1 AATCAAATGAAA
347702 AATCAAATGAAA
1 AATCAAATGAAA
*
347714 AAACAAA
1 AATCAAA
347721 CCCCGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.13
Consensus pattern (12 bp):
AATCAAATGAAA
Found at i:353137 original size:18 final size:18
Alignment explanation
Indices: 353102--353139 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
353092 ATGTTACCTA
*
353102 AATCATATTAGACCTTAG
1 AATCATATTAGAACTTAG
*
353120 AATCATATTAGAAGTTAG
1 AATCATATTAGAACTTAG
353138 AA
1 AA
353140 AAAGTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (18 bp):
AATCATATTAGAACTTAG
Found at i:354183 original size:15 final size:15
Alignment explanation
Indices: 354158--354198 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
354148 GATGCTTTCT
354158 TTTTCCTTCTTTGACG
1 TTTT-CTTCTTTGACG
354174 TTTTCTTCTTTGACG
1 TTTTCTTCTTTGACG
*
354189 TTGTCTTCTT
1 TTTTCTTCTT
354199 ACTCCATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.05, C:0.22, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTTCTTCTTTGACG
Found at i:356231 original size:22 final size:22
Alignment explanation
Indices: 356199--356274 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 22
356189 TTTACCTTTC
356199 AAAAACACACACCTCATATTAT
1 AAAAACACACACCTCATATTAT
**
356221 AAAAACTCACACATTTCATATTA-
1 AAAAA--CACACACCTCATATTAT
* *
356244 ATAACACACACACCCTTTATATTAT
1 A-AAAACACACA-CC-TCATATTAT
356269 AAAAAC
1 AAAAAC
356275 TCACTCGCAC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 11 0.27
23 1 0.02
24 28 0.68
25 1 0.02
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAACACACACCTCATATTAT
Found at i:356239 original size:24 final size:25
Alignment explanation
Indices: 356212--356278 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
356202 AACACACACC
356212 TCATATTATAAAAACTCACA-CATT
1 TCATATTATAAAAACTCACACCATT
* * *
356236 TCATATTA-ATAACACACACACCCTT
1 TCATATTATA-AAAACTCACACCATT
356261 T-ATATTATAAAAACTCAC
1 TCATATTATAAAAACTCAC
356279 TCGCACACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.03
24 29 0.83
25 5 0.14
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (25 bp):
TCATATTATAAAAACTCACACCATT
Found at i:356349 original size:54 final size:54
Alignment explanation
Indices: 356228--356366 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
356218 TATAAAAACT
*
356228 CACACATTTC-ATATTAATAACACACACACCCTTTATATTATAAAAACTCACTCG
1 CACACATTTCTATATTAATAACACACACACCCTTTATATTATAAAAACTCAC-CA
* *
356282 CACACATTT-TATATTAA-AACAGCACACACCCTTTATATTATAATAAGTCA-CA
1 CACACATTTCTATATTAATAACA-CACACACCCTTTATATTATAAAAACTCACCA
356334 CACACATTTC-ATATATACATTAAACACACACAC
1 CACACATTTCTATAT-TA-A-T-AACACACACAC
356367 GTATTGCATA
Statistics
Matches: 74, Mismatches: 3, Indels: 14
0.81 0.03 0.15
Matches are distributed among these distances:
52 14 0.19
53 6 0.08
54 43 0.58
56 7 0.09
57 4 0.05
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (54 bp):
CACACATTTCTATATTAATAACACACACACCCTTTATATTATAAAAACTCACCA
Found at i:356445 original size:55 final size:55
Alignment explanation
Indices: 356330--356501 Score: 151
Period size: 55 Copynumber: 3.2 Consensus size: 55
356320 TATAATAAGT
* *
356330 CACACACACATTTCATATATACATTAAACACACACACGTATTGCATAAT-AAAAAG---
1 CACACACACA-TACATATATA-ATT-AA-ACACACACGTACTGCATAATAAAAAAGATA
*
356385 CACACACACATACATATAT-ATTAAACACACACGTACTACATAATAAAAAAGCATA
1 CACACACACATACATATATAATTAAACACACACGTACTGCATAATAAAAAAG-ATA
* * * * * * *
356440 CACACATAAATATATAT-TAAATACACACAAACTTACTGCATAATAAAAAA-ATA
1 CACACACACATACATATATAATTAAACACACACGTACTGCATAATAAAAAAGATA
*
356493 GACACACAC
1 CACACACAC
356502 TTACTGCATA
Statistics
Matches: 97, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
50 18 0.19
51 8 0.08
52 3 0.03
53 9 0.09
54 9 0.09
55 50 0.52
ACGTcount: A:0.52, C:0.23, G:0.04, T:0.22
Consensus pattern (55 bp):
CACACACACATACATATATAATTAAACACACACGTACTGCATAATAAAAAAGATA
Found at i:356453 original size:51 final size:50
Alignment explanation
Indices: 356359--356467 Score: 164
Period size: 51 Copynumber: 2.2 Consensus size: 50
356349 TACATTAAAC
* * *
356359 ACACACACGTATTGCATAATAAAAAGCACACACACATACATATATATTAA
1 ACACACACGTACTACATAATAAAAAGCACACACACATAAATATATATTAA
*
356409 ACACACACGTACTACATAATAAAAAAGCATACACACATAAATATATATTAA
1 ACACACACGTACTACATAAT-AAAAAGCACACACACATAAATATATATTAA
*
356460 ATACACAC
1 ACACACAC
356468 AAACTTACTG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 18 0.34
51 35 0.66
ACGTcount: A:0.52, C:0.22, G:0.05, T:0.21
Consensus pattern (50 bp):
ACACACACGTACTACATAATAAAAAGCACACACACATAAATATATATTAA
Found at i:356498 original size:30 final size:30
Alignment explanation
Indices: 356458--356600 Score: 101
Period size: 30 Copynumber: 5.1 Consensus size: 30
356448 AATATATATT
356458 AAATACACACAAACTTACTGCATAATAAAA
1 AAATACACACAAACTTACTGCATAATAAAA
* * *
356488 AAATAGACACACACTTACTGCATAAT-TAA
1 AAATACACACAAACTTACTGCATAATAAAA
* * * **
356517 AAA-GCACAC--AC---GTGAAT-ATATATT
1 AAATACACACAAACTTACTGCATAATA-AAA
356541 AAATACACAC--ACTTACTGCATAATAAAA
1 AAATACACACAAACTTACTGCATAATAAAA
* *
356569 AAATATACACACAA-TTACTACATAATAAAA
1 AAATACACACA-AACTTACTGCATAATAAAA
356599 AA
1 AA
356601 TCTTTTATAT
Statistics
Matches: 86, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
22 2 0.02
23 4 0.05
24 3 0.03
25 7 0.08
26 2 0.02
28 18 0.21
29 8 0.09
30 41 0.48
31 1 0.01
ACGTcount: A:0.54, C:0.19, G:0.05, T:0.22
Consensus pattern (30 bp):
AAATACACACAAACTTACTGCATAATAAAA
Found at i:356567 original size:81 final size:83
Alignment explanation
Indices: 356409--356600 Score: 289
Period size: 81 Copynumber: 2.3 Consensus size: 83
356399 TATATATTAA
*
356409 ACACACACGTACTACATAATAAAAAAGCATACACACATAAATATATATTAAATACACACAAACTT
1 ACACACACTTACTACATAATAAAAAAGCA-ACACACATAAATATATATTAAATACACAC-AACTT
356474 ACTGCATAATAAAAAAATAG
64 ACTGCATAATAAAAAAATAG
* * * *
356494 ACACACACTTACTGCATAATTAAAAAGC-ACACACGTGAATATATATTAAATACACAC-ACTTAC
1 ACACACACTTACTACATAATAAAAAAGCAACACACATAAATATATATTAAATACACACAACTTAC
*
356557 TGCATAATAAAAAAATAT
66 TGCATAATAAAAAAATAG
*
356575 ACACACAATTACTACATAATAAAAAA
1 ACACACACTTACTACATAATAAAAAA
356601 TCTTTTATAT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
81 46 0.47
83 27 0.28
85 25 0.26
ACGTcount: A:0.54, C:0.19, G:0.05, T:0.22
Consensus pattern (83 bp):
ACACACACTTACTACATAATAAAAAAGCAACACACATAAATATATATTAAATACACACAACTTAC
TGCATAATAAAAAAATAG
Found at i:360087 original size:11 final size:11
Alignment explanation
Indices: 360071--360096 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
360061 CAATCAAACC
360071 CTTTTGTACTG
1 CTTTTGTACTG
360082 CTTTTGTACTG
1 CTTTTGTACTG
360093 CTTT
1 CTTT
360097 GTTTCGTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.19, G:0.15, T:0.58
Consensus pattern (11 bp):
CTTTTGTACTG
Found at i:360786 original size:21 final size:21
Alignment explanation
Indices: 360760--360799 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
360750 TATCCTCAAA
360760 TATCATATTAACATCATAAAT
1 TATCATATTAACATCATAAAT
360781 TATCATATTAACATCATAA
1 TATCATATTAACATCATAA
360800 TAATTAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (21 bp):
TATCATATTAACATCATAAAT
Found at i:363926 original size:23 final size:23
Alignment explanation
Indices: 363843--363979 Score: 112
Period size: 23 Copynumber: 5.9 Consensus size: 23
363833 AATTGTTCAT
* * * *
363843 GAACATGTTCGCGAATGCTAATC
1 GAACATGTTCACGAACGTTAAAC
* * *
363866 TAACATGTTCACGAACGCTAAAT
1 GAACATGTTCACGAACGTTAAAC
*
363889 GAACATGTTCGCGAACGTTAAAC
1 GAACATGTTCACGAACGTTAAAC
* * * *
363912 GAACACGTTTACGAACATTTAAAA
1 GAACATGTTCACGAAC-GTTAAAC
**
363936 GAACATGTTCACGAACAATAAAC
1 GAACATGTTCACGAACGTTAAAC
** *
363959 GAACACATTAACGAACGTTAA
1 GAACATGTTCACGAACGTTAA
363980 GTAAACGAAC
Statistics
Matches: 89, Mismatches: 24, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
23 70 0.79
24 19 0.21
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (23 bp):
GAACATGTTCACGAACGTTAAAC
Found at i:363951 original size:47 final size:47
Alignment explanation
Indices: 363884--363974 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
363874 TCACGAACGC
* * ** * *
363884 TAAATGAACATGTTCGCGAACGTTAAACGAACACGTTTACGAACATT
1 TAAAAGAACATGTTCACGAACAATAAACGAACACATTAACGAACATT
363931 TAAAAGAACATGTTCACGAACAATAAACGAACACATTAACGAAC
1 TAAAAGAACATGTTCACGAACAATAAACGAACACATTAACGAAC
363975 GTTAAGTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (47 bp):
TAAAAGAACATGTTCACGAACAATAAACGAACACATTAACGAACATT
Found at i:369051 original size:31 final size:32
Alignment explanation
Indices: 369013--369082 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
369003 ATGTATGATT
369013 TAAAAAAAATGAA-AGTTTAGATATTAAA-ACA
1 TAAAAAAAAT-AATAGTTTAGATATTAAATACA
* * *
369044 TAAAAAAACTAATAGTTTAGTTATTAAATGCA
1 TAAAAAAAATAATAGTTTAGATATTAAATACA
369076 TAAAAAA
1 TAAAAAA
369083 CCCAAGAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 2 0.06
31 23 0.68
32 9 0.26
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.29
Consensus pattern (32 bp):
TAAAAAAAATAATAGTTTAGATATTAAATACA
Found at i:384071 original size:51 final size:51
Alignment explanation
Indices: 383995--384093 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
383985 AGGGGGAGAG
* *
383995 TTACAAGGAATTTCAGCCTGTTCAAACCGATATTTCTTTACAGCCTATTAA
1 TTACAAGGAATTTCAACATGTTCAAACCGATATTTCTTTACAGCCTATTAA
* * *
384046 TTACAAGGAATTTTAATATGTTCAAACCGATATTTCTTTACAGTCTAT
1 TTACAAGGAATTTCAACATGTTCAAACCGATATTTCTTTACAGCCTAT
384094 CCTTTCCTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (51 bp):
TTACAAGGAATTTCAACATGTTCAAACCGATATTTCTTTACAGCCTATTAA
Found at i:386343 original size:14 final size:14
Alignment explanation
Indices: 386321--386364 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 14
386311 TAACAGATTT
*
386321 GTCTGTTTTCTACA
1 GTCTATTTTCTACA
386335 GTCTATTTTCTACACA
1 GTCTATTTTCT--ACA
386351 GTCTATTTTCTACA
1 GTCTATTTTCTACA
386365 TCAACCGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 13 0.48
16 14 0.52
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (14 bp):
GTCTATTTTCTACA
Found at i:386353 original size:16 final size:16
Alignment explanation
Indices: 386332--386364 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
386322 TCTGTTTTCT
386332 ACAGTCTATTTTCTAC
1 ACAGTCTATTTTCTAC
386348 ACAGTCTATTTTCTAC
1 ACAGTCTATTTTCTAC
386364 A
1 A
386365 TCAACCGTAT
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:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (16 bp):
ACAGTCTATTTTCTAC
Found at i:391887 original size:24 final size:24
Alignment explanation
Indices: 391851--391914 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
391841 AAACTGGTTG
*
391851 AATATAAAGAAACA-AACATAAACA
1 AATATAAACAAACATAA-ATAAACA
* *
391875 AATACAAACAAACATAAATAAACG
1 AATATAAACAAACATAAATAAACA
*
391899 AATATAAACCAACATA
1 AATATAAACAAACATA
391915 TTACCAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 32 0.94
25 2 0.06
ACGTcount: A:0.67, C:0.16, G:0.03, T:0.14
Consensus pattern (24 bp):
AATATAAACAAACATAAATAAACA
Found at i:392948 original size:60 final size:60
Alignment explanation
Indices: 392866--392978 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
392856 AATTCGTCCT
* * *
392866 TAAACTTTTGAATATTTAAATTTCA-TCCGTAGACTATGA-CTCTCATTCTAAATTTATTAA
1 TAAACTTTTGAACATATAAATTTCATTCC-TAAACTATGATC-CTCATTCTAAATTTATTAA
*
392926 TAAACTTTTGAACACTAT-AATTTCATTCCTAAACTATGATCCTCTTTCTAAAT
1 TAAACTTTTGAACA-TATAAATTTCATTCCTAAACTATGATCCTCATTCTAAAT
392979 CAATTCTCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
60 40 0.87
61 6 0.13
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (60 bp):
TAAACTTTTGAACATATAAATTTCATTCCTAAACTATGATCCTCATTCTAAATTTATTAA
Found at i:393008 original size:60 final size:59
Alignment explanation
Indices: 392866--393013 Score: 140
Period size: 60 Copynumber: 2.5 Consensus size: 59
392856 AATTCGTCCT
* **
392866 TAAACTTTTGAATATTTAAATTTCATCCGTAGACTATGACTCTCATTCTAAATTTATTAA
1 TAAACTTTTGAATA-TTAAATTTCATCCGTAAACTATGACTCTCATTCTAAATCAATTAA
* * * *
392926 TAAACTTTTGAACACTATAATTTCATTCC-TAAACTATGA-TCCTCTTTCTAAATCAATT-C
1 TAAACTTTTGAATATTA-AATTTCA-TCCGTAAACTATGACT-CTCATTCTAAATCAATTAA
* *
392985 TCATACTTTTGAATATTCAAATTTTATCC
1 T-AAACTTTTGAATATT-AAATTTCATCC
393014 CCAAATTCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
59 7 0.10
60 61 0.85
61 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (59 bp):
TAAACTTTTGAATATTAAATTTCATCCGTAAACTATGACTCTCATTCTAAATCAATTAA
Found at i:394775 original size:24 final size:24
Alignment explanation
Indices: 394748--394795 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
394738 TTAAGTTCAA
* *
394748 TTTGATTGATATTTTTATTAATAT
1 TTTGATTGATATTATCATTAATAT
*
394772 TTTGGTTGATATTATCATTAATAT
1 TTTGATTGATATTATCATTAATAT
394796 AATATATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.58
Consensus pattern (24 bp):
TTTGATTGATATTATCATTAATAT
Found at i:416399 original size:17 final size:17
Alignment explanation
Indices: 416377--416411 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
416367 TTTTGAAATA
416377 ATTACGAATATAGTAAT
1 ATTACGAATATAGTAAT
416394 ATTACGAATATAGTAAT
1 ATTACGAATATAGTAAT
416411 A
1 A
416412 GATTTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (17 bp):
ATTACGAATATAGTAAT
Found at i:416606 original size:28 final size:28
Alignment explanation
Indices: 416575--416657 Score: 139
Period size: 28 Copynumber: 3.0 Consensus size: 28
416565 ATCTTTACTT
* *
416575 TAATAGAATAGGAGGTTTACTTACTTAG
1 TAATAGAATAGGAGGTTTACTTACTCAA
*
416603 TAATAGAATAGGAGGTTAACTTACTCAA
1 TAATAGAATAGGAGGTTTACTTACTCAA
416631 TAATAGAATAGGAGGTTTACTTACTCA
1 TAATAGAATAGGAGGTTTACTTACTCA
416658 GTTTTTCTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.33
Consensus pattern (28 bp):
TAATAGAATAGGAGGTTTACTTACTCAA
Found at i:418634 original size:2 final size:2
Alignment explanation
Indices: 418627--418683 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
418617 CATTTGACCA
418627 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
418669 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
418684 AACATACTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:422517 original size:21 final size:21
Alignment explanation
Indices: 422493--422537 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
422483 AATTTTTTGC
422493 TTTCTTT-CTCCTTTTCTTATT
1 TTTCTTTACTCCTTTTC-TATT
**
422514 TTTCTTTACTGTTTTTCTATT
1 TTTCTTTACTCCTTTTCTATT
422535 TTT
1 TTT
422538 GTTTTTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTCTTTACTCCTTTTCTATT
Found at i:427561 original size:31 final size:31
Alignment explanation
Indices: 427523--427584 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
427513 CCATATACTA
* *
427523 GTTAGGGTGCATCCAAATAATGCACAGTATG
1 GTTAGGGTACATCCAAATAATGCACAATATG
**
427554 GTTAGGGTACATTTAAATAATGCACAATATG
1 GTTAGGGTACATCCAAATAATGCACAATATG
427585 CTTGGTTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (31 bp):
GTTAGGGTACATCCAAATAATGCACAATATG
Found at i:428346 original size:32 final size:32
Alignment explanation
Indices: 428269--428376 Score: 119
Period size: 32 Copynumber: 3.4 Consensus size: 32
428259 ACCAGTTAGG
* *
428269 TTGCATTAAGATAATGCACAGTATGGTC-AAG
1 TTGCATTCAGATAATGCACAGTATGGTCAAAT
* * * **
428300 GTGCATTCAAATAATGCACAATATGCACAAAT
1 TTGCATTCAGATAATGCACAGTATGGTCAAAT
** *
428332 TTGCATTCAGATAATGCATTGTATGGTCAAGT
1 TTGCATTCAGATAATGCACAGTATGGTCAAAT
428364 TTGCATTCAGATA
1 TTGCATTCAGATA
428377 TTCAACAGGA
Statistics
Matches: 61, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
31 22 0.36
32 39 0.64
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (32 bp):
TTGCATTCAGATAATGCACAGTATGGTCAAAT
Found at i:434772 original size:31 final size:31
Alignment explanation
Indices: 434734--434833 Score: 112
Period size: 31 Copynumber: 3.2 Consensus size: 31
434724 GACCATATAC
434734 TAGTCAGGGTGCATTCAGAAAATGCATAGTA
1 TAGTCAGGGTGCATTCAGAAAATGCATAGTA
* * *
434765 TAGTCAGGGCGCATTCAGATAATGCACAGTA
1 TAGTCAGGGTGCATTCAGAAAATGCATAGTA
** *
434796 T-GCTCAAGTTTGCATTTAGAAAATGCATAGTA
1 TAG-TC-AGGGTGCATTCAGAAAATGCATAGTA
*
434828 TGGTCA
1 TAGTCA
434834 AGTTTGGATT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
30 1 0.02
31 32 0.56
32 23 0.40
33 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (31 bp):
TAGTCAGGGTGCATTCAGAAAATGCATAGTA
Found at i:434855 original size:32 final size:32
Alignment explanation
Indices: 434743--434856 Score: 115
Period size: 32 Copynumber: 3.6 Consensus size: 32
434733 CTAGTCAGGG
* **
434743 TGCATTCAGAAAATGCATAGTATAG-TC-AGGG
1 TGCATTCAGATAATGCATAGTAT-GCTCAAGTT
* *
434774 CGCATTCAGATAATGCACAGTATGCTCAAGTT
1 TGCATTCAGATAATGCATAGTATGCTCAAGTT
* * *
434806 TGCATTTAGAAAATGCATAGTATGGTCAAGTT
1 TGCATTCAGATAATGCATAGTATGCTCAAGTT
* *
434838 TGGATTCAGATATTGCATA
1 TGCATTCAGATAATGCATA
434857 AGAGTATCAG
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
30 1 0.01
31 22 0.33
32 44 0.66
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (32 bp):
TGCATTCAGATAATGCATAGTATGCTCAAGTT
Found at i:437404 original size:13 final size:13
Alignment explanation
Indices: 437371--437423 Score: 61
Period size: 13 Copynumber: 3.8 Consensus size: 13
437361 GTCACAACCC
437371 GACCCGACCCGTT
1 GACCCGACCCGTT
437384 GACCACCCGACCCGTT
1 G---ACCCGACCCGTT
* *
437400 TACCCGACCTGTT
1 GACCCGACCCGTT
437413 GACCCGACCCG
1 GACCCGACCCG
437424 ACCCGTTGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 21 0.64
16 12 0.36
ACGTcount: A:0.17, C:0.47, G:0.21, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:437424 original size:18 final size:18
Alignment explanation
Indices: 437367--437441 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 18
437357 ACCGGTCACA
437367 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
437385 A-CC-ACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
* *
437400 ----TACCCGACCTGTTG
1 ACCCGACCCGACCCGTTG
437414 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
437432 ACTCGACCCG
1 ACCCGACCCG
437442 TTGACCGTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
13 11 0.23
16 12 0.26
17 2 0.04
18 22 0.47
ACGTcount: A:0.17, C:0.48, G:0.20, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:437426 original size:31 final size:30
Alignment explanation
Indices: 437371--437447 Score: 111
Period size: 31 Copynumber: 2.6 Consensus size: 30
437361 GTCACAACCC
437371 GACCCGACCCGTTGA-CCACCCGACCCGTT
1 GACCCGACCCGTTGACCCACCCGACCCGTT
* *
437400 TACCCGACCTGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCC-ACCCGACCCGTT
*
437431 GACTCGACCCGTTGACC
1 GACCCGACCCGTTGACC
437448 GTTGACACGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 13 0.32
30 2 0.05
31 26 0.63
ACGTcount: A:0.17, C:0.45, G:0.21, T:0.17
Consensus pattern (30 bp):
GACCCGACCCGTTGACCCACCCGACCCGTT
Found at i:437438 original size:13 final size:13
Alignment explanation
Indices: 437422--437446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
437412 TGACCCGACC
437422 CGACCCGTTGACT
1 CGACCCGTTGACT
437435 CGACCCGTTGAC
1 CGACCCGTTGAC
437447 CGTTGACACG
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:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (13 bp):
CGACCCGTTGACT
Found at i:437451 original size:7 final size:7
Alignment explanation
Indices: 437439--437470 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
437429 TTGACTCGAC
437439 CCGTTGA
1 CCGTTGA
437446 CCGTTGA
1 CCGTTGA
437453 CACGTTGA
1 C-CGTTGA
437461 CCGTTGA
1 CCGTTGA
437468 CCG
1 CCG
437471 GCGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:437460 original size:15 final size:15
Alignment explanation
Indices: 437440--437468 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
437430 TGACTCGACC
437440 CGTTGACCGTTGACA
1 CGTTGACCGTTGACA
437455 CGTTGACCGTTGAC
1 CGTTGACCGTTGAC
437469 CGGCGTTGAC
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:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (15 bp):
CGTTGACCGTTGACA
Found at i:440227 original size:11 final size:11
Alignment explanation
Indices: 440211--440236 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
440201 AGCAATTAAA
440211 ACATAATAATT
1 ACATAATAATT
440222 ACATAATAATT
1 ACATAATAATT
440233 ACAT
1 ACAT
440237 TCCACTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (11 bp):
ACATAATAATT
Found at i:447719 original size:11 final size:11
Alignment explanation
Indices: 447703--447728 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
447693 AGCAATTAAA
447703 ACATAATAATT
1 ACATAATAATT
447714 ACATAATAATT
1 ACATAATAATT
447725 ACAT
1 ACAT
447729 GCCACTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (11 bp):
ACATAATAATT
Found at i:450273 original size:24 final size:24
Alignment explanation
Indices: 450184--450285 Score: 98
Period size: 24 Copynumber: 4.2 Consensus size: 24
450174 TTATCCGATT
* *
450184 TCTGATTTGAATTCTGTTTTGACA
1 TCTGATCTGAATTCTGTTTTGATA
* *
450208 TCTGATCTGAAATCTGTTCTGAT-
1 TCTGATCTGAATTCTGTTTTGATA
* * * *
450231 TCCTAACCTGGATTCTGTTATGATA
1 T-CTGATCTGAATTCTGTTTTGATA
* *
450256 TCTGATCTGAATTATGTTTTGATT
1 TCTGATCTGAATTCTGTTTTGATA
450280 TCTGAT
1 TCTGAT
450286 ATCTCCGTTT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
23 1 0.02
24 59 0.97
25 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.47
Consensus pattern (24 bp):
TCTGATCTGAATTCTGTTTTGATA
Found at i:451544 original size:18 final size:18
Alignment explanation
Indices: 451521--451589 Score: 75
Period size: 18 Copynumber: 3.5 Consensus size: 18
451511 AAATGGGTAC
451521 CGATACCCTACACAGTAT
1 CGATACCCTACACAGTAT
*
451539 CGATACCCTTACATATAGTAGT
1 CGATACCC-TAC--ACAGTA-T
451561 ACCGATACCCTACACAGTAT
1 --CGATACCCTACACAGTAT
451581 CGATACCCT
1 CGATACCCT
451590 TACATATAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
18 17 0.40
19 3 0.07
20 1 0.02
21 10 0.23
22 1 0.02
23 3 0.07
24 8 0.19
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.25
Consensus pattern (18 bp):
CGATACCCTACACAGTAT
Found at i:451561 original size:24 final size:24
Alignment explanation
Indices: 451534--451611 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
451524 TACCCTACAC
451534 AGTATCGATACCCTTACATATAGT
1 AGTATCGATACCCTTACATATAGT
* *
451558 AGTACCGATACCC-TAC----A-C
1 AGTATCGATACCCTTACATATAGT
451576 AGTATCGATACCCTTACATATAGT
1 AGTATCGATACCCTTACATATAGT
*
451600 AATATCGATACC
1 AGTATCGATACC
451612 ATGGTCATTG
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
18 12 0.28
19 4 0.09
23 4 0.09
24 23 0.53
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.28
Consensus pattern (24 bp):
AGTATCGATACCCTTACATATAGT
Found at i:451576 original size:42 final size:42
Alignment explanation
Indices: 451517--451611 Score: 172
Period size: 42 Copynumber: 2.3 Consensus size: 42
451507 TGCTAAATGG
451517 GTACCGATACCCTACACAGTATCGATACCCTTACATATAGTA
1 GTACCGATACCCTACACAGTATCGATACCCTTACATATAGTA
451559 GTACCGATACCCTACACAGTATCGATACCCTTACATATAGTA
1 GTACCGATACCCTACACAGTATCGATACCCTTACATATAGTA
* *
451601 ATATCGATACC
1 GTACCGATACC
451612 ATGGTCATTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (42 bp):
GTACCGATACCCTACACAGTATCGATACCCTTACATATAGTA
Found at i:451758 original size:44 final size:44
Alignment explanation
Indices: 451692--451791 Score: 139
Period size: 44 Copynumber: 2.3 Consensus size: 44
451682 ATACCATGTT
**
451692 CGGTATCGATACTACTTTACATAGTAGCATCGATACTCAC-TGGA
1 CGGTATCGATACTACTACACATAGTAGCATCGATACTC-CTTGGA
*
451736 CGGTATCGATACTACTACACATAGTAGTATCGATACTCCTTGGA
1 CGGTATCGATACTACTACACATAGTAGCATCGATACTCCTTGGA
**
451780 CAATATCGATAC
1 CGGTATCGATAC
451792 CGTTGAGTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
43 1 0.02
44 49 0.98
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (44 bp):
CGGTATCGATACTACTACACATAGTAGCATCGATACTCCTTGGA
Found at i:457618 original size:21 final size:20
Alignment explanation
Indices: 457527--457618 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
457517 CTCTTGCTAG
* *
457527 GTATCGATACTACTAGTATA
1 GTATCGATACTACTTGAATA
*
457547 GTATCAATACTACTTGAATGA
1 GTATCGATACTACTTGAAT-A
* * *
457568 GTATCGATACT-GTTCATACA
1 GTATCGATACTACTTGA-ATA
* *
457588 GTACCGATACTAATTGAATA
1 GTATCGATACTACTTGAATA
457608 GCTATCGATAC
1 G-TATCGATAC
457619 CCATGTATCG
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 33 0.59
21 23 0.41
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
GTATCGATACTACTTGAATA
Found at i:458110 original size:18 final size:19
Alignment explanation
Indices: 458087--458125 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
458077 AAAAACAAAA
458087 TTTATTTAATT-GTTGTTT
1 TTTATTTAATTAGTTGTTT
458105 TTTATTTAATTACGTTGTTT
1 TTTATTTAATTA-GTTGTTT
458125 T
1 T
458126 CATGAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (19 bp):
TTTATTTAATTAGTTGTTT
Found at i:464569 original size:46 final size:46
Alignment explanation
Indices: 464499--464616 Score: 209
Period size: 46 Copynumber: 2.6 Consensus size: 46
464489 TTATTCGTTA
*
464499 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATACATCCTTTCATAC
* *
464545 ATTTCATTTATGGCATCCTCTCATGCCTTAATACATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATACATCCTTTCATAC
464591 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
464617 ATTTCATTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.43
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATACATCCTTTCATAC
Found at i:464620 original size:72 final size:72
Alignment explanation
Indices: 464531--464688 Score: 271
Period size: 72 Copynumber: 2.2 Consensus size: 72
464521 ATGCCTTAAT
* * *
464531 GCATCCTTTCATACATTTCATTTATGGCATCCTCTCATGCCTTAATACATCCTTTCATGCATTTC
1 GCATCCTTTCATGCATTTCATTTATGGCATCCTCTCATGCATTAATACATCATTTCATGCATTTC
464596 ATTTATG
66 ATTTATG
* *
464603 GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCATTAATGCATCATTTCATGCATTTC
1 GCATCCTTTCATGCATTTCATTTATGGCATCCTCTCATGCATTAATACATCATTTCATGCATTTC
464668 ATTTATG
66 ATTTATG
464675 GCATCCTTTCATGC
1 GCATCCTTTCATGC
464689 CTTAATGCAT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 81 1.00
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.43
Consensus pattern (72 bp):
GCATCCTTTCATGCATTTCATTTATGGCATCCTCTCATGCATTAATACATCATTTCATGCATTTC
ATTTATG
Found at i:464653 original size:46 final size:46
Alignment explanation
Indices: 464603--464729 Score: 236
Period size: 46 Copynumber: 2.8 Consensus size: 46
464593 TTCATTTATG
464603 GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCATTAAT
1 GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCATTAAT
* *
464649 GCATCATTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCATTAAT
464695 GCATCCTTTCATGCATTTCATTTATGGCATCCTTT
1 GCATCCTTTCATGCATTTCATTTATGGCATCCTTT
464730 TAGAGCAGTT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCATTAAT
Found at i:464707 original size:118 final size:118
Alignment explanation
Indices: 464499--464729 Score: 417
Period size: 118 Copynumber: 2.0 Consensus size: 118
464489 TTATTCGTTA
* *
464499 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTCATTTATGGCATCCT
1 ATTTCATTTATGGCATCCTTTCATGCATTAATGCATCATTTCATACATTTCATTTATGGCATCCT
464564 CTCATGCCTTAATACATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGC
66 CTCATGCCTTAATACATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGC
*
464617 ATTTCATTTATGGCATCCTTTCATGCATTAATGCATCATTTCATGCATTTCATTTATGGCATCCT
1 ATTTCATTTATGGCATCCTTTCATGCATTAATGCATCATTTCATACATTTCATTTATGGCATCCT
* *
464682 TTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTT
66 CTCATGCCTTAATACATCCTTTCATGCATTTCATTTATGGCATCCTTT
464730 TAGAGCAGTT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 108 1.00
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (118 bp):
ATTTCATTTATGGCATCCTTTCATGCATTAATGCATCATTTCATACATTTCATTTATGGCATCCT
CTCATGCCTTAATACATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGC
Found at i:464725 original size:72 final size:69
Alignment explanation
Indices: 464548--464711 Score: 226
Period size: 72 Copynumber: 2.4 Consensus size: 69
464538 TTCATACATT
* * * * *
464548 TCATTTATGGCATCCTCTCATGCCTTAATACATCCTTTCATGCATTTCATTTATGGCATCCTTTC
1 TCATTAATGGCATCCTTTCATGCATTAATGCATCATTTCATGCATTTCATTTATGGCATCCTTTC
464613 ATGC
66 ATGC
*
464617 ATTTCATTTATGGCATCCTTTCATGCATTAATGCATCATTTCATGCATTTCATTTATGGCATCCT
1 ---TCATTAATGGCATCCTTTCATGCATTAATGCATCATTTCATGCATTTCATTTATGGCATCCT
464682 TTCATGC
63 TTCATGC
464689 -C-TTAAT-GCATCCTTTCATGCATT
1 TCATTAATGGCATCCTTTCATGCATT
464712 TCATTTATGG
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
66 17 0.20
67 4 0.05
68 1 0.01
72 65 0.75
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.43
Consensus pattern (69 bp):
TCATTAATGGCATCCTTTCATGCATTAATGCATCATTTCATGCATTTCATTTATGGCATCCTTTC
ATGC
Found at i:472537 original size:231 final size:227
Alignment explanation
Indices: 472138--472594 Score: 729
Period size: 231 Copynumber: 2.0 Consensus size: 227
472128 GACAAAGATA
*
472138 TTTTTGGGGATTCTCAATCATTAAAAGTGAAACTATATTCAAGGGTGGTCATCTTTATACAGATC
1 TTTTTGGGGACTCTCAATCATTAAAAGTGAAACTATATTCAAGGGTGGTCATCTTTATACAGATC
* * *
472203 CCTCGATGCTCCATACAAAAGTTTATAAATATATCTTTATCTTGTCAAAATGTGATGGTTTTTTA
66 CCTCCATGCTCCATACAAAAGTTTATAAAGATATCTTTATCTTGTCAAAATGTGATGGCTTTTTA
* *
472268 GACAAGAGTTTTTTTATCACATAGTGATTGGAAGGTAGTTCCTCTTCAT-GTGTTGAATTCATTA
131 GACAAGAGTTTTTTTATCACATAGTGATTGGAAGGTAGTTCCTCTTAATAG-GTTGAATACATTA
* *
472332 ATGTTTCTTCGTATAGGTGTATGTCATAGGATC
195 ATGCTTCTTCGTATAAGTGTATGTCATAGGATC
* *
472365 TTTTTGGGGACTCTCAATCATTAAAAGTGAAGCTATATTCAAGGGTGCAAGGTCAT-TGTTATGC
1 TTTTTGGGGACTCTCAATCATTAAAAGTGAAACTATATTCAAGGGT----GGTCATCT-TTATAC
*
472429 AGATCCCTCCATGCTCCATGCAAAAGTTTATAAAGATATCTTTATCTTGTCAAAATGTGATGGCT
61 AGATCCCTCCATGCTCCATACAAAAGTTTATAAAGATATCTTTATCTTGTCAAAATGTGATGGCT
*
472494 TTTTATACAAGAGTTTTTTTATCACATAGTGATTGGAAGGTAGTTCCTCTTAATAGGTTGAATAC
126 TTTTAGACAAGAGTTTTTTTATCACATAGTGATTGGAAGGTAGTTCCTCTTAATAGGTTGAATAC
*
472559 CTTAATGCTTCTTCGTATAAGTGTATGTCATAGGAT
191 ATTAATGCTTCTTCGTATAAGTGTATGTCATAGGAT
472595 GGCTTTTTTT
Statistics
Matches: 211, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
227 44 0.21
230 1 0.00
231 165 0.78
232 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (227 bp):
TTTTTGGGGACTCTCAATCATTAAAAGTGAAACTATATTCAAGGGTGGTCATCTTTATACAGATC
CCTCCATGCTCCATACAAAAGTTTATAAAGATATCTTTATCTTGTCAAAATGTGATGGCTTTTTA
GACAAGAGTTTTTTTATCACATAGTGATTGGAAGGTAGTTCCTCTTAATAGGTTGAATACATTAA
TGCTTCTTCGTATAAGTGTATGTCATAGGATC
Found at i:472752 original size:15 final size:15
Alignment explanation
Indices: 472732--472762 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
472722 TTTTGTTCTT
472732 GGTTTAAGGTTTTAA
1 GGTTTAAGGTTTTAA
*
472747 GGTTTAAGTTTTTAA
1 GGTTTAAGGTTTTAA
472762 G
1 G
472763 ATGTAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (15 bp):
GGTTTAAGGTTTTAA
Found at i:473082 original size:7 final size:7
Alignment explanation
Indices: 473067--473229 Score: 59
Period size: 7 Copynumber: 23.3 Consensus size: 7
473057 GGTTATAGTG
473067 TTAAGGT
1 TTAAGGT
*
473074 TTAAAGTT
1 TT-AAGGT
473082 TTAAGGT
1 TTAAGGT
*
473089 TTAGGGT
1 TTAAGGT
*
473096 TT-ATGT
1 TTAAGGT
* *
473102 TTGATGTT
1 TT-AAGGT
*
473110 TTAAAGT
1 TTAAGGT
*
473117 TTAGGGT
1 TTAAGGT
473124 TTAAGGT
1 TTAAGGT
*
473131 TTAATGT
1 TTAAGGT
**
473138 TTAAACT
1 TTAAGGT
*
473145 TT-AGGG
1 TTAAGGT
473151 TT-AGAGT
1 TTAAG-GT
473158 TTAAGG-
1 TTAAGGT
473164 -TAAGTGT
1 TTAAG-GT
*
473171 TTAAGAT
1 TTAAGGT
* *
473178 TTATGCT
1 TTAAGGT
*
473185 TT-AGAGA
1 TTAAG-GT
*
473192 TTAAAGT
1 TTAAGGT
*
473199 TTAGGGT
1 TTAAGGT
*
473206 TTAAAGT
1 TTAAGGT
473213 TTAAGGCT
1 TTAAGG-T
*
473221 TTAATGT
1 TTAAGGT
473228 TT
1 TT
473230 TATATACTGT
Statistics
Matches: 110, Mismatches: 35, Indels: 22
0.66 0.21 0.13
Matches are distributed among these distances:
5 4 0.04
6 11 0.10
7 73 0.66
8 22 0.20
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (7 bp):
TTAAGGT
Found at i:473087 original size:15 final size:15
Alignment explanation
Indices: 473028--473091 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
473018 GAGTTGAGTG
473028 TTAAGAGTTTT-AGTGT
1 TTAA-AGTTTTAAG-GT
* *
473044 TTAGAGTTTATATGG-
1 TTAAAGTTT-TAAGGT
* *
473059 TTATAGTGTTAAGGT
1 TTAAAGTTTTAAGGT
473074 TTAAAGTTTTAAGGT
1 TTAAAGTTTTAAGGT
473089 TTA
1 TTA
473092 GGGTTTATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
14 4 0.11
15 28 0.74
16 5 0.13
17 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.48
Consensus pattern (15 bp):
TTAAAGTTTTAAGGT
Found at i:473126 original size:14 final size:14
Alignment explanation
Indices: 473081--473229 Score: 65
Period size: 14 Copynumber: 10.7 Consensus size: 14
473071 GGTTTAAAGT
*
473081 TTTAAGGTTTAGGG
1 TTTAAAGTTTAGGG
* * *
473095 TTT-ATGTTTGATGT
1 TTTAAAGTTT-AGGG
473109 TTTAAAGTTTAGGG
1 TTTAAAGTTTAGGG
* **
473123 TTTAAGGTTTAATG
1 TTTAAAGTTTAGGG
*
473137 TTTAAACTTTAGGG
1 TTTAAAGTTTAGGG
* *
473151 -TTAGAGTTTAAGG
1 TTTAAAGTTTAGGG
* * *
473164 --TAAGTGTTTAAGA
1 TTTAA-AGTTTAGGG
* *
473177 TTT-ATGCTTTAGAG
1 TTTAAAG-TTTAGGG
*
473191 ATTAAAGTTTAGGG
1 TTTAAAGTTTAGGG
*
473205 TTTAAAGTTTAAGGC
1 TTTAAAGTTT-AGGG
*
473220 TTTAATGTTT
1 TTTAAAGTTT
473230 TATATACTGT
Statistics
Matches: 99, Mismatches: 28, Indels: 15
0.70 0.20 0.11
Matches are distributed among these distances:
12 2 0.02
13 24 0.24
14 53 0.54
15 20 0.20
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (14 bp):
TTTAAAGTTTAGGG
Found at i:476313 original size:16 final size:16
Alignment explanation
Indices: 476292--476323 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
476282 CCCTAGATTT
476292 GGGGATTTTAGCCTTA
1 GGGGATTTTAGCCTTA
476308 GGGGATTTTAGCCTTA
1 GGGGATTTTAGCCTTA
476324 AATCCCTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (16 bp):
GGGGATTTTAGCCTTA
Found at i:476913 original size:7 final size:7
Alignment explanation
Indices: 476903--477044 Score: 60
Period size: 7 Copynumber: 19.7 Consensus size: 7
476893 AATTTATATT
476903 TTTATGG
1 TTTATGG
476910 TTTATGG
1 TTTATGG
*
476917 TTTTATAG
1 -TTTATGG
476925 TTTA-GG
1 TTTATGG
*
476931 TTTTATGA
1 -TTTATGG
*
476939 TTTATAGT
1 TTTAT-GG
*
476947 TTTAGGG
1 TTTATGG
476954 TTTTAT-G
1 -TTTATGG
*
476961 TTTATAGA
1 TTTAT-GG
* *
476969 TTTAAAGT
1 TTT-ATGG
*
476977 TTTAAGG
1 TTTATGG
476984 TTTATGG
1 TTTATGG
*
476991 TTTATAG
1 TTTATGG
*
476998 TTTAAGG
1 TTTATGG
477005 TTTAAT--
1 TTT-ATGG
*
477011 TTTAGTGA
1 TTTA-TGG
477019 TTT-TGGG
1 TTTAT-GG
*
477026 TTTAGGG
1 TTTATGG
477033 TTTATGG
1 TTTATGG
477040 TTTAT
1 TTTAT
477045 TATTTAAAGA
Statistics
Matches: 102, Mismatches: 19, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
5 1 0.01
6 11 0.11
7 62 0.61
8 27 0.26
9 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.23, T:0.56
Consensus pattern (7 bp):
TTTATGG
Found at i:476913 original size:15 final size:15
Alignment explanation
Indices: 476895--476993 Score: 69
Period size: 15 Copynumber: 6.7 Consensus size: 15
476885 GAATTTAGAA
*
476895 TTTATATTTTTATGG
1 TTTATAGTTTTATGG
* *
476910 TTTATGGTTTTATAG
1 TTTATAGTTTTATGG
* *
476925 TTTA-GGTTTTATGA
1 TTTATAGTTTTATGG
*
476939 TTTATAGTTTTAGGG
1 TTTATAGTTTTATGG
*
476954 TTT-TA-TGTTTATAGA
1 TTTATAGT-TTTAT-GG
* *
476969 TTTAAAGTTTTAAGG
1 TTTATAGTTTTATGG
*
476984 TTTATGGTTT
1 TTTATAGTTT
476994 ATAGTTTAAG
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
13 1 0.02
14 18 0.28
15 39 0.61
16 5 0.08
17 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (15 bp):
TTTATAGTTTTATGG
Found at i:476929 original size:44 final size:43
Alignment explanation
Indices: 476880--476972 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 43
476870 AAGATTTAGG
* *
476880 GTTTAGAATTTA-GAATTTATATTTTTATGG-TTTATGGTTTTATA
1 GTTTAGAATTTATG-ATTTATAGTTTTAGGGTTTTAT-G-TTTATA
**
476924 GTTTAGGTTTTATGATTTATAGTTTTAGGGTTTTATGTTTATA
1 GTTTAGAATTTATGATTTATAGTTTTAGGGTTTTATGTTTATA
476967 GATTTA
1 G-TTTA
476973 AAGTTTTAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
43 7 0.17
44 29 0.69
45 6 0.14
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.57
Consensus pattern (43 bp):
GTTTAGAATTTATGATTTATAGTTTTAGGGTTTTATGTTTATA
Found at i:476934 original size:14 final size:15
Alignment explanation
Indices: 476902--477007 Score: 71
Period size: 14 Copynumber: 7.2 Consensus size: 15
476892 GAATTTATAT
*
476902 TTTTATGGTTTATGG
1 TTTTATAGTTTATGG
476917 TTTTATAGTTTA-GG
1 TTTTATAGTTTATGG
*
476931 TTTTAT-GATTTATAG
1 TTTTATAG-TTTATGG
**
476946 TTTTAGGGTTTTAT-G
1 TTTTATAG-TTTATGG
**
476961 -TTTATAGATTTAAAG
1 TTTTATAG-TTTATGG
476976 TTTTA-AGGTTTATGG
1 TTTTATA-GTTTATGG
*
476991 -TTTATAGTTTAAGG
1 TTTTATAGTTTATGG
477005 TTT
1 TTT
477008 AATTTTAGTG
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
13 1 0.01
14 32 0.44
15 28 0.39
16 11 0.15
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.57
Consensus pattern (15 bp):
TTTTATAGTTTATGG
Found at i:476950 original size:22 final size:23
Alignment explanation
Indices: 476894--476972 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 23
476884 AGAATTTAGA
* *
476894 ATTTATATTTTTATGG-TTTATGG
1 ATTTATAGTTTTAGGGTTTTAT-G
*
476917 TTTTATAG-TTTA-GGTTTTATG
1 ATTTATAGTTTTAGGGTTTTATG
476938 ATTTATAGTTTTAGGGTTTTATG
1 ATTTATAGTTTTAGGGTTTTATG
*
476961 -TTTATAGATTTA
1 ATTTATAGTTTTA
476973 AAGTTTTAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
21 10 0.20
22 24 0.49
23 15 0.31
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (23 bp):
ATTTATAGTTTTAGGGTTTTATG
Found at i:476978 original size:22 final size:22
Alignment explanation
Indices: 476918--476994 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
476908 GGTTTATGGT
476918 TTTATAGTTT-AGGTTTTATGA
1 TTTATAGTTTAAGGTTTTATGA
*
476939 TTTATAGTTTTAGGGTTTTATG-
1 TTTATAG-TTTAAGGTTTTATGA
* * *
476961 TTTATAGATTTAAAGTTTTAAGG
1 TTTATAG-TTTAAGGTTTTATGA
*
476984 TTTATGGTTTA
1 TTTATAGTTTA
476995 TAGTTTAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
21 7 0.15
22 25 0.53
23 15 0.32
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (22 bp):
TTTATAGTTTAAGGTTTTATGA
Found at i:476978 original size:30 final size:30
Alignment explanation
Indices: 476916--477007 Score: 95
Period size: 30 Copynumber: 3.1 Consensus size: 30
476906 ATGGTTTATG
*
476916 GTTTTATA-GTTTA-GGTTT-TATGATTTATA
1 GTTTTA-AGGTTTATGGTTTATA-GATTTAAA
*
476945 GTTTTAGGGTTTTAT-GTTTATAGATTTAAA
1 GTTTTAAGG-TTTATGGTTTATAGATTTAAA
*
476975 GTTTTAAGGTTTATGGTTTATAG-TTTAAG
1 GTTTTAAGGTTTATGGTTTATAGATTTAAA
477004 GTTT
1 GTTT
477008 AATTTTAGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
29 21 0.39
30 31 0.57
31 2 0.04
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (30 bp):
GTTTTAAGGTTTATGGTTTATAGATTTAAA
Found at i:477211 original size:15 final size:15
Alignment explanation
Indices: 477193--477247 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
477183 TATTATTTGT
477193 GGTTTATATTTTTAA
1 GGTTTATATTTTTAA
477208 GGTTTATA-TTTT-A
1 GGTTTATATTTTTAA
*
477221 GGTTT-TATAGTTTAA
1 GGTTTATAT-TTTTAA
477236 GGTTTATTATTT
1 GGTTTA-TATTT
477248 ATGTTTCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
12 2 0.06
13 6 0.18
14 7 0.21
15 14 0.42
16 1 0.03
17 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (15 bp):
GGTTTATATTTTTAA
Found at i:477241 original size:21 final size:20
Alignment explanation
Indices: 477217--477276 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
477207 AGGTTTATAT
477217 TTTAGGTTTTATAGTTTAAGG
1 TTTAGGTTTTAT-GTTTAAGG
*
477238 TTTA-TTATTTATGTTTCAAGG
1 TTTAGGT-TTTATGTTT-AAGG
*
477259 TTTAGGGTTTATGGTTTA
1 TTTAGGTTTTAT-GTTTA
477277 TATTTTGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 5 0.16
21 23 0.72
22 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.22, T:0.55
Consensus pattern (20 bp):
TTTAGGTTTTATGTTTAAGG
Found at i:477248 original size:14 final size:14
Alignment explanation
Indices: 477181--477248 Score: 59
Period size: 15 Copynumber: 4.8 Consensus size: 14
477171 ATGTCTTGGT
**
477181 TTTATTATTTGTGG
1 TTTATTATTTAAGG
*
477195 TTTATATTTTTAAGG
1 TTTAT-TATTTAAGG
*
477210 TTTA-TATTTTAGG
1 TTTATTATTTAAGG
477223 TTT-TATAGTTTAAGG
1 TTTAT-TA-TTTAAGG
477238 TTTATTATTTA
1 TTTATTATTTA
477249 TGTTTCAAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 10 0.23
14 11 0.26
15 21 0.49
16 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.62
Consensus pattern (14 bp):
TTTATTATTTAAGG
Found at i:477248 original size:28 final size:29
Alignment explanation
Indices: 477181--477270 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 29
477171 ATGTCTTGGT
* **
477181 TTTATTATTT-GTGGTTTATATTTTTAAGG
1 TTTATTATTTAG-GTTTTATAGGTTTAAGG
477210 TTTA-TATTTTAGGTTTTATA-GTTTAAGG
1 TTTATTA-TTTAGGTTTTATAGGTTTAAGG
* * *
477238 TTTATTATTTATGTTTCA-AGGTTTAGGG
1 TTTATTATTTAGGTTTTATAGGTTTAAGG
477266 TTTAT
1 TTTAT
477271 GGTTTATATT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
27 1 0.02
28 34 0.65
29 16 0.31
30 1 0.02
ACGTcount: A:0.22, C:0.01, G:0.18, T:0.59
Consensus pattern (29 bp):
TTTATTATTTAGGTTTTATAGGTTTAAGG
Found at i:477276 original size:28 final size:26
Alignment explanation
Indices: 477230--477302 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 26
477220 AGGTTTTATA
* * *
477230 GTTTAAGGTTTATTATTTATGTTTCAAG
1 GTTTAGGGTTTATTGTTTATATTT--AG
* *
477258 GTTTAGGGTTTATGGTTTATATTTTG
1 GTTTAGGGTTTATTGTTTATATTTAG
477284 GTTTTAGGGTTTATTGTTT
1 G-TTTAGGGTTTATTGTTT
477303 TTTTTTCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.05
27 16 0.42
28 20 0.53
ACGTcount: A:0.18, C:0.01, G:0.23, T:0.58
Consensus pattern (26 bp):
GTTTAGGGTTTATTGTTTATATTTAG
Found at i:477315 original size:27 final size:27
Alignment explanation
Indices: 477259--477315 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
477249 TGTTTCAAGG
**
477259 TTTAGGGTTTATGGTTTATATTTTGGT
1 TTTAGGGTTTATGGTTTATATTTTACT
* *
477286 TTTAGGGTTTATTGTTT-TTTTTTCACT
1 TTTAGGGTTTATGGTTTATATTTT-ACT
477313 TTT
1 TTT
477316 GAATAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.12, C:0.04, G:0.19, T:0.65
Consensus pattern (27 bp):
TTTAGGGTTTATGGTTTATATTTTACT
Found at i:480033 original size:15 final size:14
Alignment explanation
Indices: 480015--480053 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
480005 AGATGTGTGG
*
480015 TTTAAGGTTTAAGAA
1 TTTAGGGTTTAA-AA
*
480030 TTTAGGGTTTGAAA
1 TTTAGGGTTTAAAA
480044 TTTAGGGTTT
1 TTTAGGGTTT
480054 TAATATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTAAAA
Found at i:481864 original size:34 final size:34
Alignment explanation
Indices: 481826--481895 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
481816 ATATATATGA
* *
481826 AATCATAA-AAAAAATAATTTAATATTCAAATTAT
1 AATCATAAGAAAAAAT-ATTTAAGATTCAAATCAT
481860 AATCATAAGAAAAAATATTTAAGATTCAAATCAT
1 AATCATAAGAAAAAATATTTAAGATTCAAATCAT
481894 AA
1 AA
481896 AGTTATCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 26 0.79
35 7 0.21
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (34 bp):
AATCATAAGAAAAAATATTTAAGATTCAAATCAT
Found at i:484097 original size:4 final size:4
Alignment explanation
Indices: 484088--484112 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
484078 TAGCATATTC
484088 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
484113 GGAACAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:485298 original size:16 final size:15
Alignment explanation
Indices: 485263--485302 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
485253 AAGAAAGAAA
* *
485263 TGGGAGAAAACATTT
1 TGGGGGAAAAAATTT
485278 TGGGGGAAAAAATTT
1 TGGGGGAAAAAATTT
485293 TGGGGGAAAA
1 TGGGGGAAAA
485303 TCTCCCCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.40, C:0.03, G:0.35, T:0.23
Consensus pattern (15 bp):
TGGGGGAAAAAATTT
Found at i:486079 original size:36 final size:36
Alignment explanation
Indices: 485999--486143 Score: 96
Period size: 36 Copynumber: 4.0 Consensus size: 36
485989 GTTATTTTAA
* * * * *
485999 AGGAAAA-TGTCTCAAGAGAGACAAAATTTGTTTTTTT
1 AGGAAAACTATCTCAAGTGAGA-TAAATTT-TGTTCTT
* *
486036 AGAGAAAACAATCTCAAGTGAGATTAATTTTGTT-TT
1 AG-GAAAACTATCTCAAGTGAGATAAATTTTGTTCTT
* * * * * *
486072 AAGGAAAATTGTCTCTAGCGAGACAAAATTTGTTCTT
1 -AGGAAAACTATCTCAAGTGAGATAAATTTTGTTCTT
** *
486109 AGGAAAACTATCTCGTGTGAGATCAATTTTGTTCT
1 AGGAAAACTATCTCAAGTGAGATAAATTTTGTTCT
486144 AAATATTTCA
Statistics
Matches: 82, Mismatches: 22, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
36 52 0.63
37 9 0.11
38 10 0.12
39 11 0.13
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (36 bp):
AGGAAAACTATCTCAAGTGAGATAAATTTTGTTCTT
Found at i:486141 original size:72 final size:74
Alignment explanation
Indices: 485993--486146 Score: 197
Period size: 72 Copynumber: 2.1 Consensus size: 74
485983 GCTAAGGTTA
*
485993 TTTTAAAGGAAAATGTCTCAAGAGAGACAAAATTTGTTTTTTTAGAGAAAACAATCTCAAGTGAG
1 TTTTAAAGGAAAATGTCTCAAGAGAGACAAAATTTG-TTTCTTAGAGAAAACAATCTCAAGTGAG
*
486058 ATTAATTTTG
65 ATCAATTTTG
* * * **
486068 TTTT-AAGGAAAATTGTCTCTAGCGAGACAAAATTTG-TTCTTAG-GAAAACTATCTCGTGTGAG
1 TTTTAAAGGAAAA-TGTCTCAAGAGAGACAAAATTTGTTTCTTAGAGAAAACAATCTCAAGTGAG
486130 ATCAATTTTG
65 ATCAATTTTG
*
486140 TTCTAAA
1 TTTTAAA
486147 TATTTCAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
72 28 0.41
73 8 0.12
74 8 0.12
75 25 0.36
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (74 bp):
TTTTAAAGGAAAATGTCTCAAGAGAGACAAAATTTGTTTCTTAGAGAAAACAATCTCAAGTGAGA
TCAATTTTG
Found at i:486228 original size:37 final size:36
Alignment explanation
Indices: 486165--486339 Score: 100
Period size: 38 Copynumber: 5.0 Consensus size: 36
486155 AATTTTGGGA
* ** *
486165 AAATGTCTCAAGCGAGATGAAGTTTGTTTTGAGAGAG
1 AAATGTCTCAAGTGAGACAAAATTTGTTTTGA-AGAG
486202 AAATGTCTCAAGTGAGACAAAATTTGTTTT-AAGA-
1 AAATGTCTCAAGTGAGACAAAATTTGTTTTGAAGAG
* * ** *
486236 AAA--AC-C-ACTTTG---AAATTTGTGTTCCGAAG-G
1 AAATGTCTCAAGTGAGACAAAATTTGT-TT-TGAAGAG
* * * *
486266 AAAATGTCTCAAGTGAGACGAAATTCGTTTTTTAGAGAA
1 -AAATGTCTCAAGTGAGACAAAATTTG-TTTTGA-AGAG
*
486305 AAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGA
1 AAATGTCTCAAGTGAGACAAAATTTGTTTTGAAGA
486340 AAAACAACTT
Statistics
Matches: 104, Mismatches: 19, Indels: 31
0.68 0.12 0.20
Matches are distributed among these distances:
27 8 0.08
28 2 0.02
30 6 0.06
31 4 0.04
32 1 0.01
33 1 0.01
34 4 0.04
35 6 0.06
36 4 0.04
37 33 0.32
38 34 0.33
39 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (36 bp):
AAATGTCTCAAGTGAGACAAAATTTGTTTTGAAGAG
Found at i:486308 original size:38 final size:36
Alignment explanation
Indices: 486266--486343 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 36
486256 GTTCCGAAGG
*
486266 AAAATGTCTCAAGTGAGACGAAATTCGTTTTTTAGAGA
1 AAAATGTCTCAAGTGAGACAAAATTCG-TTTTTA-AGA
*
486304 AAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGA
1 AAAATGTCTCAAGTGAGACAAAATTCGTTTTTAAGA
486340 AAAA
1 AAAA
486344 CAACTTTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 7 0.18
37 6 0.16
38 25 0.66
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (36 bp):
AAAATGTCTCAAGTGAGACAAAATTCGTTTTTAAGA
Found at i:486475 original size:102 final size:102
Alignment explanation
Indices: 486162--486567 Score: 551
Period size: 102 Copynumber: 4.0 Consensus size: 102
486152 CAAAATTTTG
* * * * *
486162 GGAAAATGTCTCAAGCGAGATGAAGTTTGTTTTGAGAGAGAAATGTCTCAAGTGAGACAAAATTT
1 GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
* * * *
486227 GTTTTAAGAAAAACCACTTTGAAATTTGTGTTCCGAA
66 ATTTCAAGAAAAACAACTTTGAAATTTGTATTCCGAA
* *
486264 GGAAAATGTCTCAAGTGAGACGAAATTCGTTTTTTAGAGAAAAATGTCTCAAGTGAGACAAAATT
1 GGAAAATGTCTCAAGTGAGACGAAATTTG-TTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATT
* * * *
486329 TGTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCAAA
65 T-ATTTCAAGAAAAACAACTTTGAAATTTGTATTCCGAA
* * * * * ***
486368 AGAAAATGTCTCATGTGAGACAAAATCTGTTTTAAGAGAAAAATATCTCAAGTGAGACAAAAAAA
1 GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
* *
486433 ATTTCAAGAAAAATAACTTTTAAATTTGTATTCCGAA
66 ATTTCAAGAAAAACAACTTTGAAATTTGTATTCCGAA
486470 GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
1 GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
*
486535 ATTTCTAAGAAAAACAACTTTGAAATTTTTATT
66 ATTTC-AAGAAAAACAACTTTGAAATTTGTATT
486568 TAACGGGAAA
Statistics
Matches: 265, Mismatches: 36, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
102 118 0.45
103 89 0.34
104 58 0.22
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (102 bp):
GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
ATTTCAAGAAAAACAACTTTGAAATTTGTATTCCGAA
Found at i:486496 original size:38 final size:37
Alignment explanation
Indices: 486454--486534 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
486444 AATAACTTTT
** * *
486454 AAATTTGTATTCCGAAGGAAAATGTCTCAAGTGAGACG
1 AAATTTGTATTAAG-AGAAAAATGTCTCAAGTGAGACA
*
486492 AAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACA
1 AAATTTGTATTAAGAGAAAAATGTCTCAAGTGAGACA
486529 AAATTT
1 AAATTT
486535 ATTTCTAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
37 27 0.71
38 11 0.29
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.30
Consensus pattern (37 bp):
AAATTTGTATTAAGAGAAAAATGTCTCAAGTGAGACA
Found at i:486546 original size:36 final size:37
Alignment explanation
Indices: 486472--486548 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
486462 ATTCCGAAGG
* *
486472 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
1 AAAATGTCTCAAGTGAGACAAAATTTATTTTAAGAGA
486509 AAAATGTCTCAAGTGAGACAAAATTTATTTCTAAGA-A
1 AAAATGTCTCAAGTGAGACAAAATTTATTT-TAAGAGA
486546 AAA
1 AAA
486549 CAACTTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 32 0.86
38 5 0.14
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.29
Consensus pattern (37 bp):
AAAATGTCTCAAGTGAGACAAAATTTATTTTAAGAGA
Found at i:487114 original size:15 final size:14
Alignment explanation
Indices: 487080--487123 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
487070 AAGGCGCAAT
*
487080 AATTAAAGGACTAG
1 AATTAAAGGACTAA
*
487094 AATTAAAGTACTAAA
1 AATTAAAGGACT-AA
*
487109 AATTAAGGGACTAA
1 AATTAAAGGACTAA
487123 A
1 A
487124 TGTAATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.55, C:0.07, G:0.16, T:0.23
Consensus pattern (14 bp):
AATTAAAGGACTAA
Found at i:489183 original size:21 final size:21
Alignment explanation
Indices: 489153--489241 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
489143 GGAAACTGTC
*
489153 TCAAGTGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
489174 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
489195 TCAAAGGAG-----A-TTGTC
1 TCAAGGGAGACAAAATTTGTT
*
489210 TGAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
489231 TCAAGGGAGAC
1 TCAAGGGAGAC
489242 TGTCTCAAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
15 11 0.20
16 1 0.02
20 1 0.02
21 42 0.76
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:489216 original size:36 final size:36
Alignment explanation
Indices: 489174--489660 Score: 350
Period size: 36 Copynumber: 13.9 Consensus size: 36
489164 AAAATTTGTT
* *
489174 TCAAGGGAGACAAAATTTGTTTCAAAGGAGATTGTC
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTC
* * *
489210 TGAAGGGAGACAAAATTTGTTTCAAGGGAGACTGTC
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTC
*
489246 TCAAGGGAAACAAAATTTGTTTCAAAGGAAACTGTC
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTC
* * *
489282 TCAAGAGAGACAAAGCTTTGTTTCAAGGGAAACTGTC
1 TCAAGGGAGACAAA-ATTTGTTTCAAAGGAAACTGTC
*
489319 TCTAGGGAGACAAAATTT-TTT-AAAGGGAAACTGTC
1 TCAAGGGAGACAAAATTTGTTTCAAA-GGAAACTGTC
*
489354 TCAAGGGAGACAAAATTTGTTT-AAAGGGAAACTGCC
1 TCAAGGGAGACAAAATTTGTTTCAAA-GGAAACTGTC
**** ** **** * *
489390 TCAAGGGAGACCGTCTCAAGGGAGAAA--AAATTTGTT
1 TCAAGGGAGACAAAAT-TTGTTTCAAAGGAAA-CTGTC
* * * **
489426 TCAA-GG-G---AAA-CTGTCTCAAGGGAGTCTGTC
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTC
*
489456 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTC
* * * *
489492 TCAAGAGAGACAAAACTTTATTTCAAGGGAAACTGCC
1 TCAAGGGAGACAAAA-TTTGTTTCAAAGGAAACTGTC
* * *
489529 TCAAGAGAGATAAAATTTGTTTC-AAGAGAAACTGCC
1 TCAAGGGAGACAAAATTTGTTTCAAAG-GAAACTGTC
* * * *
489565 TCAGGGGAGACAAAATTTGTTCCAAGGGAAACAGAT-
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTG-TC
* *
489601 TCAA---AG-----ATGTTGTTTCAAAAGAAACTGGC
1 TCAAGGGAGACAAAAT-TTGTTTCAAAGGAAACTGTC
* *
489630 TCAAGAGAGACAAAATTTGTTTCAAGGGAAA
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAA
489661 TAGATTTAAA
Statistics
Matches: 355, Mismatches: 68, Indels: 56
0.74 0.14 0.12
Matches are distributed among these distances:
28 2 0.01
29 21 0.06
30 7 0.02
31 3 0.01
32 3 0.01
33 2 0.01
34 3 0.01
35 40 0.11
36 201 0.57
37 70 0.20
38 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (36 bp):
TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTC
Found at i:489221 original size:57 final size:57
Alignment explanation
Indices: 489133--489241 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
489123 CAAGCTAAGG
* *
489133 TTGTTTCAAGGGAAACTGTCTCAAGTGAGACAAAATTTGTTTCAAGGGAGACAAAAT
1 TTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAGACAAAAT
* * *
489190 TTGTTTCAAAGGAGATTGTCTGAAGGGAGACAAAATTTGTTTCAAGGGAGAC
1 TTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAGAC
489242 TGTCTCAAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (57 bp):
TTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAGACAAAAT
Found at i:489259 original size:72 final size:72
Alignment explanation
Indices: 489174--489660 Score: 411
Period size: 72 Copynumber: 6.9 Consensus size: 72
489164 AAAATTTGTT
* * *
489174 TCAAGGGAGACAAAATTTGTTTCAAAGGAGATTGTCTGAAGGGAGACAAAATTTGTTTCAAGGGA
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGA
*
489239 GACTGTC
66 AACTGTC
* * *
489246 TCAAGGGAAACAAAATTTGTTTCAAAGGAAACTGTCTCAAGAGAGACAAAGCTTTGTTTCAAGGG
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAA-ATTTGTTTCAAGGG
489311 AAACTGTC
65 AAACTGTC
* *
489319 TCTAGGGAGACAAAATTT-TTT-AAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGG
1 TCAAGGGAGACAAAATTTGTTTCAAA-GGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGG
*
489382 AAACTGCC
65 AAACTGTC
**** ** **** * * * *
489390 TCAAGGGAGACCGTCTCAAGGGAGAAA--AAATTTGTTTCAA-GG-G---AAA-CTGTCTCAAGG
1 TCAAGGGAGACAAAAT-TTGTTTCAAAGGAAA-CTGTCTCAAGGGAGACAAAATTTGTTTCAAGG
**
489447 GAGTCTGTC
64 GAAACTGTC
* * *
489456 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTATTTCAAGGG
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGG
*
489521 AAACTGCC
65 AAACTGTC
* * * * *
489529 TCAAGAGAGATAAAATTTGTTTC-AAGAGAAACTGCCTCAGGGGAGACAAAATTTGTTCCAAGGG
1 TCAAGGGAGACAAAATTTGTTTCAAAG-GAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGG
*
489593 AAACAGAT-
65 AAACTG-TC
* * *
489601 TCAA---AG-----ATGTTGTTTCAAAAGAAACTGGCTCAAGAGAGACAAAATTTGTTTCAAGGG
1 TCAAGGGAGACAAAAT-TTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGG
489658 AAA
65 AAA
489661 TAGATTTAAA
Statistics
Matches: 330, Mismatches: 66, Indels: 45
0.75 0.15 0.10
Matches are distributed among these distances:
64 2 0.01
65 46 0.14
66 35 0.11
67 7 0.02
68 1 0.00
69 2 0.01
70 1 0.00
71 41 0.12
72 100 0.30
73 92 0.28
74 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (72 bp):
TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGA
AACTGTC
Found at i:489346 original size:108 final size:108
Alignment explanation
Indices: 489174--489660 Score: 335
Period size: 109 Copynumber: 4.6 Consensus size: 108
489164 AAAATTTGTT
* * * *
489174 TCAAGGGAGACAAAATTTGTTTCAAAGGAGATTGTCTGAAGGGAGACAAAATTTGTTTCAAGGGA
1 TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGGA
* *
489239 GACTGTCTCAAGGGAAACAAAATTTGTTTCAAA-GGAAACTGTC
66 AACTGTCTCAAGGGAAACAAAATTTGTTT-AAAGGGAAACTGCC
* * * *
489282 TCAAGAGAGACAAAGCTTTGTTTCAAGGGAAACTGTCTCTAGGGAGACAAAATTT-TTTAAAGGG
1 TCAAGGGAGACAAA-ATTTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGG
*
489346 AAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGGAAACTGCC
65 AAACTGTCTCAAGGGAAACAAAATTTGTTTAAAGGGAAACTGCC
**** ** **** * * * * *
489390 TCAAGGGAGACCGTCTCAAGGGAGAAA--AAATTTGTTTCAA-GG-G---AAA-CTGTCTCAAGG
1 TCAAGGGAGACAAAAT-TTGTTTCAAAGGAAA-CTGTCTCAAGGGAGACAAAATTTGTTTAAAGG
** * * *
489447 GAGTCTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
64 GAAACTGTCTCAAGGGAAACAAAATTTGTTTAAAGGGAAACTGCC
* * * * * * * *
489492 TCAAGAGAGACAAAACTTTATTTCAAGGGAAACTGCCTCAAGAGAGATAAAATTTGTTTCAAGAG
1 TCAAGGGAGACAAAA-TTTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGG
* * * ** * **
489557 AAACTGCCTCAGGGGAGACAAAATTTGTTCCAAGGGAAACAGAT
65 AAACTGTCTCAAGGGAAACAAAATTTGTTTAAAGGGAAACTGCC
* * * *
489601 TCAA---AG-----ATGTTGTTTCAAAAGAAACTGGCTCAAGAGAGACAAAATTTGTTTCAAGGG
1 TCAAGGGAGACAAAAT-TTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGG
489658 AAA
65 AAA
489661 TAGATTTAAA
Statistics
Matches: 298, Mismatches: 66, Indels: 37
0.74 0.16 0.09
Matches are distributed among these distances:
100 1 0.00
101 47 0.16
102 62 0.21
103 7 0.02
104 4 0.01
105 2 0.01
106 7 0.02
107 11 0.04
108 74 0.25
109 83 0.28
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (108 bp):
TCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGGA
AACTGTCTCAAGGGAAACAAAATTTGTTTAAAGGGAAACTGCC
Found at i:489406 original size:51 final size:51
Alignment explanation
Indices: 489341--489502 Score: 261
Period size: 51 Copynumber: 3.2 Consensus size: 51
489331 AAATTTTTTA
* * *
489341 AAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTAAAGGGAAACTGCCTC
1 AAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTC
* *
489392 AAGGGAGACCGTCTCAAGGGAGAAAAAATTTGTTTCAAGGGAAACTGTCTC
1 AAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTC
*
489443 AAGGGAGTCTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTC
1 AAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTC
*
489494 AAGAGAGAC
1 AAGGGAGAC
489503 AAAACTTTAT
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 101 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (51 bp):
AAGGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTC
Found at i:489464 original size:15 final size:15
Alignment explanation
Indices: 489426--489466 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
489416 AAAATTTGTT
*
489426 TCAAGGGAAACTGTC
1 TCAAGGGAGACTGTC
*
489441 TCAAGGGAGTCTGTC
1 TCAAGGGAGACTGTC
489456 TCAAGGGAGAC
1 TCAAGGGAGAC
489467 AAAATTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.20
Consensus pattern (15 bp):
TCAAGGGAGACTGTC
Found at i:489766 original size:67 final size:65
Alignment explanation
Indices: 489545--489793 Score: 279
Period size: 65 Copynumber: 3.8 Consensus size: 65
489535 GAGATAAAAT
* ** * * *
489545 TTGTTTCAAGAGAAACTGCCTCAGGGGAGACAAAATTTGTTCCAAGGGAAACAG-ATTCAAAGAT
1 TTGTTTCAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAGAATT-AAAGAT
489609 G
65 G
* * ** * *
489610 TTGTTTCAAAAGAAACTGGCTCAAGAGAGACAAAATTTGTTTCAAGGGAAATAGATTTAAAGATG
1 TTGTTTCAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAGAATTAAAGATG
* *
489675 TTGTTTCAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTCATGGGAAACATAATTAAAGATT
1 TTGTTTCAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAGAATTAAAGA-T
*
489740 T
65 G
* *
489741 TGTGTTTCAAG-GAAAATTATCTCAAGGGAGA-AAAACTTTGTTTCAAGAGAAAC
1 T-TGTTTCAAGAGAAAA-TATCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAAC
489794 TGTCTCAAGA
Statistics
Matches: 160, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
65 110 0.69
66 13 0.08
67 37 0.23
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (65 bp):
TTGTTTCAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAGAATTAAAGATG
Found at i:489800 original size:36 final size:35
Alignment explanation
Indices: 489743--489837 Score: 95
Period size: 36 Copynumber: 2.6 Consensus size: 35
489733 AAAGATTTTG
* * *
489743 TGTTTCAAGGAAAATTATCTCAAGGGAGA-AAAACTT
1 TGTTTCAAGG-AAACTGTCTCAAGAGAGACAAAA-TT
489779 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAG-GAAACTGTCTCAAGAGAGACAAAATT
*
489815 CGTTTCAAGGGAAAC-GTTCTCAA
1 TGTTTCAA-GGAAACTG-TCTCAA
489838 ATTTTATGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
35 1 0.02
36 44 0.86
37 6 0.12
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (35 bp):
TGTTTCAAGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:489800 original size:103 final size:102
Alignment explanation
Indices: 489675--489901 Score: 298
Period size: 103 Copynumber: 2.2 Consensus size: 102
489665 TTTAAAGATG
* * *
489675 TTGTTTCAAGAGAAAATATCTCAAGAGAGACAAAATTTGTTTCATGGGAAACATAAT-TAAAGAT
1 TTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAT--TCTAAA-AT
* * *
489739 TTTGTGTTTCAAG-GAAAATTATCTCAAGGGAGA-AAAACT
63 TTTATGTTTCAAGAG-AAACTATCTCAAGGGAGACAAAAAT
* * *
489778 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGTTCTCAAATTTT
1 TTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACATTCTAAAATTTT
489843 ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAAAT
66 ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAAAT
* *
489880 TTTTTTCAAGAGAAACAATCTC
1 TTGTTTCAAGAGAAACTATCTC
489902 GAAGTTTATC
Statistics
Matches: 109, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
101 32 0.29
102 28 0.26
103 49 0.45
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.30
Consensus pattern (102 bp):
TTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACATTCTAAAATTTT
ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAAAT
Found at i:491212 original size:14 final size:14
Alignment explanation
Indices: 491193--491304 Score: 77
Period size: 15 Copynumber: 7.9 Consensus size: 14
491183 TCTTGTCCTC
491193 TTTTTTTTCTTTGT
1 TTTTTTTTCTTTGT
*
491207 TTTTTTCTTTTTTGT
1 TTTTTT-TTCTTTGT
* *
491222 TCTTTGTTCTTTG-
1 TTTTTTTTCTTTGT
491235 -TTTTTTTCTTTG-
1 TTTTTTTTCTTTGT
* *
491247 TTTTTTCTCTTTAAT
1 TTTTTTTTCTTT-GT
* *
491262 TTTTCTTTCTTTCT
1 TTTTTTTTCTTTGT
* *
491276 TTTTCTTTTTTTCTCT
1 TTTT-TTTTCTT-TGT
491292 TTGTTTTTTCTTT
1 TT-TTTTTTCTTT
491305 TCTTTGCTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
12 10 0.13
13 10 0.13
14 17 0.22
15 27 0.35
16 11 0.14
17 2 0.03
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.80
Consensus pattern (14 bp):
TTTTTTTTCTTTGT
Found at i:491219 original size:7 final size:7
Alignment explanation
Indices: 491195--491305 Score: 52
Period size: 7 Copynumber: 15.6 Consensus size: 7
491185 TTGTCCTCTT
491195 TTTTTTC
1 TTTTTTC
491202 TTTGTTT-
1 TTT-TTTC
491209 TTTTCTT-
1 TTTT-TTC
491216 TTTTGTTC
1 TTTT-TTC
*
491224 TTTGTTC
1 TTTTTTC
*
491231 TTTGTTTT
1 TTT-TTTC
*
491239 TTTCTTTG
1 TTT-TTTC
491247 TTTTTTC
1 TTTTTTC
* *
491254 -TCTTTA
1 TTTTTTC
*
491260 ATTTTTC
1 TTTTTTC
491267 TTTCTTTC
1 TTT-TTTC
491275 -TTTTTC
1 TTTTTTC
491281 TTTTTT-
1 TTTTTTC
* *
491287 TCTCTTTG
1 T-TTTTTC
491295 TTTTTTC
1 TTTTTTC
491302 TTTT
1 TTTT
491306 CTTTGCTTCG
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
6 10 0.12
7 48 0.60
8 22 0.28
ACGTcount: A:0.02, C:0.13, G:0.05, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:503149 original size:22 final size:22
Alignment explanation
Indices: 503121--503168 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
503111 TTTTGCAAGA
* * *
503121 ATGATAGATTTTCTTTTTAAAG
1 ATGATAGATTATATTTTCAAAG
503143 ATGATAGATTATATTTTCAAAG
1 ATGATAGATTATATTTTCAAAG
503165 ATGA
1 ATGA
503169 AAACTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (22 bp):
ATGATAGATTATATTTTCAAAG
Found at i:505970 original size:16 final size:15
Alignment explanation
Indices: 505951--505993 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
505941 AGGTAAAATC
505951 ATATATTTAGTCCTTT
1 ATAT-TTTAGTCCTTT
**
505967 ATATTTTTAGTAGTTT
1 ATA-TTTTAGTCCTTT
505983 ATATTTTAGTC
1 ATATTTTAGTC
505994 ATATTCGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (15 bp):
ATATTTTAGTCCTTT
Found at i:507053 original size:60 final size:60
Alignment explanation
Indices: 506950--507063 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
506940 TTTGGGTGAC
* * *
506950 CATTTTATAACTTTTAATAGTCGTGGGACTCAACAAAGAAATATCCTATAGTCAGATGAT
1 CATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGAAATATACTACAGTCAGATGAT
* * *
507010 CATTTTGTAACTTTTAATAGTCGAGGGACTTAATAAA-ATAATATACTACAGTCA
1 CATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGA-AATATACTACAGTCA
507064 AAGAACCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 1 0.02
60 46 0.98
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGAAATATACTACAGTCAGATGAT
Found at i:507085 original size:60 final size:60
Alignment explanation
Indices: 506947--507079 Score: 153
Period size: 60 Copynumber: 2.2 Consensus size: 60
506937 GAGTTTGGGT
* * * * *
506947 GACCATTTTATAACTTTTAATAGTCGTGGGACTCAACAAAGAAATATCCTATAGTCAGAT
1 GACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGAAATATACTACAGTCAGAA
* * *
507007 GATCATTTTGTAACTTTTAATAGTCGAGGGACTTAATAAA-ATAATATACTACAGTCA-AA
1 GACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGA-AATATACTACAGTCAGAA
507066 GAACCATTTGTGTA
1 G-ACCATTT-TGTA
507080 TTTTTACCCT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 3 0.05
60 54 0.89
61 4 0.07
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGAAATATACTACAGTCAGAA
Found at i:508576 original size:36 final size:36
Alignment explanation
Indices: 508529--508610 Score: 164
Period size: 36 Copynumber: 2.3 Consensus size: 36
508519 TGCTGATATA
508529 GTGGAGGAGTTTACAAAATTAGTACAAAAAGGGTCT
1 GTGGAGGAGTTTACAAAATTAGTACAAAAAGGGTCT
508565 GTGGAGGAGTTTACAAAATTAGTACAAAAAGGGTCT
1 GTGGAGGAGTTTACAAAATTAGTACAAAAAGGGTCT
508601 GTGGAGGAGT
1 GTGGAGGAGT
508611 ATCAGAACAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.37, C:0.07, G:0.32, T:0.24
Consensus pattern (36 bp):
GTGGAGGAGTTTACAAAATTAGTACAAAAAGGGTCT
Found at i:513219 original size:11 final size:11
Alignment explanation
Indices: 513205--513230 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
513195 TAATATATAA
513205 TATATATTATT
1 TATATATTATT
513216 TATATATTATT
1 TATATATTATT
513227 TATA
1 TATA
513231 AATTTCGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATATTATT
Found at i:515041 original size:3 final size:3
Alignment explanation
Indices: 515033--515064 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
515023 CATTTTCTAC
515033 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
515065 ACGTGGGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:516250 original size:46 final size:46
Alignment explanation
Indices: 516183--516656 Score: 601
Period size: 46 Copynumber: 10.3 Consensus size: 46
516173 AGTATTGACT
* *
516183 ATGCCATAACTAAAGTGCATGAACGGATCCACTAAGGCATGAAAGG
1 ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
* * *
516229 ATGCCATAAATAAAATGCATGAACGGATGCATTAAGGCATGAAAAG
1 ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
* * * * **
516275 TTGTCATAACT-AAGTGCATGAATGGATGCACTAAGTAATGAAAGG
1 ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
* *
516320 ATGCCATAAATAAAA-GCATGAACGGATGCATTAAGGCATGAAAGG
1 ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
* *
516365 ATGCCATAACTAAAGTGCATGAACAGATGCACTAAGGCATGAAAGG
1 ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
* * *
516411 ATGCCATAAATAAAATGCATGAACGGATGCATTAAGGCATGAAATG
1 ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
* * * **
516457 ATTCCATAACTAAAGTGCATGAATGGATGCACTAAGTAATGAAAGG
1 ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
* * * *
516503 ATGCCATAAATAAAATACATGAACGGATGCATTAAGGCACGAAAGG
1 ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
* *
516549 ATGCCATAACTAAACTGCATGAACGGAAGCACTAAGGCATGAAAGG
1 ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
* * * * * *
516595 ATGTCATAACTAAAATGTATGAACGGATGTATTAATGCATGAAAAG
1 ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
* *
516641 AGGCCATAACTGAAAT
1 ATGCCATAACTAAAAT
516657 TAATGAATAA
Statistics
Matches: 361, Mismatches: 65, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
45 75 0.21
46 286 0.79
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGCCATAACTAAAATGCATGAACGGATGCACTAAGGCATGAAAGG
Found at i:516663 original size:92 final size:92
Alignment explanation
Indices: 516183--516651 Score: 708
Period size: 92 Copynumber: 5.1 Consensus size: 92
516173 AGTATTGACT
*
516183 ATGCCATAACTAAAGTGCATGAACGGATCCACTAAGGCATGAAAGGATGCCATAAATAAAATGCA
1 ATGCCATAACTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAAATAAAATGCA
516248 TGAACGGATGCATTAAGGCATGAAAAG
66 TGAACGGATGCATTAAGGCATGAAAAG
* * * **
516275 TTGTCATAACT-AAGTGCATGAATGGATGCACTAAGTAATGAAAGGATGCCATAAATAAAA-GCA
1 ATGCCATAACTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAAATAAAATGCA
*
516338 TGAACGGATGCATTAAGGCATGAAAGG
66 TGAACGGATGCATTAAGGCATGAAAAG
*
516365 ATGCCATAACTAAAGTGCATGAACAGATGCACTAAGGCATGAAAGGATGCCATAAATAAAATGCA
1 ATGCCATAACTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAAATAAAATGCA
*
516430 TGAACGGATGCATTAAGGCATGAAATG
66 TGAACGGATGCATTAAGGCATGAAAAG
* * ** *
516457 ATTCCATAACTAAAGTGCATGAATGGATGCACTAAGTAATGAAAGGATGCCATAAATAAAATACA
1 ATGCCATAACTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAAATAAAATGCA
* *
516522 TGAACGGATGCATTAAGGCACGAAAGG
66 TGAACGGATGCATTAAGGCATGAAAAG
* * * * *
516549 ATGCCATAACTAAACTGCATGAACGGAAGCACTAAGGCATGAAAGGATGTCATAACTAAAATGTA
1 ATGCCATAACTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAAATAAAATGCA
* *
516614 TGAACGGATGTATTAATGCATGAAAAG
66 TGAACGGATGCATTAAGGCATGAAAAG
*
516641 AGGCCATAACT
1 ATGCCATAACT
516652 GAAATTAATG
Statistics
Matches: 338, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
90 38 0.11
91 90 0.27
92 210 0.62
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (92 bp):
ATGCCATAACTAAAGTGCATGAACGGATGCACTAAGGCATGAAAGGATGCCATAAATAAAATGCA
TGAACGGATGCATTAAGGCATGAAAAG
Found at i:524950 original size:21 final size:21
Alignment explanation
Indices: 524903--524963 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
524893 ACTCCCATGA
*
524903 GGGAACCGATTCCCCCTTTAAAG
1 GGGAACCGATTCCCCC--CAAAG
*
524926 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCAAAG
* *
524947 GGGAATCGATACCCCCC
1 GGGAACCGATTCCCCCC
524964 TGGGGTTCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 18 0.53
23 16 0.47
ACGTcount: A:0.25, C:0.38, G:0.23, T:0.15
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCAAAG
Found at i:526483 original size:2 final size:2
Alignment explanation
Indices: 526476--526517 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
526466 CAAACCAAAC
526476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
526518 TAAGATCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:528599 original size:23 final size:22
Alignment explanation
Indices: 528567--528641 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
528557 TGGCAGTGTT
528567 CATCGATGCACATTCAAGGAGTG
1 CATCGATGCACATTCAAGG-GTG
* * *
528590 CATCGGTGCACCTTC-ATGGTG
1 CATCGATGCACATTCAAGGGTG
*
528611 TATCGATGCACATTCAAAGGGATG
1 CATCGATGCACATTC-AAGGG-TG
528635 CATCGAT
1 CATCGAT
528642 ACATTGTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
21 15 0.37
22 2 0.05
23 16 0.39
24 8 0.20
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (22 bp):
CATCGATGCACATTCAAGGGTG
Found at i:528620 original size:21 final size:22
Alignment explanation
Indices: 528567--528626 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
528557 TGGCAGTGTT
528567 CATCGATGCACATTCAAGGAGTG
1 CATCGATGCACATTC-AGGAGTG
* * *
528590 CATCGGTGCACCTTCATG-GTG
1 CATCGATGCACATTCAGGAGTG
*
528611 TATCGATGCACATTCA
1 CATCGATGCACATTCA
528627 AAGGGATGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 16 0.52
22 2 0.06
23 13 0.42
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (22 bp):
CATCGATGCACATTCAGGAGTG
Found at i:532518 original size:20 final size:20
Alignment explanation
Indices: 532477--532519 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
532467 TTCTTTTCAT
* *
532477 TTTTTAATTTTGAAATATAA
1 TTTTTAATTTTGAAAAACAA
532497 TTTTTATATTTT-AAAAACAA
1 TTTTTA-ATTTTGAAAAACAA
532517 TTT
1 TTT
532520 CTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAACAA
Found at i:534583 original size:65 final size:65
Alignment explanation
Indices: 534448--534607 Score: 225
Period size: 65 Copynumber: 2.5 Consensus size: 65
534438 TGCACCAAGA
* * * *
534448 GTGCATCGATGCATGAAGTGCATTCGATG-TTTCAAACAAGCCAGAGTGCATCGATGCATGGTCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAACAACCCAGAGTGCATCGATGCATGGTAT
* * *
534512 GTGCATCGATGCATAAAATGCATTCAATGTTTTTATAA-AACCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AACAACCCAGAGTGCATCGATGCATGGTA
534576 T
65 T
*
534577 GTGCATCAATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
534608 CAATTTATTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 26 0.31
65 57 0.67
66 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAACAACCCAGAGTGCATCGATGCATGGTAT
Found at i:534649 original size:65 final size:63
Alignment explanation
Indices: 534491--534637 Score: 172
Period size: 65 Copynumber: 2.3 Consensus size: 63
534481 AAACAAGCCA
* * *
534491 GAGTGCATCGATGCATGGTCTGTGCATCGATGCATAAAATGCATTCAATGTTTTTATAAAACCCT
1 GAGTACATCGATGCATGGTATGTGCATCAATGCATAAAATGCATTCAATGTTTTTATAAAA--CT
* * **
534556 GAGTGCATCGATGCATGGTATGTGCATCAATGCATAAAATGCATTCGATGTTCAATTTATTCAA-
1 GAGTACATCGATGCATGGTATGTGCATCAATGCATAAAATGCATTCAATGTT---TTTATAAAAC
534620 T
63 T
534621 G-GTACATCGATGCATGG
1 GAGTACATCGATGCATGG
534638 ATTGGTGCAT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
64 15 0.21
65 51 0.70
68 7 0.10
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (63 bp):
GAGTACATCGATGCATGGTATGTGCATCAATGCATAAAATGCATTCAATGTTTTTATAAAACT
Found at i:535945 original size:7 final size:7
Alignment explanation
Indices: 535933--535959 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
535923 TAAATAATAT
535933 ATATTTA
1 ATATTTA
535940 ATATTTA
1 ATATTTA
535947 ATATTTA
1 ATATTTA
535954 ATATTT
1 ATATTT
535960 TTGTTTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATATTTA
Found at i:544607 original size:7 final size:7
Alignment explanation
Indices: 544584--544651 Score: 72
Period size: 7 Copynumber: 10.1 Consensus size: 7
544574 CCCTAAATTG
544584 AAAAG-A
1 AAAAGAA
544590 AAAAG--
1 AAAAGAA
544595 AAAAGAA
1 AAAAGAA
*
544602 AAAAGAG
1 AAAAGAA
*
544609 AAAAGGA
1 AAAAGAA
544616 AAAAGAA
1 AAAAGAA
544623 AAAAGAA
1 AAAAGAA
544630 AAAA-AA
1 AAAAGAA
*
544636 AAGAAAAA
1 AA-AAGAA
544644 AAAAGAA
1 AAAAGAA
544651 A
1 A
544652 TAAGGTGGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
5 5 0.09
6 9 0.17
7 35 0.66
8 4 0.08
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:544612 original size:14 final size:13
Alignment explanation
Indices: 544589--544651 Score: 67
Period size: 13 Copynumber: 4.7 Consensus size: 13
544579 AATTGAAAAG
544589 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
544602 AAAAGAGAAAAGGAA
1 AAAA-AGAAAA-GAA
544617 AAAGAA-AAAAGAA
1 AAA-AAGAAAAGAA
*
544630 AAAAA-AAAGAAAA
1 AAAAAGAAA-AGAA
544643 AAAAAGAAA
1 AAAAAGAAA
544652 TAAGGTGGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
12 5 0.11
13 18 0.41
14 13 0.30
15 7 0.16
16 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:547574 original size:26 final size:25
Alignment explanation
Indices: 547545--547622 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 25
547535 TTTTTATATA
*
547545 TTTTTATTAGTTATTTTATTTATTTG
1 TTTTT-TTAATTATTTTATTTATTTG
**
547571 TTTTTGTTTCTT-TCTTTATTTATTT-
1 TTTTT-TTAATTAT-TTTATTTATTTG
*
547596 TTCTTTTAATTATTTTA-TTA-TTG
1 TTTTTTTAATTATTTTATTTATTTG
547619 TTTT
1 TTTT
547623 CCATCATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
22 2 0.05
23 6 0.14
24 8 0.19
25 6 0.14
26 20 0.48
ACGTcount: A:0.15, C:0.04, G:0.05, T:0.76
Consensus pattern (25 bp):
TTTTTTTAATTATTTTATTTATTTG
Found at i:551242 original size:13 final size:14
Alignment explanation
Indices: 551224--551253 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
551214 AACATCAAAT
551224 AAAAAAG-AAAAGG
1 AAAAAAGAAAAAGG
551237 AAAAAAGAAAAAGG
1 AAAAAAGAAAAAGG
551251 AAA
1 AAA
551254 GTGCTGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGG
Found at i:552214 original size:91 final size:90
Alignment explanation
Indices: 552063--552684 Score: 849
Period size: 91 Copynumber: 6.9 Consensus size: 90
552053 GAATCAAGAA
* * * *
552063 AAGGTTAAACAAGCTCTT-T-ATTATG-ATTTC-TCTCTCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*
552124 GAACTCTCTACTGGAAATCTTGACCC
66 GAACTCTCCACTGGAAATCTTGA-CC
* * * * *
552150 AAGGTTAAACAAGTTCTTCTTATTATGAGCTTCTTCTCCCTTGTTGGACGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
* ** * *
552215 GAACTCTTCGTTGGAAATGTTGAGCT
66 GAACTCTCCACTGGAAATCTTGA-CC
* * * *
552241 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATAAGTTCTTCTCATCAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
** * *
552306 GAACTCTCCGTTGGAAATATTGACT
66 GAACTCTCCACTGGAAATCTTGACC
* *
552331 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
552396 GAACTCTCCACTGGAAATCTTGAACC
66 GAACTCTCCACTGGAAATCTTG-ACC
* * *
552422 AAGGTTGAACAAGTTCTTCTCATGATAAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
** *
552487 GAACTCTCCGTTGGAAATGC-TGACT
66 GAACTCTCCACTGGAAAT-CTTGACC
552512 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
552577 GAACTCTCCACTGGAAATCTTGAACC
66 GAACTCTCCACTGGAAATCTTG-ACC
** * *
552603 AATATTGAACACGTTCTTCTCATTATGAACTTATTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
552668 GAACTCTCCACTGGAAA
66 GAACTCTCCACTGGAAA
552685 CGTTGATCCC
Statistics
Matches: 479, Mismatches: 48, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
87 17 0.04
88 1 0.00
89 7 0.01
90 165 0.34
91 288 0.60
92 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (90 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATCTTGACC
Found at i:552413 original size:181 final size:181
Alignment explanation
Indices: 552063--552676 Score: 876
Period size: 181 Copynumber: 3.4 Consensus size: 181
552053 GAATCAAGAA
* * * *
552063 AAGGTTAAACAAGCTCTT-T-ATTATG-ATTTC-TCTCTCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*** * * * * *
552124 GAACTCTCTACTGGAAATCTTGACCCAAGGTTAAACAAGTTCTTCTTATTATGAGCTTCTTCTCC
66 GAACTCTCCGTTGGAAATATTGA-CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* * * ** * * *
552189 CTTGTTGGACGAGTTCTTCTCATTATGAACTCTTCGTTGGAAATGTTGAGCT
130 CTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
* * * *
552241 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGGATAAGTTCTTCTCATCAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*
552306 GAACTCTCCGTTGGAAATATTGACTAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCC
66 GAACTCTCCGTTGGAAATATTGACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC
*
552371 TCATTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
131 TCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
* * *
552422 AAGGTTGAACAAGTTCTTCTCATGATAAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
**
552487 GAACTCTCCGTTGGAAATGCTGACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC
66 GAACTCTCCGTTGGAAATATTGACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC
552552 TCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
131 TCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
** * *
552603 AATATTGAACACGTTCTTCTCATTATGAACTTATTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
552668 GAACTCTCC
66 GAACTCTCC
552677 ACTGGAAACG
Statistics
Matches: 388, Mismatches: 44, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
178 16 0.04
179 1 0.00
180 6 0.02
181 320 0.82
182 45 0.12
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (181 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
GAACTCTCCGTTGGAAATATTGACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC
TCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACC
Found at i:552613 original size:272 final size:272
Alignment explanation
Indices: 552093--552684 Score: 943
Period size: 272 Copynumber: 2.2 Consensus size: 272
552083 TTATGATTTC
* * *
552093 TCTCTCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCTACTGGAAATCTTGACCCAAGGTTAA
1 TCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTAA
* * * * * *
552158 ACAAGTTCTTCTTATTATGAGCTTCTTCTCCCTTGTTGGACGAGTTCTTCTCATTATGAACTCTT
66 ACAAGTTCTTCTCATGATAAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTC
* * *
552223 CGTTGGAAATGTTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTGG
131 CGTTGGAAATGCTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGG
** * *
552288 ATAAGTTCTTCTCATCATGAACTCTCCGTTGGAAATATTGACTAAGGTTGAACAAGTTCTTCTCA
196 ATAAGTTCTTCTCATCATGAACTCTCCACTGGAAATATTGACCAAGATTGAACAAGTTCTTCTCA
*
552353 TTATAAACTTCT
261 TTATAAACTTAT
* *
552365 TCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTGA
1 TCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTAA
552430 ACAAGTTCTTCTCATGATAAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTC
66 ACAAGTTCTTCTCATGATAAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTC
552495 CGTTGGAAATGCTGA-CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGG
131 CGTTGGAAATGCTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGG
* * * * *
552559 ATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAATATTGAACACGTTCTTCTC
196 ATAAGTTCTTCTCATCATGAACTCTCCACTGGAAATATTG-ACCAAGATTGAACAAGTTCTTCTC
*
552624 ATTATGAACTTAT
260 ATTATAAACTTAT
552637 TCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAA
1 TCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAA
552685 CGTTGATCCC
Statistics
Matches: 293, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
271 82 0.28
272 211 0.72
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (272 bp):
TCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTAA
ACAAGTTCTTCTCATGATAAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTC
CGTTGGAAATGCTGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGG
ATAAGTTCTTCTCATCATGAACTCTCCACTGGAAATATTGACCAAGATTGAACAAGTTCTTCTCA
TTATAAACTTAT
Found at i:552872 original size:91 final size:91
Alignment explanation
Indices: 552742--552920 Score: 313
Period size: 91 Copynumber: 2.0 Consensus size: 91
552732 GAATCGAGAT
552742 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCAGTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCAGTAT
*
552807 GAACTCTCCACTGGAAATCTTGAACC
66 GAACTCTCCACTAGAAATCTTGAACC
* * *
552833 AAGGTTGAACATGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCAGTAT
*
552898 GAACTCTCCACTAGAAATGTTGA
66 GAACTCTCCACTAGAAATCTTGA
552921 GTTGTTTATC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (91 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCAGTAT
GAACTCTCCACTAGAAATCTTGAACC
Found at i:553438 original size:36 final size:36
Alignment explanation
Indices: 553390--553873 Score: 370
Period size: 36 Copynumber: 13.6 Consensus size: 36
553380 AGATCGGTTT
553390 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCG
* * ** *
553426 TTTCAAGAGAAACAAAT-TC-A-A-AG---ATTTTGTG
1 TTTCAAGGGAAAC-TATCTCAAGAGAGACAAAATT-CG
* * * * **
553457 TTTCAAGAGAAAATGTCTCCAACA-AGACAAAATTTA
1 TTTCAAGGGAAACTATCT-CAAGAGAGACAAAATTCG
* * *
553493 TTTCAAGGGCAACTGTCTCAAGAGAGACAAAACTCG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCG
* *
553529 TTTCAAGGGAAACT-TCCTCAAGAAAGACAAAACTCG
1 TTTCAAGGGAAACTAT-CTCAAGAGAGACAAAATTCG
* * * *
553565 TTTCAAGGGAAACTGTCTCAAGTGAGATAAAATTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCG
* ****
553601 TTTCAAGGGAAACAATCTC-A-A-AG--ATTGGT-G
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCG
** *
553631 TTTCAAGGGAAACTGCCTCAAGAGAGACAAAATCTTCTA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA--TTC-G
* * *
553670 TTTCGAGGGAAACTATCTCAAGCGAGATAAAATATTCTG
1 TTTCAAGGGAAACTATCTCAAGAGAGA-CAAA-ATTC-G
* *
553709 TTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCG
* *
553745 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTCG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCG
* * * *
553781 TTTCAAGGGAAACTGTCTCAAGAAAGACAAAACTAG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCG
* *
553817 TTTCAAGGGAAAC-AGTCTCAAGTGAGACAAAATTTG
1 TTTCAAGGGAAACTA-TCTCAAGAGAGACAAAATTCG
* *
553853 TTTCAAAGGAAACAATCTCAA
1 TTTCAAGGGAAACTATCTCAA
553874 ATATTGGTGT
Statistics
Matches: 361, Mismatches: 62, Indels: 50
0.76 0.13 0.11
Matches are distributed among these distances:
30 21 0.06
31 17 0.05
32 2 0.01
33 7 0.02
34 4 0.01
35 8 0.02
36 232 0.64
37 11 0.03
38 3 0.01
39 52 0.14
40 3 0.01
41 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (36 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCG
Done.